BLASTP 2.2.17 [Aug-26-2007]

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 composition-based statistics:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= 0001.1676.p         (554 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF excluding environmental samples
from WGS projects 
           15,459,386 sequences; 5,307,515,862 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|YP_003775685.1| ATP-dependent DNA ligase [Herbaspirillum ser...   900   0.0  
ref|ZP_08273086.1| putative DNA ligase [Oxalobacteraceae bacteri...   715   0.0  
ref|YP_001020715.1| ATP-dependent DNA ligase [Methylibium petrol...   703   0.0  
ref|YP_003908938.1| ATP dependent DNA ligase [Burkholderia sp. C...   640   0.0  
ref|YP_003607429.1| ATP dependent DNA ligase [Burkholderia sp. C...   637   e-180

>ref|YP_003775685.1| ATP-dependent DNA ligase [Herbaspirillum seropedicae SmR1]
 gb|ADJ63777.1| ATP-dependent DNA ligase protein [Herbaspirillum seropedicae SmR1]
          Length = 555

 Score =  900 bits (2326), Expect = 0.0,   Method: Composition-based stats.
 Identities = 469/555 (84%), Positives = 506/555 (91%), Gaps = 1/555 (0%)

Query: 1   MREFSRLYAELDATTSTTRKLAALQDYFGRADAADAAWAVYFLAGGKPRQAVPTGLLKQC 60
           MREFSRLY ELDATTSTTRKLAAL+DYFGRAD ADAAWAVYFLAGGKPRQAVPT LLKQC
Sbjct: 1   MREFSRLYGELDATTSTTRKLAALEDYFGRADPADAAWAVYFLAGGKPRQAVPTSLLKQC 60

Query: 61  AMEYAQIDEWLFEECYHSVGDLAETIAHVLPPPKGASDLGLARWMEERIAPLRGADPAVI 120
           AMEYAQIDEWLFEECY SVGDLAETIAH+LPP  G++ LGLARW+EERIAPLRGA P  I
Sbjct: 61  AMEYAQIDEWLFEECYQSVGDLAETIAHILPPASGSNPLGLARWVEERIAPLRGAAPETI 120

Query: 121 RTALFAAWDELDWQGRFLLAKLIGGGFRVGVSRLLVTRALASVAQLDPKLVAQRMVGWTD 180
           R ALF AWDELDWQGRFLL+KLIGGGFRVGVSRLLVTRALA+VAQLD KLVAQRMVGWTD
Sbjct: 121 RAALFQAWDELDWQGRFLLSKLIGGGFRVGVSRLLVTRALAAVAQLDAKLVAQRMVGWTD 180

Query: 181 GRARPDARRFAALIAPADGQDAQLQGGQPYPFFLAHPLLETPDTLGPLSDWQVEWKYDGI 240
           GRARPDA RFA LIAPAD  D  LQGGQPYPFFLAHPL++ P TLGP+  WQVEWKYDGI
Sbjct: 181 GRARPDAERFARLIAPADSADQPLQGGQPYPFFLAHPLMDAPATLGPIQQWQVEWKYDGI 240

Query: 241 RAQLVRRQGSNWLWSRGEELITDRFPELAALALPDGTVIDGEIVIRLPDSGPQADRVAPF 300
           RAQLVRR G NWLWSRGEELIT+RFPELAAL LPDGTVIDGEIVIR PD+G  A+RVAPF
Sbjct: 241 RAQLVRRHGQNWLWSRGEELITERFPELAALPLPDGTVIDGEIVIRHPDAGLAAERVAPF 300

Query: 301 ADLQKRIGRKNLTARLLADLPAGLIAYDLLEQDRQDLRSLPQHERRSRLEALVQAHASPA 360
           ++LQKRIGRKNL+ARLLA+LPAGLIAYDLLEQD  DLR LPQ ERR RLEALV +H + A
Sbjct: 301 SELQKRIGRKNLSARLLAELPAGLIAYDLLEQDGCDLRGLPQSERRRRLEALVGSHPAAA 360

