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= 0001.4640.p (459 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314031|ref|YP_003778123.1| coenzyme F420-dependent N5,N10-... 905 0.0 gi|300313871|ref|YP_003777963.1| thiophene oxidase [Herbaspirill... 258 6e-70 gi|300310902|ref|YP_003774994.1| alkanesulfonate monooxygenase [... 79 9e-16 gi|300310284|ref|YP_003774376.1| coenzyme F420-dependent N5,N10-... 79 1e-15 >gi|300314031|ref|YP_003778123.1| coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase [Herbaspirillum seropedicae SmR1] Length = 459 Score = 905 bits (2340), Expect = 0.0, Method: Compositional matrix adjust. Identities = 435/456 (95%), Positives = 448/456 (98%) Query: 1 MAKKEIRLNAFNMNCVSHINHGLWTHPRDRSQDYTDISYWTDLARLLERGKFDGLFLADI 60 MAKKEIRLNAFNMNCVSHINHGLWTHPRDRSQDYTDI+YWTDLARLLERGKFDGLFLADI Sbjct: 1 MAKKEIRLNAFNMNCVSHINHGLWTHPRDRSQDYTDIAYWTDLARLLERGKFDGLFLADI 60 Query: 61 VGVYDVYQGNTDLTLRETIQLPVNDPLMLVSAMAAVTEHLGFGVTANLTYEAPFLFARRM 120 VGVYDVYQGNTDLTLRETIQLPVNDPLMLV AMAAVTEHLGFGVTANLTYEAPFLFARRM Sbjct: 61 VGVYDVYQGNTDLTLRETIQLPVNDPLMLVPAMAAVTEHLGFGVTANLTYEAPFLFARRM 120 Query: 121 STLDHLSRGRVGWNIVTGYLDSAARAMGLHEQLEHDQRYDRADEFMEVVYKLWEGSWEDG 180 STLDHLSRGRVGWNIVTGYLDSAARAMGLHEQLEHDQRYDRADEFMEVVYKLWEGSWEDG Sbjct: 121 STLDHLSRGRVGWNIVTGYLDSAARAMGLHEQLEHDQRYDRADEFMEVVYKLWEGSWEDG 180 Query: 181 AVLRDRARRIYADPAKVHLISHHGDYYHVEGIHLSEPSRQRTPVLYQAGSSGRGQAFGAR 240 AVLRDRARR+YADPAKVH I+HHGDYYHVEGIHLSEPSRQRTPVLYQAGSSGRGQAFGAR Sbjct: 181 AVLRDRARRVYADPAKVHKIAHHGDYYHVEGIHLSEPSRQRTPVLYQAGSSGRGQAFGAR 240 Query: 241 HAECVFISSQSKDATRKLVQSIREGALREGRDAQAIKIFMGLTVVTGRTEQEAQDRYREY 300 HAECVFISSQSKDATRKLVQSIR+GA+REGRD AIKIFMGLTVVTGRTEQ+AQ+RYREY Sbjct: 241 HAECVFISSQSKDATRKLVQSIRDGAVREGRDPDAIKIFMGLTVVTGRTEQQAQERYREY 300 Query: 301 ARYANPEAGLAHFSAGTGIDFSKYGLDEPIRAAKTNAIESLTKVVTQPELNWTKRKLLQQ 360 ARYA+PEAGLAH+SAGTGIDFS+Y LDEPIR AKTNAIESLTKVVTQPELNWTKRKLLQQ Sbjct: 301 ARYASPEAGLAHYSAGTGIDFSQYELDEPIRPAKTNAIESLTKVVTQPELNWTKRKLLQQ 360 Query: 361 LELGGRYASIVGAPERVADELESWVNDTGIDGYNLTRTVSPESFEDFIELVIPVLQERGS 420 LELGGRYASIVGAP+RVADELESWV DTGIDGYNLTRTV+PESFEDF+ELVIPVLQERGS Sbjct: 361 LELGGRYASIVGAPDRVADELESWVADTGIDGYNLTRTVTPESFEDFVELVIPVLQERGS 420 Query: 421 YKREYAQGTLREKLFQRGATLPPEHVGAGFRVGAAV 456 YKREYAQGTLREKLFQRGATLP EHVGAGFRVGAAV Sbjct: 421 YKREYAQGTLREKLFQRGATLPQEHVGAGFRVGAAV 456 >gi|300313871|ref|YP_003777963.1| thiophene oxidase [Herbaspirillum seropedicae SmR1] Length = 