BLASTP 2.2.18 [Mar-02-2008] 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= 0124.0027.p (916 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K7A3.1 B3K7A3_9BACI O-antigen polymerase 632 e-179 A4XML1.1 A4XML1_CALS8 O-antigen polymerase 83 1e-13 B1I5B4.1 B1I5B4_DESAP O-antigen polymerase 80 8e-13 Q8RC08.1 Q8RC08_THETN TPR-repeat-containing proteins 74 1e-10 A6TJR2.1 A6TJR2_ALKMQ O-antigen polymerase 72 2e-10 >B3K7A3.1 B3K7A3_9BACI O-antigen polymerase Length = 819 Score = 632 bits (1629), Expect = e-179, Method: Compositional matrix adjust. Identities = 342/827 (41%), Positives = 455/827 (55%), Gaps = 10/827 (1%) Query: 1 VSKPVYGKNAVQSRNVEKISSPVWALVVAFIVFLVWTPFQVGLFNGQQIDYEKPXXXXXX 60 +S PVYGK A +SR K + W L+ I+FL WTPFQ LFNGQ++ +EKP Sbjct: 1 MSNPVYGKKAAESRIEGKRPALFWVLISGIILFLFWTPFQTALFNGQELQFEKPIFWAAI 60 Query: 61 XXXXXXXXXXXXXYKKFKLEEQRDLLAVASLLLPITYALSLFGAASHYMAMNILFIQSMY 120 YK +L+++RD LAV LLLP+TY LSL A SH +AMN++ I +Y Sbjct: 61 LATLLLFLWIAQYYKSIQLKDERDWLAVGVLLLPLTYILSLISAVSHSLAMNMVVINCIY 120 Query: 121 IAVFIIALYLLKQKQLNVVIQNAVLAIAYFIVGFGLLNWLGAWKFAGGLVGWFSDTVQGG 180 +FII LY+L+ K N +IQ+ ++AIAY IVGFGLL+W G K AG +V WFS+TV G Sbjct: 121 AMMFIIGLYVLRDKLGNRIIQSTIMAIAYLIVGFGLLHWFGQGKTAGAIVKWFSNTVLNG 180 Query: 181 KYLDAVMTDSNGLRLTSIFQYANTYXXXXXXXXXXXXXXXXRSKKWYGTLTHGFMLVPII 240 Y AVMTDSNGLRLTS+FQYANTY S+KWYG H FMLVPII Sbjct: 181 TYTHAVMTDSNGLRLTSVFQYANTYAAFLMAFLFAAVFFATTSRKWYGQAFHSFMLVPII 240 Query: 241 VSLLLTLSRGGXXXXXXXXXXXXXXXXXXXXXXWXXXXXXXXXXXXXXXXPVTNLGTELS 300 VSLLLTLSR G W PVT LG +L+ Sbjct: 241 VSLLLTLSRSGLVLLPVVFVLLLLFLKPAKQLLWILYCGIAGVASLIISKPVTELGLDLN 300 Query: 301 TAFTSSAALKGWXXXXXXXXXXXXXXXXIQRFVSPWLQTKLGGWESRKXXXXXXXXXXXX 360 F S ALKGW IQ F++P L+ L W ++K Sbjct: 301 ETFNSGGALKGWGILLGTSAIVGLLGWVIQSFIAPKLEKALSNWSAKKASNMWIPISSLV 360 Query: 361 XXXXXXXXXIGTSARTILPANMETRLENINFKQHSVLERITFYKDAMKVVKDYPIIGAGG 420 IGT+ + +LP N+ RLENINF QHSVLER TFYKDAMKV+ DYPIIGAGG Sbjct: 361 LGGLLIFLFIGTNLKNVLPQNISVRLENINFNQHSVLERFTFYKDAMKVLADYPIIGAGG 420 Query: 421 GGWASLYEHYQDYPYTSRQAHNFFLQYLXXXXXXXXXXXXXXXXXXXYKYIRGYLKRDKD 480 G WASLYE YQ+ PYTS QAHNFFLQYL YKY+RGY++ D + Sbjct: 421 GAWASLYEQYQNNPYTSTQAHNFFLQYLIEVGLIGFLIFMSFIAYVFYKYVRGYIRADDE 480 Query: 481 EFDNGFIFYXXXXXXXXXXXXDFNLSYAFMGILVFIGLAGMGAAMDSKPLRR-NWNKPGM 539 +N F++ DFN+SY FMGILVF+GL GM + MDSKP+++ N Sbjct: 481 GRNNHFLYLILVLSILIHSILDFNMSYVFMGILVFLGLGGMASVMDSKPIKKWNMQDSTA 540 Query: 540 RYGYLAVLAIGIIFMFFLSVSATGSSNSVMKAKRLIGVSQSYEELKAPLIATLKDRPYHP 599 R Y AV+ + I + S+ ++ + ++A++++ VS S+EE+KAPL L RP HP Sbjct: 541 RNIYSAVVGLASIIILITSIRYVQAAEAGLEARKIVQVSTSFEEIKAPLDKDLSIRPSHP 600 Query: 600 EAAAYLASMDQQVFNQTKDEQYLNEAFSVLNRALKDEPNNKILLTLLASTYDLKGQNDLA 