BLASTP 2.2.21 [Jun-14-2009]

Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0020.0002.p         (1151 letters)

Database: pfamseq 
           15,929,002 sequences; 5,169,768,107 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

D8J0F7.1 D8J0F7_HERSS Transcription-repair ATP-dependent couplin...  2061   0.0  
A6SXV1.1 A6SXV1_JANMA Transcription-repair coupling factor (Supe...  2014   0.0  
A4G6C7.1 A4G6C7_HERAR Transcription-repair-coupling factor (TRCF...  2004   0.0  
F1W4H8.1 F1W4H8_9BURK Transcription-repair coupling factor           1974   0.0  
C3X222.1 C3X222_OXAFO Transcription-repair coupling factor           1849   0.0  

>D8J0F7.1 D8J0F7_HERSS Transcription-repair ATP-dependent coupling factor
            (Helicase superfamily II) protein
          Length = 1145

 Score = 2061 bits (5341), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 1006/1151 (87%), Positives = 1077/1151 (93%), Gaps = 6/1151 (0%)

Query: 1    MSFDLKKSLPKPGARFVPPAPHGSADAYLLAQAAIALKAEKRMLTVVVANATDAQRLLSE 60
            MSFD KKSLPK G RF PPA HGSADAYLLAQAA+ALKAE RML VVVA ATDAQRLL+E
Sbjct: 1    MSFDPKKSLPKAGIRFQPPAVHGSADAYLLAQAALALKAEGRMLAVVVAGATDAQRLLAE 60

Query: 61   IPWFQRPVEGSDGGDKLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQNGQCDVLIV 120
            IPWFQ P EG    ++LRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQ+GQCD+LIV
Sbjct: 61   IPWFQ-PSEG----ERLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIV 115

Query: 121  PATTALLRMAPPGFLAAYTFFFKQGEKLDEARLKSQLTLAGYTHVTQVMSPGEYSVRGGL 180
            PATTALLRMAPP FLAAYTFFFKQGEKLDE +LKSQLTLAGYTHV QVMSPGEYSVRGGL
Sbjct: 116  PATTALLRMAPPQFLAAYTFFFKQGEKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGL 175

Query: 181  IDIFPMGSALPYRLDLFGDIIETIRTFDADTQRSLYPVREVRLLPGREFPMDEISRSAFR 240
            IDIFPMGS LPYRLDLFGD IETIRTFDADTQRSLYPV EVRLLPGREFPMDE SR AFR
Sbjct: 176  IDIFPMGSVLPYRLDLFGDTIETIRTFDADTQRSLYPVPEVRLLPGREFPMDEASRLAFR 235

Query: 241  SRWREVFEGDPSRSAIYKDIGNGIASAGIEYYLPLFFEETATLFRYLPENSMFATVGDID 300
            +RWREVFEGDPSRSAIYKDIGNGIASAGIEYYLPLFFEETATLF+YLP N+MFATVGDI+
Sbjct: 236  NRWREVFEGDPSRSAIYKDIGNGIASAGIEYYLPLFFEETATLFQYLPANAMFATVGDIE 295

Query: 301  QAIKRFWSDTRSRHNFLKADRERPVLAPEQVFLTDEDFFTLVKPYGRWVLQTDDTPSALS 360
            QAIKRFWSDTRSR NFL ADRERPVL P+ ++L DEDFFTL+KP+ RWVL+TDD PSA+S
Sbjct: 296  QAIKRFWSDTRSRWNFLHADRERPVLEPQAIYLDDEDFFTLLKPHARWVLKTDDAPSAIS 355

Query: 361  APIPNVAVNRRTDDPLTNLRAYLLKTGKRVMLCAESNGRRETLQQYFAEYDLHPALCDGY 420
            AP+PN+AVNRR DDPL NLR++LLK  +RV++CAESNGRRETLQQYFAEYDLHP LC+ +
Sbjct: 356  APLPNIAVNRRADDPLVNLRSFLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDW 415

Query: 421  DSFIGNSEPLMLGVAPLHAGFELEQEQVAFITETELYAGSGRRVGRKKQENVTQVEHMVR 480
            + F+ + EPLMLGVAPLHAGF +    +A +TETELYAGSGRRVG +KQ+  T VE+MVR
Sbjct: 416  NGFLASDEPLMLGVAPLHAGF-VTAAGLALVTETELYAGSGRRVGSRKQQAATDVEYMVR 474

Query: 481  DLSELKIGDPVVHANHGIGRYMGLLSMDLGEGETEFLHLEYAKETKLYVPVSQLHVIARY 540
            DLSELKIGDPVVH++HGIGRYMGL+SMDLGEGETEFLHLEYAKETKLYVPVSQLHVI+RY
Sbjct: 475  DLSELKIGDPVVHSSHGIGRYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRY 534

Query: 541  SGASPEDAPLHSLGSGQWEKAKRKAAQQIRDTAAELLNLYARRALRQGHAFQYSARDYET 600
            SGASPEDAPLH+LGSGQWEKAKRKAAQQ+RDTAAELLNLYARRALRQGHAFQYSA DYE 
Sbjct: 535  SGASPEDAPLHALGSGQWEKAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEA 594

Query: 601  FAESFGFEETPDQAAAINAVIGDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQV 660
            FA+SFGFEET DQAAAINAVI DMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQV
Sbjct: 595  FADSFGFEETADQAAAINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQV 654