433 Score = 258 bits (659), Expect = 6e-70, Method: Compositional matrix adjust. Identities = 161/444 (36%), Positives = 232/444 (52%), Gaps = 30/444 (6%) Query: 6 IRLNAFNMNCVSHINHGLWTHPRDRSQDYTDISYWTDLARLLERGKFDGLFLADIVGV-- 63 + L AF + + + LW HP+ R + ++ Y+ +AR LERGKFD LF AD + V Sbjct: 1 MHLAAFLIAGNAAHSQALWRHPQSRRGGFLELDYYLHIARTLERGKFDLLFFADRLAVST 60 Query: 64 -------YDVYQGNTDLTLRETIQLPVNDPLMLVSAMAAVTEHLGFGVTANLTYEAPFLF 116 + +Y G+ D T DPL ++ A+AA T H+G G T + TY P+ Sbjct: 61 RYGDSHLHGLYIGDQDATRL--------DPLPILGALAAATSHIGLGATRSTTYSQPYSL 112 Query: 117 ARRMSTLDHLSRGRVGWNIVTGYLDSAARAMGLHEQLEHDQRYDRADEFMEVVYKLWEGS 176 AR +TLDHLS GR WN+VT A GL E L HD RYDRADEF+EV +KLW S Sbjct: 113 AREFATLDHLSGGRAAWNVVTSVNQGEADNFGLKETLPHDVRYDRADEFLEVTHKLWH-S 171 Query: 177 WEDGAVLRDRARRIYADPAKVHLISHHGDYYHVEGIHLSEPSRQRTPVLYQAGSSGRGQA 236 W+ A+ + R YAD KV I H G ++ V G S Q PV+ QAGSS RGQ Sbjct: 172 WQPDALRLQQDR--YADADKVAAIDHQGAHFSVRGPLNIPASPQGHPVIIQAGSSDRGQD 229 Query: 237 FGARHAECVFISSQSKDATRKLVQSIREGALREGRDAQAIKIFMGLTVVTGRTEQEAQDR 296 F AR AE VF + + ++ A + GR Q I+I + G++ Q A++ Sbjct: 230 FAARWAEVVFNIQPDLPRLQAFYRDLKNRAQQFGRRPQDIRILSAVMPFVGQSRQHAREL 289 Query: 297 YREYARYANPEAGLAHFSAGTGIDFSKYGLDEPIRAAKTNAIESLTKVVTQPELNWTKRK 356 + A+P GL+ S+ +DFS + LD P+ + + I+ L K++ + + Sbjct: 290 QEQANALADPLVGLSTLSSHMNVDFSGFALDAPLGDVQVSGIQGLFKLLRA----ISAER 345 Query: 357 LLQQLELGGRYA------SIVGAPERVADELESWVNDTGIDGYNLTRTVSPESFEDFIEL 410 L + G YA I G VAD L+S + G DG+ ++ + P F+DF++ Sbjct: 346 QLTLADAGRLYAQGVLTPQIAGTAADVADWLQSIIVANGADGFVISPSHLPYGFDDFVDQ 405 Query: 411 VIPVLQERGSYKREYAQGTLREKL 434 VIP LQ RG+++++YA LR+ L Sbjct: 406 VIPELQRRGAFRQDYAGRQLRQHL 429 >gi|300310902|ref|YP_003774994.1| alkanesulfonate monooxygenase [Herbaspirillum seropedicae SmR1] Length = 375 Score = 78.6 bits (192), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 84/347 (24%), Positives = 145/347 (41%), Gaps = 46/347 (13%) Query: 85 DPLMLVSAMAAVTEHLGFGVTANLTYEAPFLFARRMSTLDHLSRGRVGWNIVTGYLDSAA 144 DP ++ +++ VT+ + V + P AR+ +TLD GR+ N+V G + Sbjct: 57 DPWVVAASLVPVTQRIKLLVALRTSLGGPGPSARQAATLDQALNGRLLLNVVPGGDATEL 116 Query: 145 RAMGLHEQLEHDQRYDRADEFMEVVYKLWEGSWEDGAVLRDRARRIYADPAKVHLISHHG 204 A G+ L+HD+RY+ ADE++ + KL +G +++ G Sbjct: 117 EADGVF--LKHDERYEAADEYLTIWRKLLQG----------------------ETVNYEG 152 Query: 205 DYYHVEGIHLSEPSRQRT-PVLYQAGSSGRGQAFGARHAECVFISSQSKDATRKLVQSIR 263 ++ + L P+ Q+ P LY GSS A+H + + A R+ + +R Sbjct: 153 