Query: 361 LMLAPQIASGDWEALARLRSTSRERGVEGMMIKQREAHYGIGRTRNVGTWWKWKVDPYSI 420
           LMLAP + + DW+ALA+LR+++RERGVEGMM+K  +A YGIGRTRN GTWWKWK+DPYSI
Sbjct: 361 LMLAPTLTAKDWDALAQLRASARERGVEGMMLKDIDARYGIGRTRNDGTWWKWKIDPYSI 420

Query: 421 DAVLIYAQAGHGRRASLYTDYTFAVWDAPDDQG-ERKLVPFAKAYSGLTDAEIAVVDQAI 479
           DAVLIYAQAGHGRRASLYTDYTFA+WD P + G +RKLVPFAKAYSGLTDAEIAVVDQ I
Sbjct: 421 DAVLIYAQAGHGRRASLYTDYTFALWDGPPEAGSQRKLVPFAKAYSGLTDAEIAVVDQVI 480

Query: 480 RKTTIEKFGPVRSVKPSMVFEIGFEGIALSSRHKAGIAVRFPRILRQRLDKTIEQADTLA 539
           RK+TIEKFGPVRSV+PSMVFEIGFEGIALSSRHKAG+AVRFPRILRQRLDKT+EQADTLA
Sbjct: 481 RKSTIEKFGPVRSVQPSMVFEIGFEGIALSSRHKAGMAVRFPRILRQRLDKTVEQADTLA 540

Query: 540 SLRALLPPSPQPEQR 554
           +LRALLPPSPQPEQR
Sbjct: 541 TLRALLPPSPQPEQR 555


>ref|ZP_08273086.1| putative DNA ligase [Oxalobacteraceae bacterium IMCC9480]
 gb|EGF33431.1| putative DNA ligase [Oxalobacteraceae bacterium IMCC9480]
          Length = 539

 Score =  715 bits (1845), Expect = 0.0,   Method: Composition-based stats.
 Identities = 379/545 (69%), Positives = 435/545 (79%), Gaps = 7/545 (1%)

Query: 1   MREFSRLYAELDATTSTTRKLAALQDYFGRADAADAAWAVYFLAGGKPRQAVPTGLLKQC 60
           MREF+RLY  LDATTST RKLA L  YF  A   +AAWAVYFLAGGKPRQAVPT LL+  
Sbjct: 1   MREFARLYDALDATTSTNRKLAELVAYFRVAAPENAAWAVYFLAGGKPRQAVPTKLLRHY 60

Query: 61  AMEYAQIDEWLFEECYHSVGDLAETIAHVLPPPKGASDLGLARWMEERIAPLRGADPAVI 120
           A E A +D+WLF+ECYH+VGDLAETIAH+LP P+  SDLGLA+WM+ERI PLRGA P  I
Sbjct: 61  ATEAAGLDDWLFDECYHAVGDLAETIAHILPAPQRRSDLGLAQWMDERITPLRGAAPEAI 120

Query: 121 RTALFAAWDELDWQGRFLLAKLIGGGFRVGVSRLLVTRALASVAQLDPKLVAQRMVGWTD 180
           R+A+ A WDEL  + RFLL KLIGGGFRVGVS+LLVTRALA VA LD KL+AQR++GWTD
Sbjct: 121 RSAMLAYWDELAPRERFLLVKLIGGGFRVGVSKLLVTRALAGVAALDSKLIAQRLMGWTD 180

Query: 181 GRARPDARRFAALIAPADGQDAQLQGGQPYPFFLAHPLLETPDTLGPLSDWQVEWKYDGI 240
            R RP A RF AL+AP   Q+  L+GGQP+PFFLAHPL   P TLGP++ WQVEWKYDGI
Sbjct: 181 ARQRPSAERFLALVAPTSDQEQALRGGQPFPFFLAHPLQAEPVTLGPITGWQVEWKYDGI 240

Query: 241 RAQLVRRQGSNWLWSRGEELITDRFPELAALALPDGTVIDGEIVIRLPDSGPQADRVAPF 300
           RAQLVRR G +W+WSRGEELI++ FPE+AA+ALPDGTVIDGEI+I        +D  A F
Sbjct: 241 RAQLVRRDGQSWVWSRGEELISEGFPEIAAIALPDGTVIDGEILIW------GSDTHASF 294

