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= 0001.3178.p (542 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312730|ref|YP_003776822.1| methyl-accepting chemotaxis pro... 655 0.0 gi|300310693|ref|YP_003774785.1| methyl-accepting chemotaxis pro... 459 e-130 gi|300313820|ref|YP_003777912.1| methyl-accepting chemotaxis tra... 453 e-128 gi|300313938|ref|YP_003778030.1| methyl-accepting chemotaxis tra... 425 e-120 gi|300309376|ref|YP_003773468.1| methyl-accepting chemotaxis pro... 423 e-119 >gi|300312730|ref|YP_003776822.1| methyl-accepting chemotaxis protein [Herbaspirillum seropedicae SmR1] Length = 583 Score = 655 bits (1689), Expect = 0.0, Method: Compositional matrix adjust. Identities = 355/542 (65%), Positives = 445/542 (82%), Gaps = 6/542 (1%) Query: 1 MRFQDLSIGTRLGIAFATLVLIIIGIVILGLSRLSEVNESLDHVVNDRYKKVAIINTISS 60 MRF +LSI TRL IAF+ L+L+I GIV LGL+RL+++N++LD VVNDRYKK+AIINTIS Sbjct: 1 MRFNNLSIATRLAIAFSILILVIAGIVALGLARLADINKALDLVVNDRYKKIAIINTISG 60 Query: 61 NTDDIALSVRNRLISSNRTEAAQEKVEADRLLAENTKLYEQLTQLIIRPKAKSQLERVIQ 120 DD+A+S+RN+L+ ++ + A E+ + L AENTKLY++LT+L+ P+AK++L++V + Sbjct: 61 KVDDVAISLRNQLLMTDPAQIAAEQKTIESLSAENTKLYDELTRLVANPEAKAKLDKVTE 120 Query: 121 ARSEYSAVMLEVIRLQELDDRDSAVELLRTKMAPLQKKYMKELDGLSDTQQELMNQAVVE 180 R Y+A+ ++ +LQ D+D+A++L+ ++M PLQK Y +LD LSDTQQ+LM+Q+V + Sbjct: 121 TRKSYAALRKQIDKLQSSGDKDAAIKLMLSEMVPLQKIYFSQLDELSDTQQKLMDQSVDQ 180 Query: 181 AKENYENTRLTMVASGLVASIFAVLVALLISRGITSPLNQALSVAEQVAAGDLTSEIQQS 240 A+ YE TR+ MV +G++A+ FA +A ISR IT PL++A+ VAE VAAGDLT+ I Sbjct: 181 AEAAYETTRMIMVIAGVLAATFAAFIAWTISRSITRPLSRAVEVAETVAAGDLTAVIAAH 240 Query: 241 QKDETGRLLQALAVMNQKLKDIVKEVRHGTDSMVTASTQIATGNLDLSSRTEEQASSLEE 300 DETGRLLQALA MNQKLK IV EVR GTDSMVTASTQIATGNLDLSSRTEEQAS+LEE Sbjct: 241 SNDETGRLLQALAAMNQKLKAIVLEVRRGTDSMVTASTQIATGNLDLSSRTEEQASALEE 300 Query: 301 TASSMEELTSTVKQNAEHSRKASELALHSSQIAKQGGTVVEKVVQTMSSINDSSNKIVDI 360 TASS+EELTS+VKQNA+H+RK+SELA ++SQ+A QGG V++VVQTM +INDSS+KIVDI Sbjct: 301 TASSLEELTSSVKQNADHTRKSSELAANASQVANQGGLAVKQVVQTMGAINDSSHKIVDI 360 Query: 361 ISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVRVLAQRSATAAKEIKELIQNS 420 ISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVR LAQRSATAAKEIKELI +S Sbjct: 361 ISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVRGLAQRSATAAKEIKELINDS 420 Query: 421 VDKVSSGSELVAEAGQTMNEVVASIQQVTNIVTEISEATREQSDGIEQVNQAVMQMDQVT 480 V++V+SG+ELVA+AG