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= 0006.0026.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-... 922 0.0 gi|300313871|ref|YP_003777963.1| thiophene oxidase [Herbaspirill... 253 2e-68 gi|300310902|ref|YP_003774994.1| alkanesulfonate monooxygenase [... 77 2e-15 gi|300310284|ref|YP_003774376.1| coenzyme F420-dependent N5,N10-... 77 2e-15 >gi|300314031|ref|YP_003778123.1| coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase [Herbaspirillum seropedicae SmR1] Length = 459 Score = 922 bits (2382), Expect = 0.0, Method: Compositional matrix adjust. Identities = 442/459 (96%), Positives = 452/459 (98%) Query: 1 MAKKEIRLNAFNMNCVSHINHGLWTHPRDRSQDYTDIAYWTDLARLLERGKFDGLFLADI 60 MAKKEIRLNAFNMNCVSHINHGLWTHPRDRSQDYTDIAYWTDLARLLERGKFDGLFLADI Sbjct: 1 MAKKEIRLNAFNMNCVSHINHGLWTHPRDRSQDYTDIAYWTDLARLLERGKFDGLFLADI 60 Query: 61 VGVYDVYQGNTDLTLRETIQLPVNDPLMLVSAMAAVTEHLGFGVTANLSYEAPFLFARRM 120 VGVYDVYQGNTDLTLRETIQLPVNDPLMLV AMAAVTEHLGFGVTANL+YEAPFLFARRM Sbjct: 61 VGVYDVYQGNTDLTLRETIQLPVNDPLMLVPAMAAVTEHLGFGVTANLTYEAPFLFARRM 120 Query: 121 STLDHLSRGRVGWNIVTGYLDSAARAMGLHEQLEHDQRYDRADEFMEVVYKLWEGSWEDG 180 STLDHLSRGRVGWNIVTGYLDSAARAMGLHEQLEHDQRYDRADEFMEVVYKLWEGSWEDG Sbjct: 121 STLDHLSRGRVGWNIVTGYLDSAARAMGLHEQLEHDQRYDRADEFMEVVYKLWEGSWEDG 180 Query: 181 AVVRDRARRVYANPAKVHKIAHHGDYYHVEGIHLSEPSRQRTPVLYQAGSSGRGQAFGAR 240 AV+RDRARRVYA+PAKVHKIAHHGDYYHVEGIHLSEPSRQRTPVLYQAGSSGRGQAFGAR Sbjct: 181 AVLRDRARRVYADPAKVHKIAHHGDYYHVEGIHLSEPSRQRTPVLYQAGSSGRGQAFGAR 240 Query: 241 HAECVFISSQSKDATRKLVQSIRDGAVREGRDPDAIKIFMGLTVVTGRTDEEAQERFREY 300 HAECVFISSQSKDATRKLVQSIRDGAVREGRDPDAIKIFMGLTVVTGRT+++AQER+REY Sbjct: 241 HAECVFISSQSKDATRKLVQSIRDGAVREGRDPDAIKIFMGLTVVTGRTEQQAQERYREY 300 Query: 301 ASYASPEAGLAHFSAGTGIDFSKYEFDEPIRAAKTNAIESLTKVVTQPELNWTKRKLLQQ 360 A YASPEAGLAH+SAGTGIDFS+YE DEPIR AKTNAIESLTKVVTQPELNWTKRKLLQQ Sbjct: 301 ARYASPEAGLAHYSAGTGIDFSQYELDEPIRPAKTNAIESLTKVVTQPELNWTKRKLLQQ 360 Query: 361 LELGGRYASIVGAPDRIADELESWVADTGIDGYNLTRTVAPESFEDFVNLVIPVLQERGS 420 LELGGRYASIVGAPDR+ADELESWVADTGIDGYNLTRTV PESFEDFV LVIPVLQERGS Sbjct: 361 LELGGRYASIVGAPDRVADELESWVADTGIDGYNLTRTVTPESFEDFVELVIPVLQERGS 420 Query: 421 YKREYAQGTLREKLFQRGATLPQEHVGAGFRAGAAVEHA 459 YKREYAQGTLREKLFQRGATLPQEHVGAGFR GAAVEHA Sbjct: 421 YKREYAQGTLREKLFQRGATLPQEHVGAGFRVGAAVEHA 459 >gi|300313871|ref|YP_003777963.1| thiophene oxidase [Herbaspirillum seropedicae SmR1] Length = 433 Score = 253 bits (647), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 158/444 (35%), Positives = 232/444 (52%), Gaps = 30/444 (6%) Query: 6 IRLNAFNMNCVSHINHGLWTHPRDRSQDYTDIAYWTDLARLLERGKFDGLFLADIVGV-- 63 + L AF + + + LW HP+ R + ++ Y+ +AR LERGKFD LF AD + V Sbjct: 1 MHLAAFLIAGNAAHSQALWRHPQSRRGGFLELDYYLHIARTLERGKFDLLFFADRLAVST 60 Query: 64 -------YDVYQGNTDLTLRETIQLPVNDPLMLVSAMAAVTEHLGFGVTANLSYEAPFLF 116 + +Y G+ D T DPL ++ A+AA T H+G G T + +Y 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 WEDGAVVRDRARRVYANPAKVHKIAHHGDYYHVEGIHLSEPSRQRTPVLYQAGSSGRGQA 236 W+ A+ + R YA+ KV I H