659 E+ L S+ Q ++ Q++DE + + ++LN+ L+DEP+NK +L L +Y++ Q + A Sbjct: 601 ESVLLLNSLYQSLYQQSQDEGFFRLSTNLLNQVLEDEPHNKSMLNQLVKSYEMNKQPEQA 660 Query: 660 FAVYRDNADKFNWDIEWYEALISRSQALARAANAEKDEAKKQEYLTTGLDAYKHVTAGVE 719 + + +NA KF WDI WYE +I++ L A E D A K++Y +A+ V G++ Sbjct: 661 YEILINNAYKFKWDINWYEQIINKGYDLGMKALGEGDTAGKEKYFNFATEAFVKVQEGIK 720 Query: 720 HLKTLPPEQLQGRAFSVTPTIALNAGKMQQMAGQNDEAAATLKLGLGDAYADVVNNGTLW 779 HL TLP Q QG F TP + L+AGKM M Q ++AA LKLG+ + + + Sbjct: 721 HLATLPEGQFQGNPFENTPDMILHAGKMYFMMNQPEQAAEALKLGIQEDLSQTTQQEIV- 779 Query: 780 DTTWYSSLIARSYDLAQQAFTQQDATGKTTYLNVGLSAYNQVQADLQ 826 WY + L +Q + GK T ++ Q ADLQ Sbjct: 780 --RWYLA------ALQKQNLSDDALMGKLTQVDPNAKQNVQQLADLQ 818 Score = 85.5 bits (210), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 47/135 (34%), Positives = 67/135 (49%), Gaps = 13/135 (9%) Query: 768 AYADVVNNGTL--WDTTWYSSLIARSYDLAQQAFTQQDATGKTTYLNVGLSAYNQVQ--- 822 AY ++NN WD WY +I + YDL +A + D GK Y N A+ +VQ Sbjct: 660 AYEILINNAYKFKWDINWYEQIINKGYDLGMKALGEGDTAGKEKYFNFATEAFVKVQEGI 719 Query: 823 --------ADLQVQSLAVPPAIALNAGRIQVMAGQIQAASETLKLGLSENYNDATNREMA 874 Q P + L+AG++ M Q + A+E LKLG+ E+ + T +E+ Sbjct: 720 KHLATLPEGQFQGNPFENTPDMILHAGKMYFMMNQPEQAAEALKLGIQEDLSQTTQQEIV 779 Query: 875 RWYLAALKKAGLDQD 889 RWYLAAL+K L D Sbjct: 780 RWYLAALQKQNLSDD 794 >A4XML1.1 A4XML1_CALS8 O-antigen polymerase Length = 726 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 58/191 (30%), Positives = 89/191 (46%), Gaps = 16/191 (8%) Query: 377 ILPANMETRLENINFKQHSVLERITFYKDAMKVVKDYPIIGAGGGGWASLYEHYQDYPYT 436 ++P ++ ++++I+FK + +ER+ FYKD +K+ PI G GGG W SLY YQ Y Y Sbjct: 346 LIPTSIVDKIKSISFKDRNFVERLVFYKDGLKIFLKSPIFGYGGGTWVSLYFMYQSYLYF 405 Query: 437 SRQAHNFFLQYLXXXXXXXXXXXXXXXXXXXYKYIRGYLKRDKDE--FDNGFIFYXXXXX 494 + Q+HN+FLQ L +R +LK+DKD+ G I Sbjct: 406 TTQSHNYFLQVLLDTGLFGFAILMVFLYTLFSTALRAWLKKDKDKNILIAGII--GGAVQ 463 Query: 495 XXXXXXXDFNLSYAFMGILVFIGLAGMGAAM---------DSKPLRRNWNK---PGMRYG 542 DF+ S A + +L+F L + A + D K + + K P + Sbjct: 464 LYLHSILDFDFSLASVQVLLFASLGVLIAIVQEVLQKSKEDGKLIVQRKTKVLSPALLVF 523 Query: 543 YLAVLAIGIIF 553 YL V+ I I F Sbjct: 524 YLFVMIISINF 534 >B1I5B4.1 B1I5B4_DESAP O-antigen polymerase Length = 806 Score = 80.5 bits (197), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 47/154 (30%), Positives = 76/154 (49%), Gaps = 3/154 (1%) Query: 375 RTILPANMETRLENINFKQHSVLERITFYKDAMKVVKDYPIIGAGGGGWASLYEHYQDYP 434 R +L ++ R I+ ++ S +R+T +DA+++V+DYP+ GAGGGGW +LY YQ YP Sbjct: 342 RALLAEDVFVRAGAISGEERSFTDRMTMNRDALRIVRDYPVTGAGGGGWNALYHQYQSYP 401 Query: 435 YTSRQAHNFFLQYLXXXXXXXXXXXXXXXXXXXYKYIRGYLKRDKDE-FDNGFIFYXXXX 493 Y + + HN+F Q Y +R + ++ + + + Sbjct: 402 YWTTETHNYFFQTWVEAGTVGFAAVLALWGFFVYLLVRLWRYGARNGVWVSTWAAAVAVL 461 Query: 494 XXXXXXXXDFNLSYAFMGILVF--IGLAGMGAAM 525 DFNLS A MG+L+F +GL GA + Sbjct: 462 GLGLHSFFDFNLSMAAMGLLLFAYMGLVRAGAGL 495 >Q8RC08.1 Q8RC08_THETN TPR-repeat-containing proteins Length = 827 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 96/365 (26%), Positives = 154/365 (42%), Gaps = 33/365 (9%) Query: 378 LPANMETRLENINFKQHSVLERITFYKDAMKVVKDYPIIGAGGGGWASLYEHYQDYPYTS 437 LP ++ +R+++IN S +R+ FY D +K+ KDYPI GAGGG WA+LY YQ Y Y + Sbjct: 464 LPEDIASRVQDINLTSRSSSQRMQFYIDGLKIFKDYPIFGAGGGAWAALYFKYQSYLYWT 523 Query: 438 RQAHNFFLQYLXXXXXXXXXXXXXXXXXXXYKYIRGYLKRDKDEFD---NGFIFYXXXXX 494 Q HN+F+Q L R Y +D++ G I Sbjct: 524 TQTHNYFMQVLLDTGIVGFIALLFLLVTLIRSMARVYRGYGEDKYKVLIAGVITAIVSLY 583 Query: 495 XXXXXXXDFNLSYAFMGILVFIGLAGMGAAMDSKPLRRNWNKPGMRYGYLAVLAIGIIFM 554 DF+LS + + IG+ ++D + L+ K + Y AVL ++ Sbjct: 584 AHAAMDFDFSLSAVSIALWALIGVIN---SLDREILKVKSRKVYLNYA--AVLVTFVVLY 638 Query: 555 FFLSVS-ATG---SSNSVMKAKRLIGVSQSYEELKAPLIATLKDRPYHPEAAAYLASMDQ 610 S+S A G ++ +K++ L +YE+ A Y P A Y + Q Sbjct: 639 MSTSMSVALGYAVKGDNFLKSQDLNSAEAAYEKAVA----------YDPFNAQYRMTYGQ 688 Query: 611 ---QVFNQTKDEQYLNEAFSVLNRALKDEPNNKILLTLLASTYDLKGQNDLAFAVYRDNA 667 + ++ +D L +A +A+K EP N L L + Y GQ DL Sbjct: 689 ILAALGDKWQDPVRLQKAMFEEEKAVKLEPFNSRLNAQLGAFYLAHGQIDLGLKYVEKAV 748 Query: 668 DKFNWDIEWYEALISRSQALARAANAEKDEAKKQEYLTTGLDA---YKHVTAGVEHLKTL 724 + + E Y+ L + + D+ K +EYL +D Y+ V A ++L Sbjct: 749 EVQPFRPENYQQLADAYNKVGMYYLNKGDKQKAKEYLQKAVDVEKMYEKVNA-----RSL 803 Query: 725 PPEQL 729 P+ + Sbjct: 804 EPKPM 808 >A6TJR2.1 A6TJR2_ALKMQ O-antigen polymerase Length = 988 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 28/71 (39%), Positives = 45/71 (63%) Query: 378 LPANMETRLENINFKQHSVLERITFYKDAMKVVKDYPIIGAGGGGWASLYEHYQDYPYTS 437 LP + +R I+ + S R +Y+D++ + K++P+IGAGGG W+ +Y YQ PY S Sbjct: 466 LPETLVSRFNAIDLSEGSSTTRFAYYRDSLSIFKEHPLIGAGGGAWSGIYTKYQSEPYHS 525 Query: 438 RQAHNFFLQYL 448 +AHN++ Q L Sbjct: 526 TEAHNYYSQTL 536 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.320 0.134 0.398 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 4,288,050,181 Number of extensions: 156589945 Number of successful extensions: 445825 Number of sequences better than 1.0e-05: 17 Number of HSP's gapped: 445826 Number of HSP's successfully gapped: 18 Length of query: 916 Length of database: 3,060,696,203 Length adjustment: 145 Effective length of query: 771 Effective length of database: 1,694,649,028 Effective search space: 1306574400588 Effective search space used: 1306574400588 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 136 (57.0 bits)