TM+ VV SI+QV++IV EIS ATREQSDGIEQVNQA+MQMD T Sbjct: 421 VNQVTSGTELVAQAGSTMDAVVNSIEQVSHIVGEISAATREQSDGIEQVNQAIMQMDNTT 480 Query: 481 QQNAALVEEAAAAAQSLQDQAKRLSTVVSVFRIDALDH----PQ--APAAKVVPHSTAGA 534 QQNAALVEEAAAAAQ+LQDQA+RL +V VFR+D + P AP A V+ +A A Sbjct: 481 QQNAALVEEAAAAAQALQDQAQRLLDLVGVFRLDEVGGSGPAPSAVAPVAPVLRKVSAAA 540 Query: 535 KR 536 R Sbjct: 541 PR 542 >gi|300310693|ref|YP_003774785.1| methyl-accepting chemotaxis protein [Herbaspirillum seropedicae SmR1] Length = 576 Score = 459 bits (1182), Expect = e-130, Method: Compositional matrix adjust. Identities = 285/532 (53%), Positives = 373/532 (70%), Gaps = 9/532 (1%) Query: 1 MRFQDLSIGTRLGIAFATLVLIIIGIVILGLSRLSEVNESLDHVVNDRYKKVAIINTISS 60 M+ D+ I RLG FA L++++ I +G+ L V+++ D +VNDRY KVA+ I+ Sbjct: 2 MKISDMKISVRLGACFAALIVVMCVIAGVGVKNLLMVSDATDEIVNDRYVKVALGTQITD 61 Query: 61 NTDDIALSVRNRLISSNRTEAAQEKVEADRLLAENTKLYEQLTQLIIR---PKAKSQLER 117 + A S+RN +++ N E +K DR+ +++ E L ++ R P+ L Sbjct: 62 KVNTGARSLRNAIMARNPEE---QKKYLDRMDTYTSQVSEHLAEMEKRTNTPRGSELLAA 118 Query: 118 VIQARSEYSAVMLEVIRLQELDDRDSAVELLRTKMAPLQKKYMKELDGLSDTQQELMNQA 177 + QAR++YS ++V+ L RD A L K P+Q KY + + Q LM+++ Sbjct: 119 LKQARADYSKERIKVVDLIHQQKRDEATAHLFDKTIPVQDKYFAAVKEMVSFQSSLMDKS 178 Query: 178 VVEAKENYENT-RLTMVASGLVASIFAVLVALLISRGITSPLNQALSVAEQVAAGDLTSE 236 A + + +V SG VA + + L A+LI+R IT PLN+A+ VA VAAGDLT + Sbjct: 179 AERASAASSSAINIMLVLSG-VAVLLSALCAMLITRSITRPLNEAVQVATAVAAGDLTVQ 237 Query: 237 IQQSQKDETGRLLQALAVMNQKLKDIVKEVRHGTDSMVTASTQIATGNLDLSSRTEEQAS 296 I+ + KDETG LL AL MN L IV EVR GTD++ TAS +IATGNLDLSSRTE+QA Sbjct: 238 IEATSKDETGALLGALKSMNDNLHRIVAEVRAGTDTINTASREIATGNLDLSSRTEQQAG 297 Query: 297 SLEETASSMEELTSTVKQNAEHSRKASELALHSSQIAKQGGTVVEKVVQTMSSINDSSNK 356 +LEETAS+MEELTSTV+QNA+++R+A+ LA +SQ+A QGG+VV +VVQTM IND+S K Sbjct: 298 ALEETASAMEELTSTVRQNADNARQANTLAETASQVAIQGGSVVGEVVQTMGQINDASRK 357 Query: 357 IVDIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVRVLAQRSATAAKEIKEL 416 IVDIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVR LAQRSA AAKEIK L Sbjct: 358 IVDIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVRTLAQRSAAAAKEIKSL 417 Query: 417 IQNSVDKVSSGSELVAEAGQTMNEVVASIQQVTNIVTEISEATREQSDGIEQVNQAVMQM 476 I SV++V SGS LV +AG TM EVVAS+++VT++V EI+ A+ EQSDGIEQ+NQA++QM Sbjct: 418 IDASVERVESGSRLVGQAGATMEEVVASVKRVTDVVAEITAASGEQSDGIEQINQAIVQM 477 Query: 477 DQVTQQNAALVEEAAAAAQSLQDQAKRLSTVVSVFRIDALDHPQAPAAKVVP 