G ++ V G S Q PV+ QAGSS RGQ Sbjct: 172 WQPDALRLQQDR--YADADKVAAIDHQGAHFSVRGPLNIPASPQGHPVIIQAGSSDRGQD 229 Query: 237 FGARHAECVFISSQSKDATRKLVQSIRDGAVREGRDPDAIKIFMGLTVVTGRTDEEAQER 296 F AR AE VF + + +++ A + GR P I+I + G++ + A+E Sbjct: 230 FAARWAEVVFNIQPDLPRLQAFYRDLKNRAQQFGRRPQDIRILSAVMPFVGQSRQHAREL 289 Query: 297 FREYASYASPEAGLAHFSAGTGIDFSKYEFDEPIRAAKTNAIESLTKVVTQPELNWTKRK 356 + + A P GL+ S+ +DFS + D P+ + + I+ L K++ + + Sbjct: 290 QEQANALADPLVGLSTLSSHMNVDFSGFALDAPLGDVQVSGIQGLFKLLRA----ISAER 345 Query: 357 LLQQLELGGRYA------SIVGAPDRIADELESWVADTGIDGYNLTRTVAPESFEDFVNL 410 L + G YA I G +AD L+S + G DG+ ++ + P F+DFV+ 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 = 77.4 bits (189), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 84/344 (24%), Positives = 144/344 (41%), Gaps = 40/344 (11%) Query: 85 DPLMLVSAMAAVTEHLGFGVTANLSYEAPFLFARRMSTLDHLSRGRVGWNIVTGYLDSAA 144 DP ++ +++ VT+ + V S P AR+ +TLD GR+ N+V G + Sbjct: 57 DPWVVAASLVPVTQRIKLLVALRTSLGGPGPSARQAATLDQALNGRLLLNVVPGGDATEL 116 Query: 145 RAMGLHEQLEHDQRYDRADEFMEVVYKLWEGSWEDGAVVRDRARRVYANPAKVHKIAHHG 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 DGAVREGRDPDAIKIFMGLTVVTGRTDEEAQERFREYASYASPEAGLAHFSAGTGIDFSK 323 + A R+GR ++ + L + T EA S + E A ++++ Sbjct: 213 ERAARQGR---TVRFGVRLHAIVRETTAEAWTAAERLISKLTDED-----IARAQQNYAR 264 Query: 324 YEFDEPIRAAKTNAIESLTKVVTQPELNWTKRKLLQQLELGGRYASIVGAPDRIADELES 383 + R A + K+ P L W L++ GG S+VG +A+ L+ Sbjct: 265 MDSVGQQRMAALHGGRR-DKLEIAPNL-WAGVGLVR----GGAGTSLVGDATTVAERLQE 318 Query: 384 WVADTGIDGYNLTRTVAPESFEDFVNLVIPVLQERGSYKREYAQ 427 + AD G+D + L+ E F LV P+L + R+ AQ Sbjct: 319 Y-ADLGVDTFVLSGYPHLEEAIRFAELVFPLLGKNAVTLRDRAQ 361 >gi|300310284|ref|YP_003774376.1| coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase [Herbaspirillum seropedicae SmR1] Length = 385 Score = 77.4 bits (189), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/307 (23%), Positives = 132/307 (42%), 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 WEGSWEDGAVVRDRARRVYANPAKVHKIAHHGDYYHVEGIHLS-EPSRQRTPVLYQAGSS 231 W GD+Y LS +P ++ P ++Q GSS Sbjct: 165 WTQD----------------------DFTFKGDFYRFNNYTLSPKPVQKPHPEIFQGGSS 202 Query: 232 GRGQAFGARHAECVFISSQSKDATRKLVQSIRDGAVREGRDPDAIKIFMGLTVVTGRTDE 291 + A ++ F + + + + + I+ A + G ++I + V+ T+E Sbjct: 203 RAARDNAASVSDWYFTNGNTLEGLKAQIDDIQAKAAQNGHK---VRIGVNAFVIARDTEE 259 Query: 292 EAQERFREYASYASPEAGLAHFSAGTGIDFSKYEFDEPIRAAKTNAIESLTKVVTQPELN 351 EAQ ++ +A EA H A +A++ K + E N Sbjct: 260 EAQAVLQDIIDHAHVEA--VH--------------------AFGDAVKQAGKASPEGEGN 297 Query: 352 WTKRKLLQQLELG-GRYASIVGAPDRIADELESWVADTGIDGYNLTRTVAPESFEDFVNL 410 W K ++ G +++G P +IA+ + + A G+D E E F Sbjct: 298 WAKSTFEDLVQYNDGFKTNLIGTPQQIAERIVALKA-IGVDLVLTGFLHFIEEVEYFGQK 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: 1,492,749 Number of extensions: 64629 Number of successful extensions: 153 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 150 Number of HSP's successfully gapped: 5 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)