Query: 661  AILAPTTLLAEQHAQTFADRFANWPVRIAELSRFRTGKEITQAIKGMADGTLDIIIGTHK 720
            AILAPTTLLAEQHA TFADRFANWPV+IAELSRFRTGKE+TQAIKG+ DGT+DI+IGTHK
Sbjct: 655  AILAPTTLLAEQHAATFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHK 714

Query: 721  LLSDDVKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRD 780
            LLSD+VKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRD
Sbjct: 715  LLSDEVKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRD 774

Query: 781  FSIIATAPQKRLAIKTFVRAEGESTIREACLRELKRGGQVYFLHNEVDTIENRKAMLEAL 840
            FS+IATAPQKRLAIKTFVRAE ESTIREACLRELKRGGQVYFLHNEV+TI NRKA LE L
Sbjct: 775  FSVIATAPQKRLAIKTFVRAEQESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQL 834

Query: 841  LPEARVVIAHGQMHERDLEKVMRDFVAQRSNILLCTTIIETGIDVPTANTIIMHRADKFG 900
            LPEAR+ +AHGQMHERDLEKVMRDFVAQR NILLCTTIIETGIDVPTANTIIMHRADKFG
Sbjct: 835  LPEARIGVAHGQMHERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFG 894

Query: 901  LAQLHQLRGRVGRSHHQAYAYLLVNDVKGLTKQAQRRLEAIQQMEELGSGFYLAMHDLEI 960
            LAQLHQLRGRVGRSHHQAYAYLLV DV+GL+KQAQRRLEAIQQMEELGSGFYLAMHDLEI
Sbjct: 895  LAQLHQLRGRVGRSHHQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEI 954

Query: 961  RGAGEVLGDSQSGEMHEIGFQMYSDMLSEAVRALKDGREPDLAAPLASTTEINLHVPALL 1020
            RGAGEVLGD QSGE+HEIGFQMYSDML+EAVRALKDGREPDLAAPL++TTEINLH PALL
Sbjct: 955  RGAGEVLGDHQSGEIHEIGFQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALL 1014

Query: 1021 PNDYCGDVHERLSLYKRFANCTSQDTIDALQEELIDRFGKLPEVAKALVETHRLRIAAKP 1080
            PND+CGDVHERLSLYKR ANC   D IDALQEELIDRFGKLP+ AKAL+ETHRLRIAAKP
Sbjct: 1015 PNDFCGDVHERLSLYKRLANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKP 1074

Query: 1081 LGIIKIDAHAESALLQFVPNPPVDAMRIIELIQKNRHIKLNGQDKLRITANMPDLNARVT 1140
            LGIIKIDAH+E+ALLQFVPNPP+DAMRIIEL+QKNR +KLNG DKLRITA+MPDLNARV 
Sbjct: 1075 LGIIKIDAHSEAALLQFVPNPPIDAMRIIELVQKNRQVKLNGPDKLRITASMPDLNARVQ 1134

Query: 1141 QIKATMRSLVG 1151
            Q+KATM++L G
Sbjct: 1135 QVKATMKALTG 1145


>A6SXV1.1 A6SXV1_JANMA Transcription-repair coupling factor (Superfamily II
            helicase)
          Length = 1147

 Score = 2014 bits (5218), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 964/1153 (83%), Positives = 1059/1153 (91%), Gaps = 8/1153 (0%)

Query: 1    MSFDLKKSLPKPGARFVPPAPHGSADAYLLAQAAIALKAEKRMLTVVVANATDAQRLLSE 60
            MSFDLKKSLPKP  RFV P  HGSADA++LAQAA  LK++KRMLTVVVANA+DAQRLL+E
Sbjct: 1    MSFDLKKSLPKPATRFVLPPVHGSADAFVLAQAAAELKSQKRMLTVVVANASDAQRLLAE 60

Query: 61   IPWFQRPVEGSDGGDKLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQNGQCDVLIV 120
            IPWF     GS+  ++LRCHLLPDWETLPYDAFSPHQDLVSERLATLYEV NGQCDVLIV
Sbjct: 61   IPWF-----GSEP-NELRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVLNGQCDVLIV 114

Query: 121  PATTALLRMAPPGFLAAYTFFFKQGEKLDEARLKSQLTLAGYTHVTQVMSPGEYSVRGGL 180
            PATTAL+RMAPP FLA+YTFFFKQGE LDEA+LK+QL LAGY+ V QVMSPGEYSVRGGL
Sbjct: 115  PATTALVRMAPPAFLASYTFFFKQGETLDEAKLKAQLQLAGYSPVKQVMSPGEYSVRGGL 174

Query: 181  IDIFPMGSALPYRLDLFGDIIETIRTFDADTQRSLYPVREVRLLPGREFPMDEISRSAFR 240
            IDI+PMGS LPYR+DLFGD I++IRTFDAD+QRSLYPV+EVRLLP REFPMDE +R+AFR
Sbjct: 175  IDIYPMGSVLPYRIDLFGDTIDSIRTFDADSQRSLYPVKEVRLLPAREFPMDEEARTAFR 234

Query: 241  SRWREVFEGDPSRSAIYKDIGNGIASAGIEYYLPLFFEETATLFRYLPENSMFATVGDID 300
             RWRE+FEGDPSRS IYKDIG+GIASAGIEYYLPLFFE+T TLF YLP ++ FA +GDI+
Sbjct: 235  GRWREIFEGDPSRSVIYKDIGSGIASAGIEYYLPLFFEQTNTLFDYLPADTTFALIGDIE 294