528 D+VTQQNAALVE+AAAAAQSLQ+Q+ RLS V +FR+ DH P+ P Sbjct: 478 DEVTQQNAALVEQAAAAAQSLQEQSGRLSDTVGIFRLGN-DHAHQPSPLSAP 528 >gi|300313820|ref|YP_003777912.1| methyl-accepting chemotaxis transducer transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 597 Score = 453 bits (1166), Expect = e-128, Method: Compositional matrix adjust. Identities = 284/523 (54%), Positives = 373/523 (71%), Gaps = 12/523 (2%) Query: 1 MRFQDLSIGTRLGIAFATLVLIIIGIVILGLSRLSEVNESLDHVVNDRYKKVAIINTISS 60 M+ +D+ I RL + FA L+ ++ I +G+ LS +++S +V DRY+K+A+ I Sbjct: 1 MKLKDIKISVRLAVCFAVLIGVMCLITGVGMKSLSSISKSSALIVEDRYEKIALAVEIRD 60 Query: 61 NTDDIALSVRNRLISSNRTEAAQEKVEADRLLAENTKLYEQLTQL---IIRPKAKSQLER 117 N + A ++RN L+ N EA + DR A + K E L ++ + + + + Sbjct: 61 NVNGAARNLRNALLGRNLEEATRY---LDRSAANSAKTTEALGKMEKILSTARGRELFQS 117 Query: 118 VIQARSEYSAV---MLEVIRLQELDDRDSAVELLRTKMAPLQKKYMKELDGLSDTQQELM 174 + +ARS Y+ + E+I+ Q+ ++ AVELL T++ P Q KY + LD Q+ LM Sbjct: 118 IQEARSAYNTPRDKLRELIKQQK---KEEAVELLFTQVIPAQDKYFQVLDQFVAFQKSLM 174 Query: 175 NQAVVEAKENYENTRLTMVASGLVASIFAVLVALLISRGITSPLNQALSVAEQVAAGDLT 234 Q+V E ++ ++ M+ VA V+ A L++R IT PLN+A+SVA VAAGDLT Sbjct: 175 EQSVTEGRDTTQSAIAMMLGLSAVAIALCVIAAWLVTRSITRPLNEAVSVASAVAAGDLT 234 Query: 235 SEIQQSQKDETGRLLQALAVMNQKLKDIVKEVRHGTDSMVTASTQIATGNLDLSSRTEEQ 294 +I + KDETG LL AL MN L IV EVR G+D++ TAS +IATGNLDLSSRTEEQ Sbjct: 235 VQIGATSKDETGALLAALKSMNDSLHRIVSEVRQGSDTINTASAEIATGNLDLSSRTEEQ 294 Query: 295 ASSLEETASSMEELTSTVKQNAEHSRKASELALHSSQIAKQGGTVVEKVVQTMSSINDSS 354 A +LEETAS+MEELTSTVKQNA+++R+A+ LA +S++A QGG+VV +VVQTM IND+S Sbjct: 295 AGALEETASAMEELTSTVKQNADNARQANSLAATASEVAVQGGSVVGQVVQTMGEINDAS 354 Query: 355 NKIVDIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVRVLAQRSATAAKEIK 414 KIVDIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVR LAQRSA+AAKEIK Sbjct: 355 RKIVDIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVRTLAQRSASAAKEIK 414 Query: 415 ELIQNSVDKVSSGSELVAEAGQTMNEVVASIQQVTNIVTEISEATREQSDGIEQVNQAVM 474 LI +SV +V +GS LV +AG TM EVVAS+++VT++V EIS A+ EQSDGIEQ+N A+ Sbjct: 415 ALIDDSVSRVDNGSRLVEQAGTTMTEVVASVRRVTDVVAEISAASNEQSDGIEQINHAIT 474 Query: 475 QMDQVTQQNAALVEEAAAAAQSLQDQAKRLSTVVSVFRIDALD 517 QMDQVTQQNAALVEEAAAAAQSLQ+Q+ RLS VSVF++ + D Sbjct: 475 QMDQVTQQNAALVEEAAAAAQSLQEQSTRLSATVSVFKLSSHD 517 >gi|300313938|ref|YP_003778030.1| methyl-accepting chemotaxis transducer transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 