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= 0001.2457.p (263 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310493|ref|YP_003774585.1| transcription regulator protein... 482 e-137 gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 136 2e-33 gi|300313272|ref|YP_003777364.1| transcription regulator protein... 130 1e-31 gi|300313063|ref|YP_003777155.1| transcription regulator protein... 123 1e-29 gi|300309916|ref|YP_003774008.1| transcription regulator protein... 92 5e-20 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 482 bits (1240), Expect = e-137, Method: Compositional matrix adjust. Identities = 230/263 (87%), Positives = 246/263 (93%) Query: 1 MREVEESPSDMLFNQSLEKGLAVLRAFNAQRRTMTLGDVASATGISKSSAQRMVHTLEAL 60 M E +++ SD+LFNQSLEKGLAVLRAFNAQ RTMTLGDVASATGISKSSAQRMVHTLE L Sbjct: 1 MNEPDDTASDLLFNQSLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETL 60 Query: 61 GYVCKHPKTRRYQLTPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYHCEM 120 GY+CKHPKTRRYQLTPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPY EM Sbjct: 61 GYICKHPKTRRYQLTPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEM 120 Query: 121 VYVARFVASKFIPIHMPIGSRIPMYCTASGRAYLSALSAAEAQTILMASDRVVHTPHTLT 180 VYVARFVASKFIPIHMPIGSRIPMYCTASGRAYLSAL EAQ IL +S+R VHTPHT T Sbjct: 121 VYVARFVASKFIPIHMPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRT 180 Query: 181 EVDDIMQALVATRERGFASNREELFLGDMTIASPIFNSERTPVASVHVVAPTSRWTLEDA 240 +V+DIMQ L A+RERGFASNREELFLGDM+IASP+FNSER PVASVHVVAPTSRW++E+A Sbjct: 181 DVEDIMQLLAASRERGFASNREELFLGDMSIASPVFNSERKPVASVHVVAPTSRWSVEEA 240 Query: 241 EKKLGPLVLDCARAISNSVRTLV 263 EKKLGPLVL+CARAISNSVRTLV Sbjct: 241 EKKLGPLVLECARAISNSVRTLV 263 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 136 bits (342), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 79/248 (31%), Positives = 139/248 (56%), Gaps = 2/248 (0%) Query: 9 SDMLFNQSLEKGLAVLRAFNAQRRTMTLGDVASATGISKSSAQRMVHTLEALGYVCKHPK 68 +D F SL +GLAV+RAF+ RR++T+ ++ TGI +++ +R +HTL+ LGY Sbjct: 11 TDPSFMTSLARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGYA--DSD 68 Query: 69 TRRYQLTPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYHCEMVYVARFVA 128 + L PK++ +GY+YL++ L A P+L+ ++ GE+ +L E++YVAR A Sbjct: 69 VNNFSLRPKILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEVLYVARSAA 128 Query: 129 SKFIPIHMPIGSRIPMYCTASGRAYLSALSAAEAQTILMASDRVVHTPHTLTEVDDIMQA 188 S+ + + + GSR+P YCT+ GRA L+ L + + T T+ + Sbjct: 129 SRVMSVALNTGSRLPAYCTSLGRAMLAHLPEDQLKAYFDKVKLRALTEKTVVSQKRLRDI 188 Query: 189 LVATRERGFASNREELFLGDMTIASPIFNSERTPVASVHVVAPTSRWTLEDAEKKLGPLV 248 L R G+A EEL +G +IA P+ + +A+++V A +R ++ E+++ P++ Sbjct: 189 LAGVRANGYAVIDEELEVGLRSIAVPVRGASGNVLAALNVGAQAARVSVAQMEEEILPVL 248 Query: 249 LDCARAIS 256 L A+ +S Sbjct: 249 LRGAQELS 256 >gi|300313272|ref|YP_003777364.