Query: 301  QAIKRFWSDTRSRHNFLKADRERPVLAPEQVFLTDEDFFTLVKPYGRWVLQTDDTPSALS 360
             AIKRFW DT+SR+ FLK+DRERP+LAPEQ+FL+DE+FFTL KPYGRW++Q  D  S LS
Sbjct: 295  AAIKRFWDDTQSRYRFLKSDRERPILAPEQIFLSDENFFTLAKPYGRWIIQNQDVASELS 354

Query: 361  APIPNVAVNRRTDDPLTNLRAYLLKTGKRVMLCAESNGRRETLQQYFAEYDLHPALCDGY 420
            AP+PN+AVNRR DDPL NLRAYLL+T KRVM+CAESNGRRETLQQYF EYDL  A  +G+
Sbjct: 355  APLPNIAVNRRADDPLVNLRAYLLQTDKRVMICAESNGRRETLQQYFNEYDLPLAATEGF 414

Query: 421  DSFIGNSEPLMLGVAPLHAGFELEQE--QVAFITETELYAGSGRRVGRKKQENVTQVEHM 478
              F   S  LMLGVAP+HAGFEL      +AFITETELYAGSGRRVG KKQE  TQVE M
Sbjct: 415  ADFSSASAKLMLGVAPMHAGFELGNALGGLAFITETELYAGSGRRVGSKKQEGATQVESM 474

Query: 479  VRDLSELKIGDPVVHANHGIGRYMGLLSMDLGEGETEFLHLEYAKETKLYVPVSQLHVIA 538
            VRDLSELKIGDPVVH NHGIGRYMGL SMDLGEGETEFLHLEYAK+TKLYVPVSQLHVI+
Sbjct: 475  VRDLSELKIGDPVVHVNHGIGRYMGLTSMDLGEGETEFLHLEYAKDTKLYVPVSQLHVIS 534

Query: 539  RYSGASPEDAPLHSLGSGQWEKAKRKAAQQIRDTAAELLNLYARRALRQGHAFQYSARDY 598
            RYSGASPEDAPLH+LGSGQWEKAKR+AA++IRDTAAELLNLYARRALR+GH+F+YSA DY
Sbjct: 535  RYSGASPEDAPLHALGSGQWEKAKRRAAEKIRDTAAELLNLYARRALREGHSFEYSAHDY 594

Query: 599  ETFAESFGFEETPDQAAAINAVIGDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGK 658
            E FAESFGFEET DQAAAINAVI DMT GKPMDRLICGDVGFGKTEVALRAAFVAV+GGK
Sbjct: 595  EAFAESFGFEETADQAAAINAVIKDMTSGKPMDRLICGDVGFGKTEVALRAAFVAVLGGK 654

Query: 659  QVAILAPTTLLAEQHAQTFADRFANWPVRIAELSRFRTGKEITQAIKGMADGTLDIIIGT 718
            QVAILAPTTLLAEQHAQTFADRFA+WPVRIAELSRFRT KE+TQAIKGMADGT+DI+IGT
Sbjct: 655  QVAILAPTTLLAEQHAQTFADRFADWPVRIAELSRFRTAKEVTQAIKGMADGTIDIVIGT 714

Query: 719  HKLLSDDVKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGL 778
            HKLLS D+KFSRLGLVIIDEEHRFGVRQKEALK+LRAEVDVLTLTATPIPRTLGMALEGL
Sbjct: 715  HKLLSGDIKFSRLGLVIIDEEHRFGVRQKEALKALRAEVDVLTLTATPIPRTLGMALEGL 774

Query: 779  RDFSIIATAPQKRLAIKTFVRAEGESTIREACLRELKRGGQVYFLHNEVDTIENRKAMLE 838
            RDFSIIATAPQKRLAIKTFVR+E +S IREACLRELKRGGQVYFLHNEV+TI+NRKAMLE
Sbjct: 775  RDFSIIATAPQKRLAIKTFVRSENDSVIREACLRELKRGGQVYFLHNEVETIQNRKAMLE 834

Query: 839  ALLPEARVVIAHGQMHERDLEKVMRDFVAQRSNILLCTTIIETGIDVPTANTIIMHRADK 898
             L+PEAR+ +AHGQ+HERDLE++MRDFVAQR NILLCTTIIETGIDVPTANTIIMHRADK
Sbjct: 835  ELMPEARIGVAHGQLHERDLERIMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADK 894

Query: 899  FGLAQLHQLRGRVGRSHHQAYAYLLVNDVKGLTKQAQRRLEAIQQMEELGSGFYLAMHDL 958
            FGLAQLHQLRGRVGRSHHQAYAYLLV+DV+GL+K AQRRL+AIQQMEELGSGFYLAMHDL
Sbjct: 895  FGLAQLHQLRGRVGRSHHQAYAYLLVHDVQGLSKLAQRRLDAIQQMEELGSGFYLAMHDL 954

Query: 959  EIRGAGEVLGDSQSGEMHEIGFQMYSDMLSEAVRALKDGREPDLAAPLASTTEINLHVPA 1018
            EIRGAGEVLGD+QSGEM EIGFQ+YSDML+EAVR+LK+G+EPDLAAPLASTTEINLHVPA
Sbjct: 955  EIRGAGEVLGDNQSGEMSEIGFQLYSDMLNEAVRSLKNGKEPDLAAPLASTTEINLHVPA 1014