Query: 301 ADLQKRIGRKNLTARLLADLPAGLIAYDLLEQDRQDLRSLPQHERRSRLEALVQAHASPA 360
           ++LQKRIGRK L+ +LLA+LPA LIAYD+LE D  DLR  PQ  RR+ LE +V A  S  
Sbjct: 295 SELQKRIGRKTLSPKLLAELPAVLIAYDVLEHDGIDLREQPQSARRTVLEKVVAAVDSDQ 354

Query: 361 LMLAPQIASGDWEALARLRSTSRERGVEGMMIKQREAHYGIGRTRNVGTWWKWKVDPYSI 420
           L L+P I +  WEALA +R  SR R VEGMM+K   A YG+GRTR+VG WWKWKVDPYS+
Sbjct: 355 LKLSPLIVAAGWEALAAIRMQSRARAVEGMMLKAVNAQYGVGRTRDVGVWWKWKVDPYSV 414

Query: 421 DAVLIYAQAGHGRRASLYTDYTFAVWDAPDDQGERKLVPFAKAYSGLTDAEIAVVDQAIR 480
           DAVLIYAQ+GHGRRASLYTDYTFAVWD  +D G R LVPFAKAYSGLTDAEIA+VD  IR
Sbjct: 415 DAVLIYAQSGHGRRASLYTDYTFAVWDVAED-GSRTLVPFAKAYSGLTDAEIALVDARIR 473

Query: 481 KTTIEKFGPVRSVKPSMVFEIGFEGIALSSRHKAGIAVRFPRILRQRLDKTIEQADTLAS 540
           KTTIEKFGPVRSV P+MVFEIGFEGIA S RHK+GIAVRFPR+LR R DK +E+ADTL +
Sbjct: 474 KTTIEKFGPVRSVTPTMVFEIGFEGIARSPRHKSGIAVRFPRLLRIRDDKPVEEADTLQT 533

Query: 541 LRALL 545
           L  LL
Sbjct: 534 LIGLL 538


>ref|YP_001020715.1| ATP-dependent DNA ligase [Methylibium petroleiphilum PM1]
 gb|ABM94480.1| DNA ligase, ATP-dependent, putative [Methylibium petroleiphilum
           PM1]
          Length = 542

 Score =  703 bits (1815), Expect = 0.0,   Method: Composition-based stats.
 Identities = 391/547 (71%), Positives = 438/547 (80%), Gaps = 8/547 (1%)

Query: 1   MREFSRLYAELDATTSTTRKLAALQDYFGRADAADAAWAVYFLAGGKPRQAVPTGLLKQC 60
           MR+F+RLYA LDATTST  KL AL  YF  A A  AAWA YFLAGGKPRQAVPT LL+Q 
Sbjct: 1   MRDFARLYAALDATTSTHEKLEALTAYFRAAPARHAAWAAYFLAGGKPRQAVPTALLRQL 60

Query: 61  AMEYAQIDEWLFEECYHSVGDLAETIAHVLPPPKGASDLGLARWMEERIAPLRGADPAVI 120
           A E A +  WLF+ CY +VGDLAETIA VLPPP   S LGL  WM ERI PLRGA P  +
Sbjct: 61  AAERAGLPPWLFDACYEAVGDLAETIALVLPPPVRDSALGLDDWMRERIGPLRGAPPEQV 120

Query: 121 RTALFAAWDELDWQGRFLLAKLIGGGFRVGVSRLLVTRALASVAQLDPKLVAQRMVGWTD 180
           RTALF AWDELD  GRFLL KLIGGGFRVGVSRLL+TRALA+VA LD KL+AQR++GWTD
Sbjct: 121 RTALFDAWDELDTPGRFLLGKLIGGGFRVGVSRLLLTRALAAVAGLDAKLIAQRLMGWTD 180