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 266 Score = 130 bits (327), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 82/247 (33%), Positives = 133/247 (53%), Gaps = 2/247 (0%) Query: 3 EVEESPSDMLFNQSLEKGLAVLRAFNAQRRTMTLGDVASATGISKSSAQRMVHTLEALGY 62 + +E P LEKGL V+ AF+ +R +T+ +VA TG+++++A+R + TL LGY Sbjct: 12 DADEGPLKRDLVAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTRAAARRYLITLTHLGY 71 Query: 63 VCKHPKTRRYQLTPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYHCEMVY 122 + KT + LTP V+ +G +YL + L + P L LA GE + H ++V Sbjct: 72 MRHDNKT--FSLTPMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEAASCGVLDHDQLVC 129 Query: 123 VARFVASKFIPIHMPIGSRIPMYCTASGRAYLSALSAAEAQTILMASDRVVHTPHTLTEV 182 VA A + + + G+R+P YCTA+GR L+ L A+ IL + T HT+T+V Sbjct: 130 VAAVSAGQLVSTTLQPGTRVPAYCTANGRILLANLPPAQLDAILARAQPEAITAHTITDV 189 Query: 183 DDIMQALVATRERGFASNREELFLGDMTIASPIFNSERTPVASVHVVAPTSRWTLEDAEK 242 + + + R +G+A +EL LG T+A P+ N VA++++ R LED + Sbjct: 190 ERLGLEIARARVQGYALVDQELELGLRTMAVPVRNFRGEVVAAMNISVHAGRMKLEDMVE 249 Query: 243 KLGPLVL 249 + P +L Sbjct: 250 RCLPAML 256 >gi|300313063|ref|YP_003777155.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 123 bits (309), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 74/244 (30%), Positives = 129/244 (52%), Gaps = 2/244 (0%) Query: 16 SLEKGLAVLRAFNAQRRTMTLGDVASATGISKSSAQRMVHTLEALGYVCKHPKTRRYQLT 75 LEKGL +L AF+ + MT VA+ TG+S+++A+R + TLE LGY+ H + + + LT Sbjct: 32 GLEKGLLILEAFDFDNQRMTSAQVAARTGLSRTAARRYLLTLEHLGYL--HSEGKTFALT 89 Query: 76 PKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYHCEMVYVARFVASKFIPIH 135 P+V++VG++Y + L + PFL ++ TGE V + ++V++AR A++ + Sbjct: 90 PRVLKVGWSYFDSAPLPRILQPFLQQITGQTGEAVYASVLDGWDLVFIARNGATRVMTTG 149 Query: 136 MPIGSRIPMYCTASGRAYLSALSAAEAQTILMASDRVVHTPHTLTEVDDIMQALVATRER 195 +G+R+P + G LSAL + + L TPHT+T+ D + + R+ Sbjct: 150 FVLGARVPAQLASPGIVMLSALPEQQVRDWLATCAMTPFTPHTITDPDQLYALIAQARQL 209 Query: 196 GFASNREELFLGDMTIASPIFNSERTPVASVHVVAPTSRWTLEDAEKKLGPLVLDCARAI 255 G+A ++L G IA P+ N + ++ + P + E ++ P + A A+ Sbjct: 210 GYAVVEQQLQTGVRGIAVPLKNRHAKVIGALSLSLPMAAEAREQTLARILPALQQAANAL 269 Query: 256 SNSV 259 N V Sbjct: 270 INLV 273 >gi|300309916|ref|YP_003774008.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 92.0 bits (227), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 60/237 (25%), Positives = 117/237 (49%) Query: 16 SLEKGLAVLRAFNAQRRTMTLGDVASATGISKSSAQRMVHTLEALGYVCKHPKTRRYQLT 75 + K + VL+ Q + + +A+ +G + + R++ L A G V ++P+ ++Y++ Sbjct: 19 AFSKFMVVLQLIADQDAPLNIAQLAALSGYPRPTVYRILAALMAEGMVVENPRNKQYEVG 78 Query: 76 PKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYHCEMVYVARFVASKFIPIH 135 P+++ + + A L +L ++T ETV+L P MVY+ + + + + + Sbjct: 79 PRLINLASRAWDRSDIRTTAIESLRQLRDLTRETVHLAVPSDHSMVYIEKLESPQAVRMD 138 Query: 136 MPIGSRIPMYCTASGRAYLSALSAAEAQTILMASDRVVHTPHTLTEVDDIMQALVATRER 195 IG+R+ +Y ++ G+AYL+ L A + ++ T +T TE+ + + TR R Sbjct: 139 SRIGTRVTLYSSSVGKAYLAGLEEAHRERLMRTLHLQAFTANTHTELAALRADVEDTRAR 198 Query: 196 GFASNREELFLGDMTIASPIFNSERTPVASVHVVAPTSRWTLEDAEKKLGPLVLDCA 252 G+A +REE + I ++ PVA V V P R + + + PL+ CA Sbjct: 199 GYAEDREENEAQIFCYGAAIVGADGVPVACVSVSIPLYRRLPDAQQAYVQPLLQACA 255 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 0.319 0.131 0.371 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: 715,958 Number of extensions: 26530 Number of successful extensions: 108 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 101 Number of HSP's successfully gapped: 9 Length of query: 263 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 180 Effective length of database: 1,226,865 Effective search space: 220835700 Effective search space used: 220835700 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: 129 (54.3 bits)