Query: 1019 LLPNDYCGDVHERLSLYKRFANCTSQDTIDALQEELIDRFGKLPEVAKALVETHRLRIAA 1078
            LLPN YCGDVHERLS+YKR ANC + D I+ LQEELIDRFGKLP+ A+ALVETHRLR+AA
Sbjct: 1015 LLPNTYCGDVHERLSIYKRLANCKTADAINDLQEELIDRFGKLPDAAQALVETHRLRVAA 1074

Query: 1079 KPLGIIKIDAHAESALLQFVPNPPVDAMRIIELIQKNRHIKLNGQDKLRITANMPDLNAR 1138
             P+GIIKIDAHAESA LQF PNPP+DAMRIIELIQKNRHIKLNGQDKLRITA+MPDL AR
Sbjct: 1075 IPVGIIKIDAHAESATLQFEPNPPIDAMRIIELIQKNRHIKLNGQDKLRITASMPDLAAR 1134

Query: 1139 VTQIKATMRSLVG 1151
            V+QIK T+R+L+ 
Sbjct: 1135 VSQIKNTIRALLA 1147


>A4G6C7.1 A4G6C7_HERAR Transcription-repair-coupling factor (TRCF)
            (ATP-dependent helicase Mfd) EC=3.6.1.-
          Length = 1148

 Score = 2004 bits (5193), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 958/1152 (83%), Positives = 1057/1152 (91%), Gaps = 7/1152 (0%)

Query: 1    MSFDLKKSLPKPGARFVPPAPHGSADAYLLAQAAIALKAEKRMLTVVVANATDAQRLLSE 60
            MSFDLKKSLPKP +RFV PA HGSADAY+LAQAA  LK++KRML VVVANA+DAQRLL+E
Sbjct: 1    MSFDLKKSLPKPASRFVLPAVHGSADAYVLAQAAAELKSQKRMLAVVVANASDAQRLLAE 60

Query: 61   IPWFQRPVEGSDGGDKLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQNGQCDVLIV 120
            IPWF       +G +K RCHLLPDWETLPYDAFSPHQDLVSERLATLYEV NGQCDVLIV
Sbjct: 61   IPWFT-----GEGQEKPRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVLNGQCDVLIV 115

Query: 121  PATTALLRMAPPGFLAAYTFFFKQGEKLDEARLKSQLTLAGYTHVTQVMSPGEYSVRGGL 180
            PATTAL+RMAPP FLA+YTFFFKQGEKLDEA+LK+QL LAGY+ V QVMSPGEYSVRGGL
Sbjct: 116  PATTALVRMAPPAFLASYTFFFKQGEKLDEAKLKAQLQLAGYSPVKQVMSPGEYSVRGGL 175

Query: 181  IDIFPMGSALPYRLDLFGDIIETIRTFDADTQRSLYPVREVRLLPGREFPMDEISRSAFR 240
            IDIFPMG+ LPYR+DLFGD I+TIRTFDADTQRSLYPVREVRLLP REFPMDE +R+ FR
Sbjct: 176  IDIFPMGAVLPYRIDLFGDTIDTIRTFDADTQRSLYPVREVRLLPAREFPMDEEARTTFR 235

Query: 241  SRWREVFEGDPSRSAIYKDIGNGIASAGIEYYLPLFFEETATLFRYLPENSMFATVGDID 300
             RWRE+FEGDPSRS IYKDIG+GIASAGIEYYLPLFFEET TLF YLP ++ FA VGDID
Sbjct: 236  GRWREIFEGDPSRSMIYKDIGSGIASAGIEYYLPLFFEETKTLFDYLPPDTTFALVGDID 295

Query: 301  QAIKRFWSDTRSRHNFLKADRERPVLAPEQVFLTDEDFFTLVKPYGRWVLQTDDTPSALS 360
            +AI+RFWSDT+SR++FLK+DRERP+LAPEQ+FL+DE+FFTL KP+GRWV+Q++D  S LS
Sbjct: 296  EAIRRFWSDTQSRYSFLKSDRERPLLAPEQIFLSDENFFTLAKPFGRWVIQSEDVASELS 355

Query: 361  APIPNVAVNRRTDDPLTNLRAYLLKTGKRVMLCAESNGRRETLQQYFAEYDLHPALCDGY 420
            A +PN+AVNRR DDPL NLR++LL+T KRV++CAESNGRRETLQQYF EY+L     D +
Sbjct: 356  ASLPNIAVNRRADDPLVNLRSWLLQTDKRVLICAESNGRRETLQQYFNEYNLALTPADDF 415

Query: 421  DSFIGNSEPLMLGVAPLHAGFELEQE--QVAFITETELYAGSGRRVGRKKQENVTQVEHM 478
              F   S  LMLGVAP+HAGFEL      +AFITETELYAGSGRR+G KKQE  TQVE M
Sbjct: 416  ADFSTASAKLMLGVAPMHAGFELGAALGGLAFITETELYAGSGRRIGSKKQEGATQVEAM 475

Query: 479  VRDLSELKIGDPVVHANHGIGRYMGLLSMDLGEGETEFLHLEYAKETKLYVPVSQLHVIA 538
            VRDLSELKIGDPVVH NHGIGRYMGL SMDLGEGETEFLHLEYAK+TKLYVPVSQLHVI+
Sbjct: 476  VRDLSELKIGDPVVHVNHGIGRYMGLTSMDLGEGETEFLHLEYAKDTKLYVPVSQLHVIS 535