KHFRIRNGQLFHPAVQQPYPPLYFGGSSPAAHDLAAKHVDAYLTWGEPPAAVRQKIDDVR 212 Query: 264 EGALREGRDAQAIKIFMGLTVVTGRTEQEA-QDRYREYARYANPEAGLAHFSAGTGIDFS 322 E A R+GR ++ + L + T EA R ++ + + A Sbjct: 213 ERAARQGR---TVRFGVRLHAIVRETTAEAWTAAERLISKLTDEDIARAQ---------Q 260 Query: 323 KYGLDEPIRAAKTNAIES--LTKVVTQPELNWTKRKLLQQLELGGRYASIVGAPERVADE 380 Y + + + A+ K+ P L W L++ GG S+VG VA+ Sbjct: 261 NYARMDSVGQQRMAALHGGRRDKLEIAPNL-WAGVGLVR----GGAGTSLVGDATTVAER 315 Query: 381 LESWVNDTGIDGYNLTRTVSPESFEDFIELVIPVLQERGSYKREYAQ 427 L+ + D G+D + L+ E F ELV P+L + R+ AQ Sbjct: 316 LQEYA-DLGVDTFVLSGYPHLEEAIRFAELVFPLLGKNAVTLRDRAQ 361 >gi|300310284|ref|YP_003774376.1| coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase [Herbaspirillum seropedicae SmR1] Length = 385 Score = 78.6 bits (192), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/307 (22%), Positives = 139/307 (45%), Gaps = 51/307 (16%) Query: 113 PFLFARRMSTLDHLSRGRVGWNIVTGYLDSAARAMGLHEQLEHDQRYDRADEFMEVVYKL 172 P + A++++T+DH+S GR+ N+V+G+ +A+G LEHD+RY R++EF+ + + Sbjct: 106 PAVVAKQIATIDHISNGRIAINVVSGWFKGEFQAIG-EPWLEHDERYRRSNEFIRALKGI 164 Query: 173 WEGSWEDGAVLRDRARRIYADPAKVHLISHHGDYYHVEGIHLS-EPSRQRTPVLYQAGSS 231 W +D + GD+Y LS +P ++ P ++Q GSS Sbjct: 165 WT---QDDFTFK-------------------GDFYRFNNYTLSPKPVQKPHPEIFQGGSS 202 Query: 232 GRGQAFGARHAECVFISSQSKDATRKLVQSIREGALREGRDAQAIKIFMGLTVVTGRTEQ 291 + A ++ F + + + + + I+ A + G ++I + V+ TE+ Sbjct: 203 RAARDNAASVSDWYFTNGNTLEGLKAQIDDIQAKAAQNGHK---VRIGVNAFVIARDTEE 259 Query: 292 EAQDRYREYARYANPEAGLAHFSAGTGIDFSKYGLDEPIRAAKTNAIESLTKVVTQPELN 351 EAQ ++ +A+ EA A +G +A++ K + E N Sbjct: 260 EAQAVLQDIIDHAHVEAVHA------------FG----------DAVKQAGKASPEGEGN 297 Query: 352 WTKRKLLQQLELG-GRYASIVGAPERVADELESWVNDTGIDGYNLTRTVSPESFEDFIEL 410 W K ++ G +++G P+++A+ + + + G+D E E F + Sbjct: 298 WAKSTFEDLVQYNDGFKTNLIGTPQQIAERIVA-LKAIGVDLVLTGFLHFIEEVEYFGQK 356 Query: 411 VIPVLQE 417 V+P+++E Sbjct: 357 VLPLVRE 363 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 0.135 0.401 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: 1,465,673 Number of extensions: 64616 Number of successful extensions: 157 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 151 Number of HSP's successfully gapped: 4 Length of query: 459 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 371 Effective length of database: 1,203,190 Effective search space: 446383490 Effective search space used: 446383490 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: 132 (55.5 bits)