533 Score = 425 bits (1092), Expect = e-120, Method: Compositional matrix adjust. Identities = 260/540 (48%), Positives = 351/540 (65%), Gaps = 34/540 (6%) Query: 3 FQDLSIGTRLGIAFATLVLIIIGIVILGLSRLSEVNESLDHVVNDRYKK----------- 51 ++L IG RL I F L++++ +V LG+ RL + ++ D + KK Sbjct: 1 MKNLKIGVRLAIGFIALLMLMAVMVALGVWRLGSIGDATDDMTRIALKKERDAVQWHAAI 60 Query: 52 ----VAIINTISSNTDDIALSVRNRLIS-SNRTEAAQEKVEADRLLAENTKLYEQLTQLI 106 V + S+ D + ++ + S R Q++VEA AE +L++++ +L Sbjct: 61 KENGVRTFAVMKSDDDAFQAYFQKQIDAQSARISQLQKEVEAAITDAEEKRLFDEVGKL- 119 Query: 107 IRPKAKSQLERVIQARSEYSAVMLEVIRLQELDDRDSAVELLRTKMAPLQKKYMKELDGL 166 R+ Y A + ++ D A E+ T + + Y + Sbjct: 120 ---------------RAAYRATRQSIFDVKTAGDDARAREMTDTTLVKMMDDYADGVLRY 164 Query: 167 SDTQQELMNQAVVEAKENYENTRLTMVASGLVASIFAVLVALLISRGITSPLNQALSVAE 226 +D Q+++++Q +Y + R ++A G + + +A L++R IT PLNQA+++AE Sbjct: 165 ADFQKQVIDQTAAAINRDYRSGRSMLLALGAIEIVLGAALAWLLTRSITRPLNQAVTIAE 224 Query: 227 QVAAGDLTSEIQQSQKDETGRLLQALAVMNQKLKDIVKEVRHGTDSMVTASTQIATGNLD 286 VAAGDLTS I S +DETG+LL AL MN L DIV VR GT+++ TAS +IATGNLD Sbjct: 225 TVAAGDLTSRIDSSSRDETGKLLAALKTMNGNLLDIVGRVRMGTETINTASREIATGNLD 284 Query: 287 LSSRTEEQASSLEETASSMEELTSTVKQNAEHSRKASELALHSSQIAKQGGTVVEKVVQT 346 LS+RTE QA SLEETAS+ME+LTSTVKQNA+++R+A+ELA +SQ+A QGG VV++VV T Sbjct: 285 LSARTEAQAGSLEETASAMEQLTSTVKQNADNARQANELAASASQVATQGGAVVDQVVAT 344 Query: 347 MSSINDSSNKIVDIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVRVLAQRS 406 M +I+ SS KI DII VIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVR LAQRS Sbjct: 345 MGAIHASSQKIADIIGVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVRSLAQRS 404 Query: 407 ATAAKEIKELIQNSVDKVSSGSELVAEAGQTMNEVVASIQQVTNIVTEISEATREQSDGI 466 A+AAKEIK+LI +SV+KV GS LVA AG TM EVV S+ +VT +V EI+ A++EQSDGI Sbjct: 405 ASAAKEIKQLIDDSVEKVDDGSRLVARAGDTMQEVVQSVARVTAVVREITLASQEQSDGI 464 Query: 467 EQVNQAVMQMDQVTQQNAALVEEAAAAAQSLQDQAKRLSTVVSVFRIDALDHPQAPAAKV 526 EQVN A+ +D+ TQQNAALVE+AAAAA+S+QDQA L+ VSVFR++ D Q A V Sbjct: 465 EQVNLAITHIDETTQQNAALVEQAAAAARSMQDQAASLTDAVSVFRLE--DDAQVLAVAV 522 >gi|300309376|ref|YP_003773468.1| methyl-accepting chemotaxis protein I [Herbaspirillum seropedicae SmR1] Length = 534 Score = 423 bits (1087), Expect = e-119, Method: Compositional matrix adjust. Identities = 267/532 (50%), Positives = 368/532 (69%), Gaps = 7/532 (1%) Query: 1 MRFQDLSIGTRLGIAFATLVLIIIGIVILGLSRLSEVNESLDHVVNDRYKKVAIINTISS 