Query: 539  RYSGASPEDAPLHSLGSGQWEKAKRKAAQQIRDTAAELLNLYARRALRQGHAFQYSARDY 598
            RYSGASPEDAPLH+LGSGQWEKAKR+AA++IRDTAAELLNLYARRALR+GH+F+YSA DY
Sbjct: 536  RYSGASPEDAPLHALGSGQWEKAKRRAAEKIRDTAAELLNLYARRALREGHSFEYSAHDY 595

Query: 599  ETFAESFGFEETPDQAAAINAVIGDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGK 658
              FA+SFGFEET DQAAAINAVI DMT GKPMDRLICGDVGFGKTEVALRAAF+AV+GGK
Sbjct: 596  AAFADSFGFEETVDQAAAINAVIQDMTSGKPMDRLICGDVGFGKTEVALRAAFIAVLGGK 655

Query: 659  QVAILAPTTLLAEQHAQTFADRFANWPVRIAELSRFRTGKEITQAIKGMADGTLDIIIGT 718
            QVAILAPTTLLAEQHAQTFADRFA+WPVRIAELSRFR+GKEITQA+KGMADGT+DI+IGT
Sbjct: 656  QVAILAPTTLLAEQHAQTFADRFADWPVRIAELSRFRSGKEITQAMKGMADGTIDIVIGT 715

Query: 719  HKLLSDDVKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGL 778
            HKLLS D KFSRLGLVIIDEEHRFGVRQKE LK+LRAEVDVLTLTATPIPRTLGMALEGL
Sbjct: 716  HKLLSADTKFSRLGLVIIDEEHRFGVRQKETLKALRAEVDVLTLTATPIPRTLGMALEGL 775

Query: 779  RDFSIIATAPQKRLAIKTFVRAEGESTIREACLRELKRGGQVYFLHNEVDTIENRKAMLE 838
            RDFSIIATAPQKRLAIKTFVR+E  S IREACLRELKRGGQVYFLHNEV+TIENRKAMLE
Sbjct: 776  RDFSIIATAPQKRLAIKTFVRSENASVIREACLRELKRGGQVYFLHNEVETIENRKAMLE 835

Query: 839  ALLPEARVVIAHGQMHERDLEKVMRDFVAQRSNILLCTTIIETGIDVPTANTIIMHRADK 898
             L+PEAR+ +AHGQ+HERDLE++MRDFVAQR NILLCTTIIETGIDVPTANTIIMHRADK
Sbjct: 836  ELMPEARIGVAHGQLHERDLERIMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADK 895

Query: 899  FGLAQLHQLRGRVGRSHHQAYAYLLVNDVKGLTKQAQRRLEAIQQMEELGSGFYLAMHDL 958
            FGLAQLHQLRGRVGRSHHQAYAYLLV+DV+GL+K AQRRL+AIQQMEELGSGFYLAMHDL
Sbjct: 896  FGLAQLHQLRGRVGRSHHQAYAYLLVHDVQGLSKLAQRRLDAIQQMEELGSGFYLAMHDL 955

Query: 959  EIRGAGEVLGDSQSGEMHEIGFQMYSDMLSEAVRALKDGREPDLAAPLASTTEINLHVPA 1018
            EIRGAGEVLGD+QSGEM EIGFQ+YSDML+EAVR+LK+G+EPDLAAPLA+TTEINLHVPA
Sbjct: 956  EIRGAGEVLGDNQSGEMTEIGFQLYSDMLNEAVRSLKNGKEPDLAAPLATTTEINLHVPA 1015

Query: 1019 LLPNDYCGDVHERLSLYKRFANCTSQDTIDALQEELIDRFGKLPEVAKALVETHRLRIAA 1078
            LLP+ YCGDVHERLS+YKR ANC +QD ++ LQEELIDRFGKLP+ A+ALVETHRLR+AA
Sbjct: 1016 LLPSTYCGDVHERLSIYKRLANCKTQDAVNDLQEELIDRFGKLPDAAQALVETHRLRVAA 1075

Query: 1079 KPLGIIKIDAHAESALLQFVPNPPVDAMRIIELIQKNRHIKLNGQDKLRITANMPDLNAR 1138
             P+GIIKIDAHAESA LQF PNPP+DAMRIIELIQKNRHIKL+GQDKLRITANMPDL AR
Sbjct: 1076 VPVGIIKIDAHAESATLQFEPNPPIDAMRIIELIQKNRHIKLSGQDKLRITANMPDLAAR 1135

Query: 1139 VTQIKATMRSLV 1150
            V QIK T+R+L+
Sbjct: 1136 VLQIKNTIRALL 1147


>F1W4H8.1 F1W4H8_9BURK Transcription-repair coupling factor
          Length = 1120

 Score = 1974 bits (5114), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 948/1125 (84%), Positives = 1030/1125 (91%), Gaps = 7/1125 (0%)

Query: 29   LLAQAAIALKAEKRMLTVVVANATDAQRLLSEIPWFQRPVEGSDGGDKLRCHLLPDWETL 88
            +LAQA  ALKA+ +ML +VVANA DAQRLL+EIPWF       +G   LRCHLLPDWETL
Sbjct: 1    MLAQAGAALKAQNKMLAIVVANAADAQRLLTEIPWF-----AQEGEPALRCHLLPDWETL 55

Query: 89   PYDAFSPHQDLVSERLATLYEVQNGQCDVLIVPATTALLRMAPPGFLAAYTFFFKQGEKL 148
            PYDAFSPHQDLVSERLATLYE+QNGQCDVLIVPATTAL+RMAPP FLAAYTFFFKQGE L
Sbjct: 56   PYDAFSPHQDLVSERLATLYEMQNGQCDVLIVPATTALVRMAPPSFLAAYTFFFKQGEVL 115