Query: 181 GRARPDARRFAALIAPADGQDAQLQGGQPYPFFLAHPLLETPDTLGPLSDWQVEWKYDGI 240
             A+P A  +AAL+AP         GGQPYPFFLAHPL   P TLG L+DWQ EWKYDGI
Sbjct: 181 KGAQPTADAYAALLAPEAATGDASPGGQPYPFFLAHPLQAEPQTLGALADWQAEWKYDGI 240

Query: 241 RAQLVRRQGSNWLWSRGEELITDRFPELAALALPDGTVIDGEIVIRLPDSGPQADRVAPF 300
           RAQLVRR G +WLWSRGEELITDRFPELA L+LPDG VIDGEIV+       Q  R APF
Sbjct: 241 RAQLVRRGGQSWLWSRGEELITDRFPELAKLSLPDGAVIDGEIVVW------QDSRPAPF 294

Query: 301 ADLQKRIGRKNLTARLLADLPAGLIAYDLLEQDRQDLRSLPQHERRSRLEALVQAHASPA 360
           A LQ+RIGRK L ARLL +LPA LIAYDLLEQ+  D R  PQH RR RLE L+ A A PA
Sbjct: 295 AALQRRIGRKTLGARLLQELPAVLIAYDLLEQEGVDRRDEPQHLRRMRLEQLISATADPA 354

Query: 361 LMLAPQIASGDWEALARLRSTSRERGVEGMMIKQREAHYGIGRTRNVGTWWKWKVDPYSI 420
           L L+PQ+ + DW ALA LR T+RERGVEG+M+K REA YG+GRT++VG WWKWKVDPY++
Sbjct: 355 LQLSPQVQAPDWAALAVLRDTARERGVEGLMLKAREARYGVGRTKDVGVWWKWKVDPYAV 414

Query: 421 DAVLIYAQAGHGRRASLYTDYTFAVWDAPDD--QGERKLVPFAKAYSGLTDAEIAVVDQA 478
           DAVL+YAQAGHGRRASLYTDYTFAVWDAP D   GER+LVPFAKAYSGL+DAEIA VD  
Sbjct: 415 DAVLVYAQAGHGRRASLYTDYTFAVWDAPPDGAPGERRLVPFAKAYSGLSDAEIARVDAV 474

Query: 479 IRKTTIEKFGPVRSVKPSMVFEIGFEGIALSSRHKAGIAVRFPRILRQRLDKTIEQADTL 538
           IRKTTIEKFGPVRSV+P++VFEIGFEGIALS+RH+AG+AVRFPRILR R DK +E+ADTL
Sbjct: 475 IRKTTIEKFGPVRSVRPTLVFEIGFEGIALSTRHRAGVAVRFPRILRTRPDKPVEEADTL 534

Query: 539 ASLRALL 545
           A+L+ LL
Sbjct: 535 ATLKGLL 541


>ref|YP_003908938.1| ATP dependent DNA ligase [Burkholderia sp. CCGE1003]
 gb|ADN59647.1| ATP dependent DNA ligase [Burkholderia sp. CCGE1003]
          Length = 561

 Score =  640 bits (1650), Expect = 0.0,   Method: Composition-based stats.
 Identities = 351/562 (62%), Positives = 415/562 (73%), Gaps = 23/562 (4%)

Query: 1   MREFSRLYAELDATTSTTRKLAALQDYFGRADAADAAWAVYFLAGGKPRQAVPTGLLKQC 60
           M+ F+ LY  LDATTST  KL AL  YF  A+  DAAWA YFLAGGKPRQ+VPT LL + 
Sbjct: 1   MKRFAALYTALDATTSTHDKLEALTSYFSIAEPEDAAWASYFLAGGKPRQSVPTRLLTEF 60

Query: 61  AMEYAQIDEWLFEECYHSVGDLAETIAHVLPPPKGASDLGLARWMEERIAPLRGADPAVI 120
           A E A +  WLFEE YH+VGDLAETIAH+LPP + +S+LGL +W+E+R+ PLRG  P  +
Sbjct: 61  ARERAGLPAWLFEESYHAVGDLAETIAHILPPAQRSSELGLTQWIEQRVLPLRGLAPEEL 120