60 M+ +++I RL + F L+++++ + G++RL ++N + V++D+Y K + I Sbjct: 1 MQLSNVTIRVRLWLGFGLLMVLMLAMAASGIARLGQLNAQMKDVIHDKYPKTVVAGDIVD 60 Query: 61 NTDDIALSVRNRLISSNRTEAAQEKVEADRLLAENTKLYE---QLTQLIIRPKAKSQLER 117 + IA SVRN L+ Q K E +R+ + + E QL +L+ +++ L Sbjct: 61 QLNLIARSVRNILLLKREP---QIKSEYERISGADRAIREDLAQLDKLLTDGDSRAALTT 117 Query: 118 VIQARSEYSAVMLEVIRLQELDDRDSAVELLRTKMAPLQKKYMKELDGLSDTQQELMNQA 177 ++ A++ Y +V+ + + ++ A+++L ++ P+Q M D L Q E+M A Sbjct: 118 LVTAQNAYFEKRDKVLAMVQQGGKEGAIDMLIDEVRPVQSATMNAADALIRQQHEMMKTA 177 Query: 178 VVEAKENYENTRLTMVASGLVASIFAVLVALLISRGITSPLNQALSVAEQVAAGDLTSEI 237 E + NY R ++ A ++A +I+R IT+PL++A+ VAE VAAGDLTS I Sbjct: 178 GDEVESNYAQARTLLLLLAAAGLAAAAVIAWMITRSITAPLDRAVRVAETVAAGDLTSAI 237 Query: 238 QQSQKDETGRLLQALAVMNQKLKDIVKEVRHGTDSMVTASTQIATGNLDLSSRTEEQASS 297 +DET LL+AL MN +L DIV +VR TD++ TAS++IA GNLDLSSRTEEQA+S Sbjct: 238 DAHGRDETSMLLRALKKMNDRLLDIVSQVRVSTDTIATASSEIARGNLDLSSRTEEQAAS 297 Query: 298 LEETASSMEELTSTVKQNAEHSRKASELALHSSQIAKQGGTVVEKVVQTMSSINDSSNKI 357 LEETASSME+LT+TVKQNA H+ +AS+LA +S IA+QGG VV VV+TM +I+ SS KI Sbjct: 298 LEETASSMEQLTATVKQNASHAGQASQLAGSASDIARQGGEVVGHVVETMGAIDASSKKI 357 Query: 358 VDIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVASEVRVLAQRSATAAKEIKELI 417 VDII VIDGIAFQTNILALNAAVEAARAGEQGRGFAVVA+EVR LAQRSATAA EIK LI Sbjct: 358 VDIIGVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVAAEVRALAQRSATAAHEIKALI 417 Query: 418 QNSVDKVSSGSELVAEAGQTMNEVVASIQQVTNIVTEISEATREQSDGIEQVNQAVMQMD 477 +SV +V +GS+LV +AG+TM+EVV S+Q+V +V EIS A +EQS GIEQVN A++QMD Sbjct: 418 ADSVARVGNGSKLVEQAGRTMHEVVQSVQRVGEVVNEISSAGQEQSAGIEQVNLAIVQMD 477 Query: 478 QVTQQNAALVEEAAAAAQSLQDQAKRLSTVVSVFRI-DALDHPQAPAAKVVP 528 QVTQQNAALVE+AAAAAQ+LQDQA +L+ +VS+F++ DA P+ AA P Sbjct: 478 QVTQQNAALVEQAAAAAQALQDQAAQLARMVSIFKLEDAASEPRRVAAPASP 529 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.311 0.124 0.306 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,072,782 Number of extensions: 32381 Number of successful extensions: 563 Number of sequences better than 1.0e-08: 70 Number of HSP's gapped: 255 Number of HSP's successfully gapped: 73 Length of query: 542 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 452 Effective length of database: 1,193,720 Effective search space: 539561440 Effective search space used: 539561440 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.8 bits) S2: 133 (55.8 bits)