Query: 149  DEARLKSQLTLAGYTHVTQVMSPGEYSVRGGLIDIFPMGSALPYRLDLFGDIIETIRTFD 208
            DEARLK+QL+LAGYT V+QVMSPGEYSVRGGLID+FPMGSALPYR+DLFGD IETIRTFD
Sbjct: 116  DEARLKTQLSLAGYTPVSQVMSPGEYSVRGGLIDLFPMGSALPYRIDLFGDTIETIRTFD 175

Query: 209  ADTQRSLYPVREVRLLPGREFPMDEISRSAFRSRWREVFEGDPSRSAIYKDIGNGIASAG 268
            ADTQRSLYPVREVRLLPGREFPMD+++R+AFR RWREVFEGDPSRS++YKDIGNGIA+AG
Sbjct: 176  ADTQRSLYPVREVRLLPGREFPMDDLARTAFRGRWREVFEGDPSRSSVYKDIGNGIAAAG 235

Query: 269  IEYYLPLFFEETATLFRYLPENSMFATVGDIDQAIKRFWSDTRSRHNFLKADRERPVLAP 328
            IEYYLPLFFE+T TLF YLP ++ FA  GDID AI RFW+DTRSRHNFLK+DRERP+L+P
Sbjct: 236  IEYYLPLFFEDTRTLFDYLPGDTTFALSGDIDGAIGRFWNDTRSRHNFLKSDRERPILSP 295

Query: 329  EQVFLTDEDFFTLVKPYGRWVLQTDDTPSALSAPIPNVAVNRRTDDPLTNLRAYLLKTGK 388
            E++FLTDE+FFT  K +GRW+L  DD PS LSAP+PN+AVNRR+DDPL NLR+YLL + K
Sbjct: 296  EKLFLTDEEFFTRAKSFGRWILHADDQPSELSAPLPNIAVNRRSDDPLINLRSYLLYSAK 355

Query: 389  RVMLCAESNGRRETLQQYFAEYDLHPALCDGYDSFIGNSEPLMLGVAPLHAGFELEQE-- 446
            RVM+CAE+NGRRETLQQYF EY L    C+GY  F+  S  LMLGVAP+HAGFEL +   
Sbjct: 356  RVMICAETNGRRETLQQYFNEYQLDLTPCEGYAGFVNGSAKLMLGVAPMHAGFELGEALG 415

Query: 447  QVAFITETELYAGSGRRVGRKKQENVTQVEHMVRDLSELKIGDPVVHANHGIGRYMGLLS 506
             V FITETELYAGSGRRVG KKQE  TQVE MVRDLSELKIGDPVVH+NHGIGRYMGL+S
Sbjct: 416  NVVFITETELYAGSGRRVGHKKQEAATQVESMVRDLSELKIGDPVVHSNHGIGRYMGLVS 475

Query: 507  MDLGEGETEFLHLEYAKETKLYVPVSQLHVIARYSGASPEDAPLHSLGSGQWEKAKRKAA 566
            MDLGEGETEFL+L+YAKE KLYVPVSQLHVI+RYSGASPEDAPLHSLGSGQWEKAKR+AA
Sbjct: 476  MDLGEGETEFLYLDYAKEAKLYVPVSQLHVISRYSGASPEDAPLHSLGSGQWEKAKRRAA 535

Query: 567  QQIRDTAAELLNLYARRALRQGHAFQYSARDYETFAESFGFEETPDQAAAINAVIGDMTG 626
            QQIRDTAAELLNLYARRALR+GHAF++SA DY  FA+SFGFEET DQAAAINAVIGDMT 
Sbjct: 536  QQIRDTAAELLNLYARRALRKGHAFEFSAHDYANFADSFGFEETVDQAAAINAVIGDMTS 595

Query: 627  GKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHAQTFADRFANWPV 686
            GKPMDRLICGDVGFGKTEVALRA FVAV+GGKQVAILAPTTLLAEQHAQTFADRFA+WPV
Sbjct: 596  GKPMDRLICGDVGFGKTEVALRATFVAVLGGKQVAILAPTTLLAEQHAQTFADRFADWPV 655

Query: 687  RIAELSRFRTGKEITQAIKGMADGTLDIIIGTHKLLSDDVKFSRLGLVIIDEEHRFGVRQ 746
            +IAELSRFR+GKEI  A+KGMADGTLDI+IGTHKLLSDDVKF RLGLVIIDEEHRFGVRQ
Sbjct: 656  KIAELSRFRSGKEINTAMKGMADGTLDIVIGTHKLLSDDVKFERLGLVIIDEEHRFGVRQ 715

Query: 747  KEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSIIATAPQKRLAIKTFVRAEGESTI 806
            KEALK+LRAEVDVLTLTATPIPRTLGMALEGLRDFSIIATAPQKRLAIKTFVR+EGES I
Sbjct: 716  KEALKALRAEVDVLTLTATPIPRTLGMALEGLRDFSIIATAPQKRLAIKTFVRSEGESVI 775

Query: 807  REACLRELKRGGQVYFLHNEVDTIENRKAMLEALLPEARVVIAHGQMHERDLEKVMRDFV 866
            REACLRELKRGGQVYFLHNEVDTIENRK MLEALLPEAR+ +AHGQMHER+LEKVMRDFV
Sbjct: 776  REACLRELKRGGQVYFLHNEVDTIENRKQMLEALLPEARIGVAHGQMHERELEKVMRDFV 835