Query: 121 RTALFAAWDELDWQGRFLLAKLIGGGFRVGVSRLLVTRALASVAQLDPKLVAQRMVGWTD 180
           RT LF+ WDELDW GRFLL KLIGGGFRVGV+R LV RALA VA +D K +AQRMVGWTD
Sbjct: 121 RTRLFSYWDELDWSGRFLLTKLIGGGFRVGVARQLVVRALAEVAGIDHKRIAQRMVGWTD 180

Query: 181 GRARPDARRFAALIAP----ADGQDAQLQG-------GQPYPFFLAHPLLETPDTLGPLS 229
            R +PDA R+  LIAP      G DAQ          G PYPFFLAHPL   P TLG  S
Sbjct: 181 SRQKPDAARYLRLIAPEATDVAGDDAQHATERHDSDLGLPYPFFLAHPLQTEPGTLGDPS 240

Query: 230 DWQVEWKYDGIRAQLVRRQGSNWLWSRGEELITDRFPELAAL--ALPDGTVIDGEIVIRL 287
            W +EWK+DGIRAQLV+R G  WLWSRGE+LITDRFPE+AAL  ALPDG VIDGEI+   
Sbjct: 241 RWLIEWKWDGIRAQLVKRAGRVWLWSRGEDLITDRFPEVAALGEALPDGFVIDGEILAWE 300

Query: 288 PDSGPQADRVAPFADLQKRIGRKNLTARLLADLPAGLIAYDLLEQDRQDLRSLPQHERRS 347
           P +        PFA LQ RI RK LT ++LAD PA L+AYDLLE   +DLR  P  ERR+
Sbjct: 301 PGAAAP----LPFARLQPRIARKTLTKKVLADSPAALLAYDLLEAHGEDLRMAPLIERRA 356

Query: 348 RLEALVQAHASP----ALMLAPQIASGDWEALARLRSTSRERGVEGMMIKQREAHYGIGR 403
           RL++L  +  +P     L ++P +   DW+ALA LR  SR RGVEG+M+K+RE+ YG+GR
Sbjct: 357 RLDSLALSLENPLARDLLRVSPLVCGADWQALAALREESRARGVEGLMLKERESLYGVGR 416

Query: 404 TRNVGTWWKWKVDPYSIDAVLIYAQAGHGRRASLYTDYTFAVWDAPDDQGERKLVPFAKA 463
           T+  GTWWKWK+DPY++DAVL+YAQ GHGRRASLYTD+TFAVWD  +  G R LVPFAKA
Sbjct: 417 TKASGTWWKWKIDPYAVDAVLVYAQRGHGRRASLYTDFTFAVWD--EANGVRTLVPFAKA 474

Query: 464 YSGLTDAEIAVVDQAIRKTTIEKFGPVRSVKPSMVFEIGFEGIALSSRHKAGIAVRFPRI 523
           YSGLTD E+  VD  +RKTTIEKFGPVRSV P++VFEIGFEGI  SSRHK+G+AVRFPR+
Sbjct: 475 YSGLTDEEMRQVDAIVRKTTIEKFGPVRSVTPTLVFEIGFEGIQASSRHKSGVAVRFPRM 534

Query: 524 LRQRLDKTIEQADTLASLRALL 545
           LR R DK I+ ADTLA L+  +
Sbjct: 535 LRWRTDKHIDDADTLAMLKGFI 556


>ref|YP_003607429.1| ATP dependent DNA ligase [Burkholderia sp. CCGE1002]
 gb|ADG17918.1| ATP dependent DNA ligase [Burkholderia sp. CCGE1002]
          Length = 557

 Score =  637 bits (1642), Expect = e-180,   Method: Composition-based stats.
 Identities = 348/558 (62%), Positives = 409/558 (73%), Gaps = 19/558 (3%)