Query: 867  AQRSNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRSHHQAYAYLLVND 926
            AQR NILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRSHHQAYAYLLV+D
Sbjct: 836  AQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRSHHQAYAYLLVHD 895

Query: 927  VKGLTKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDSQSGEMHEIGFQMYSDM 986
            V GLTK AQRRL+AIQQMEELGSGFYLAMHDLEIRGAGEVLGD+QSGEM EIGFQMYSDM
Sbjct: 896  VAGLTKLAQRRLDAIQQMEELGSGFYLAMHDLEIRGAGEVLGDNQSGEMTEIGFQMYSDM 955

Query: 987  LSEAVRALKDGREPDLAAPLASTTEINLHVPALLPNDYCGDVHERLSLYKRFANCTSQDT 1046
            L+ AVR+L++G+EPDLAAPLASTTEINLHVPALLP +YCGDVHERLSLYKR A+C   D 
Sbjct: 956  LNLAVRSLRNGKEPDLAAPLASTTEINLHVPALLPAEYCGDVHERLSLYKRLASCNDADK 1015

Query: 1047 IDALQEELIDRFGKLPEVAKALVETHRLRIAAKPLGIIKIDAHAESALLQFVPNPPVDAM 1106
            ID LQEE+IDRFGKLPE AKALVETHRLR+ AKP+GIIKIDAH E+A L F PNPP+DAM
Sbjct: 1016 IDDLQEEMIDRFGKLPEPAKALVETHRLRVLAKPIGIIKIDAHGEAAQLVFEPNPPIDAM 1075

Query: 1107 RIIELIQKNRHIKLNGQDKLRITANMPDLNARVTQIKATMRSLVG 1151
            RII LIQKNRHIKLNGQDKLRITA+MPDL ARV QIK T+R+LVG
Sbjct: 1076 RIISLIQKNRHIKLNGQDKLRITASMPDLAARVLQIKTTIRALVG 1120


>C3X222.1 C3X222_OXAFO Transcription-repair coupling factor
          Length = 1150

 Score = 1849 bits (4789), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 875/1152 (75%), Positives = 1013/1152 (87%), Gaps = 7/1152 (0%)

Query: 1    MSFDLKKSLPKPGARFVPPAPHGSADAYLLAQAAIALKAEKRMLTVVVANATDAQRLLSE 60
            M FDLKK LP+PG RF  P  HGSADA +LA+AA  LK+ ++ML  VVANA+DA+RLL E
Sbjct: 1    MPFDLKKFLPRPGQRFAMPPLHGSADALVLAKAAHELKSRQQMLVAVVANASDARRLLEE 60

Query: 61   IPWFQRPVEGSDGGDKLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQNGQCDVLIV 120
            IPWF      S+G + LRCHLLPDWETLPYD+FSPHQDLVS+RLATLYEV NG+CDVL+V
Sbjct: 61   IPWFD-----SEGDEPLRCHLLPDWETLPYDSFSPHQDLVSQRLATLYEVHNGRCDVLLV 115

Query: 121  PATTALLRMAPPGFLAAYTFFFKQGEKLDEARLKSQLTLAGYTHVTQVMSPGEYSVRGGL 180
            PA+TALLR+APP FLAA+TFFFK+GE LDEA+LK+QLT+AGY HV+QVMSPGEYSVRGGL
Sbjct: 116  PASTALLRIAPPSFLAAHTFFFKKGETLDEAKLKTQLTIAGYNHVSQVMSPGEYSVRGGL 175

Query: 181  IDIFPMGSALPYRLDLFGDIIETIRTFDADTQRSLYPVREVRLLPGREFPMDEISRSAFR 240
            ID+FPMGS LPYRLDLFGD IETIRTFDADTQRSLYPV E+R+LPGREFPMDE SR+ FR
Sbjct: 176  IDLFPMGSKLPYRLDLFGDTIETIRTFDADTQRSLYPVNEIRMLPGREFPMDEPSRAYFR 235

Query: 241  SRWREVFEGDPSRSAIYKDIGNGIASAGIEYYLPLFFEETATLFRYLPENSMFATVGDID 300
            SRWREVFEGDP+ S IY+DI +GIASAGIEYYLPLFFEETATLF+YLPEN++FA +G++ 
Sbjct: 236  SRWREVFEGDPTLSVIYRDIASGIASAGIEYYLPLFFEETATLFQYLPENAIFALIGNVS 295

Query: 301  QAIKRFWSDTRSRHNFLKADRERPVLAPEQVFLTDEDFFTLVKPYGRWVLQTDDTPSALS 360
            +A +RFW+DTRSR+ FLK+DRERP+L PE++FL+ EDFF L +P+GRWV+ +DD PS LS
Sbjct: 296  EAFQRFWADTRSRYAFLKSDRERPLLPPEKLFLSSEDFFVLAQPFGRWVITSDDAPSELS 355

Query: 361  APIPNVAVNRRTDDPLTNLRAYLLKTGKRVMLCAESNGRRETLQQYFAEYDLHPALCDGY 420
            APIP+V +NRR DDPL+NLR Y+ + GKRV++CAES GRRET+QQ F EYD   A C G+
Sbjct: 356  APIPDVTINRRADDPLSNLRTYIERAGKRVLICAESPGRRETMQQLFNEYDFKVAPCTGF 415

Query: 421  DSFIGNSEPLMLGVAPLHAGFELEQ--EQVAFITETELYAGSGRRVGRKKQENVTQVEHM 478
              FI +SE +M  VAPL  GF L      +AFITETELYA SGRR  RK+      +E +
Sbjct: 416  ADFITHSEDVMFCVAPLQKGFALGYVFGDLAFITETELYANSGRRSVRKQTNADFHIESI 475

Query: 479  VRDLSELKIGDPVVHANHGIGRYMGLLSMDLGEGETEFLHLEYAKETKLYVPVSQLHVIA 538
            VRDLSELKIGDPVVHA+HGIGRY GL+++DLGEGETEFLHL+YA+ETKLYVPVSQLHVI+
Sbjct: 476  VRDLSELKIGDPVVHAHHGIGRYRGLVTVDLGEGETEFLHLQYARETKLYVPVSQLHVIS 535

Query: 539  RYSGASPEDAPLHSLGSGQWEKAKRKAAQQIRDTAAELLNLYARRALRQGHAFQYSARDY 598
            RY+G SPEDAPLH+LGSGQWEKA++KAAQ+I DTAAELL+LYARR++R+G  F  +  DY
Sbjct: 536  RYAGTSPEDAPLHTLGSGQWEKARQKAAQKIHDTAAELLDLYARRSMRKGFPFPLTKNDY 595

Query: 599  ETFAESFGFEETPDQAAAINAVIGDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGK 658
            E FA+SFGFEETPDQAAAI+AV+ DMT  KPMDRLICGDVGFGKTEVALRAAF+AVMGGK
Sbjct: 596  EAFADSFGFEETPDQAAAISAVMEDMTSEKPMDRLICGDVGFGKTEVALRAAFIAVMGGK 655

Query: 659  QVAILAPTTLLAEQHAQTFADRFANWPVRIAELSRFRTGKEITQAIKGMADGTLDIIIGT 718
            QVA+LAPTTLLAEQHAQTF DRFA+WPVRI+ELSRFRT K++ Q I+G+ DG++DI+IGT
Sbjct: 656  QVALLAPTTLLAEQHAQTFRDRFADWPVRISELSRFRTQKQVNQTIQGLEDGSVDIVIGT 715

Query: 719  HKLLSDDVKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGL 778
            HKLLS DV F RLGLVIIDEEHRFGVRQKEALK++RAEVDVLTLTATPIPRTLGMAL+GL
Sbjct: 716  HKLLSKDVSFKRLGLVIIDEEHRFGVRQKEALKAIRAEVDVLTLTATPIPRTLGMALDGL 775

Query: 779  RDFSIIATAPQKRLAIKTFVRAEGESTIREACLRELKRGGQVYFLHNEVDTIENRKAMLE 838
            R FSIIATAPQKRLAIKTFVR+E +S IREACLRELKRGGQVYFLHNEV+TIENR+ MLE
Sbjct: 776  RSFSIIATAPQKRLAIKTFVRSENDSVIREACLRELKRGGQVYFLHNEVETIENRRVMLE 835

Query: 839  ALLPEARVVIAHGQMHERDLEKVMRDFVAQRSNILLCTTIIETGIDVPTANTIIMHRADK 898
             LLPEAR+ +AHGQMHERDLEKVMRDFVA R NILLCTTIIETGIDVP ANT++MHRADK
Sbjct: 836  NLLPEARIGVAHGQMHERDLEKVMRDFVAHRYNILLCTTIIETGIDVPNANTMVMHRADK 895

Query: 899  FGLAQLHQLRGRVGRSHHQAYAYLLVNDVKGLTKQAQRRLEAIQQMEELGSGFYLAMHDL 958
            FGLAQLHQLRGR+GRSHHQAYAYLLVND++ L+KQAQRRLEAI+QMEELGSGF+LAMHDL
Sbjct: 896  FGLAQLHQLRGRIGRSHHQAYAYLLVNDIQTLSKQAQRRLEAIRQMEELGSGFFLAMHDL 955

Query: 959  EIRGAGEVLGDSQSGEMHEIGFQMYSDMLSEAVRALKDGREPDLAAPLASTTEINLHVPA 1018
            EIRGAGEVLG+ QSGEM EIGFQMYSDML EAVRA+K G +PD  AP  +TTEINLH PA
Sbjct: 956  EIRGAGEVLGEEQSGEMVEIGFQMYSDMLKEAVRAMKKGEQPDYDAPFTTTTEINLHTPA 1015

Query: 1019 LLPNDYCGDVHERLSLYKRFANCTSQDTIDALQEELIDRFGKLPEVAKALVETHRLRIAA 1078
            LLP DYC  V+ERLSLYKRFA+  +Q+ ++ LQEELIDRFGKLPE A+ALVETHRLR+ A
Sbjct: 1016 LLPGDYCPGVNERLSLYKRFASAETQEEVNDLQEELIDRFGKLPEAAQALVETHRLRLLA 1075

Query: 1079 KPLGIIKIDAHAESALLQFVPNPPVDAMRIIELIQKNRHIKLNGQDKLRITANMPDLNAR 1138
            K +GI+KIDAH E+A+LQF+PNPP+DA+RIIELIQKN++I+LNG +KLR+TA MP+L+AR
Sbjct: 1076 KHVGIVKIDAHTEAAVLQFLPNPPIDAIRIIELIQKNKNIRLNGPEKLRVTAKMPNLDAR 1135

Query: 1139 VTQIKATMRSLV 1150
            V QIKAT+RSL 
Sbjct: 1136 VAQIKATIRSLT 1147