Query: 1   MREFSRLYAELDATTSTTRKLAALQDYFGRADAADAAWAVYFLAGGKPRQAVPTGLLKQC 60
           M+ F+ LY  LDATTST  KLAAL  YF  A+  DAAWA YFLAGGKPRQ VPT LL   
Sbjct: 1   MKRFAALYTALDATTSTHDKLAALTSYFSAAEPEDAAWASYFLAGGKPRQLVPTRLLTDI 60

Query: 61  AMEYAQIDEWLFEECYHSVGDLAETIAHVLPPPKGASDLGLARWMEERIAPLRGADPAVI 120
           A E A + EWLFEE YH+VGDLAETIAH+LPP    S+LGL +W+E+R+ PLRG  P  +
Sbjct: 61  ARERAGLPEWLFEESYHAVGDLAETIAHILPPASRDSELGLTQWIEQRMLPLRGLPPDEL 120

Query: 121 RTALFAAWDELDWQGRFLLAKLIGGGFRVGVSRLLVTRALASVAQLDPKLVAQRMVGWTD 180
           RT L + WDELDW GRFLL KLIGGGFRVGV+R LV RALA VA +D K +AQRMVGWTD
Sbjct: 121 RTRLLSYWDELDWGGRFLLTKLIGGGFRVGVARQLVVRALAEVAGVDHKRIAQRMVGWTD 180

Query: 181 GRARPDARRFAALIAPADGQDAQLQG-------GQPYPFFLAHPLLETPDTLGPLSDWQV 233
            + +PDA R+  LIAP    D Q          G PYPFFLAHPL   P TLG    W +
Sbjct: 181 SQQKPDAARYLRLIAPQTDDDTQAHAPEHDSDLGLPYPFFLAHPLQTDPATLGDPGHWLI 240

Query: 234 EWKYDGIRAQLVRRQGSNWLWSRGEELITDRFPELAAL--ALPDGTVIDGEIVIRLPDSG 291
           EWK+DGIRAQLV+R G  WLWSRGE+LITDRFPE+AAL  +LPDG VIDGEI+       
Sbjct: 241 EWKWDGIRAQLVKRGGRVWLWSRGEDLITDRFPEVAALGESLPDGYVIDGEILAW----E 296

Query: 292 PQADRVAPFADLQKRIGRKNLTARLLADLPAGLIAYDLLEQDRQDLRSLPQHERRSRLEA 351
           P A    PFA LQ RI RK LT ++LAD PA L+AYDLLE + QDLR  P  +RR+RL+A
Sbjct: 297 PGAATPLPFARLQPRIARKTLTRKILADSPAALLAYDLLEANGQDLRMSPLADRRARLDA 356

Query: 352 LVQA----HASPALMLAPQIASGDWEALARLRSTSRERGVEGMMIKQREAHYGIGRTRNV 407
           L  +     A   L ++P ++  DW ALA LR  SR RGVEG+M+K+RE+ YG+GRT+  
Sbjct: 357 LSASVEGTLARGLLRVSPLVSGADWSALAALREESRARGVEGLMLKERESMYGVGRTKAS 416

Query: 408 GTWWKWKVDPYSIDAVLIYAQAGHGRRASLYTDYTFAVWDAPDDQGERKLVPFAKAYSGL 467
           GTWWKWK++PY++DAVL+YAQ GHGRRASLYTDYTFAVWD  D  G R LVPFAKAYSGL
Sbjct: 417 GTWWKWKIEPYAVDAVLVYAQRGHGRRASLYTDYTFAVWDEAD--GVRTLVPFAKAYSGL 474

Query: 468 TDAEIAVVDQAIRKTTIEKFGPVRSVKPSMVFEIGFEGIALSSRHKAGIAVRFPRILRQR 527
           TD E+  VD  +RKTT++KFGPVRSV P++VFEIGFEGI  SSRHK+G+AVRFPR+LR R
Sbjct: 475 TDEEMHRVDAIVRKTTVDKFGPVRSVTPTLVFEIGFEGIQASSRHKSGVAVRFPRMLRWR 534

Query: 528 LDKTIEQADTLASLRALL 545
            DK I+ ADTLA L+  +
Sbjct: 535 TDKHIDDADTLAMLKGFI 552