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= 0001.0162.p (220 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309495|ref|YP_003773587.1| cytochrome c553 protein [Herbas... 426 e-121 gi|300310720|ref|YP_003774812.1| cytochrome c553 protein [Herbas... 100 9e-23 gi|300310945|ref|YP_003775037.1| periplasmic cytochrome c553 pro... 59 3e-10 gi|300310946|ref|YP_003775038.1| periplasmic cytochrome c553 pro... 54 7e-09 >gi|300309495|ref|YP_003773587.1| cytochrome c553 protein [Herbaspirillum seropedicae SmR1] Length = 220 Score = 426 bits (1095), Expect = e-121, Method: Compositional matrix adjust. Identities = 202/220 (91%), Positives = 214/220 (97%) Query: 1 MNRAFSPLLYTVLAAVLAVSSAAHAADDKKAPFKADPAKGEALYTNGDSARNIVACVSCH 60 MNRAFSPLLY+V AA LAV+S AHAADDKKAP KADPAKGEALYTNGDSARNIVACVSCH Sbjct: 1 MNRAFSPLLYSVFAAFLAVASTAHAADDKKAPVKADPAKGEALYTNGDSARNIVACVSCH 60 Query: 61 GAAGNSTITQNPKLSGQHEAYIAKQLLNFRTPERNNPVMTPMAKALSEEDIHNLAAYLSA 120 GAAGNSTITQNPKL+GQHEAYIAKQLLNFRTP+RNNPVM+PMAKALS+EDIHN+AA+L+A Sbjct: 61 GAAGNSTITQNPKLAGQHEAYIAKQLLNFRTPDRNNPVMSPMAKALSDEDIHNVAAFLAA 120 Query: 121 QEPKPGAAKNKETIELGKHIWRAGIAAKNVPACAGCHSPNGAGIPAQYPRLAGQHQDYTV 180 Q PKPGAAKNK+TI+LGKHIWRAGIAAKNVPACAGCHSPNGAGIPAQYPRLAGQHQDYTV Sbjct: 121 QAPKPGAAKNKDTIDLGKHIWRAGIAAKNVPACAGCHSPNGAGIPAQYPRLAGQHQDYTV 180 Query: 181 AQLTNFRGGARTNSVQMTAIAERLSDKEIKAVADYIAGLK 220 AQLTNFRGGARTNSVQMT I+ERLSDKEIKAVADYIAGLK Sbjct: 181 AQLTNFRGGARTNSVQMTTISERLSDKEIKAVADYIAGLK 220 >gi|300310720|ref|YP_003774812.1| cytochrome c553 protein [Herbaspirillum seropedicae SmR1] Length = 252 Score = 100 bits (249), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 59/175 (33%), Positives = 95/175 (54%), Gaps = 7/175 (4%) Query: 50 ARNIVACVSCHGAAGNSTIT-QNPKLSGQHEAYIAKQLLNFRTPERNNPVMTPMAKALSE 108 A + AC +CHG G +T P+++G+ EAY+ QL +FR +R P+M + LS+ Sbjct: 46 AERMAACTACHGKQGRATADGYYPRIAGKPEAYLLNQLQSFRDGQRRYPMMNYLLANLSD 105 Query: 109 EDIHNLAAYLSAQEPK-PGAAKNKET---IELGKHIWRAGIAAKNVPACAGCHSPNGAGI 164 + + +A + + Q P P A N+ + +E G+ + G + +PACA CH+P+ G+ Sbjct: 106 DYLQQIARFFADQHPPYPPPASNEASATVLERGRRLVTEGDPQRRLPACAACHAPSLGGV 165 Query: 165 PAQYPRLAGQHQDYTVAQLTNFRGGARTNSVQ--MTAIAERLSDKEIKAVADYIA 217 P L G +DY AQL +R G RT M A+A LS +EI A + +++ Sbjct: 166 QPGIPGLLGLPRDYINAQLGAWRNGDRTAKTPDCMAAVARALSPEEINAASSWLS 220 >gi|300310945|ref|YP_003775037.1| periplasmic cytochrome c553 protein [Herbaspirillum seropedicae SmR1] Length = 106 Score = 59.3 bits (142), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 40/118 (33%), Positives = 58/118 (49%), Gaps = 20/118 (16%) Query: 10 YTVLAAVLAVSSAAHAADDKKAPFKADPAKGEALYTNGDSARNIVA-CVSCHGAAGNST- 67 + V A++ V +A AAD + N +A N V+ C+ CHG G Sbjct: 4 HLVFLALVGVVGSASAAD---------------IVGNAKAAENKVSMCIGCHGIPGYKAS 48 Query: 68 ---ITQNPKLSGQHEAYIAKQLLNFRTPERNNPVMTPMAKALSEEDIHNLAAYLSAQE 122 + Q P L GQ AYI L ++ ER +P M +A +LS++DI +LAAY S Q+ Sbjct: 49 YPEVYQVPMLGGQSAAYIESALRAYQKGERKHPSMMGVAASLSDQDIADLAAYYSQQK 106 >gi|300310946|ref|YP_003775038.1| periplasmic cytochrome c553 protein [Herbaspirillum seropedicae SmR1] Length = 117 Score = 54.3 bits (129), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 41/113 (36%), Positives = 54/113 (47%), Gaps = 22/113 (19%) Query: 12 VLAAVLAVSSAAHAADDKKAPFKADPAKGEALYTNGDSARNIVACVSCHGAAGNS-TITQ 70 +LAA + AA+AAD NG + C SCHG NS T Sbjct: 10 LLAAATLCTQAANAAD----------------VANGRALTEKYNCASCHGKDYNSPTEPA 53 Query: 71 NPKLSGQHEAYIAKQLLNFRTPE-----RNNPVMTPMAKALSEEDIHNLAAYL 118 PKL+GQH Y+ L +R RNN +M+ AK LS+ DI+++AAYL Sbjct: 54 YPKLAGQHADYLKHALTAYRRGNTAMNGRNNAIMSAQAKPLSDRDINDIAAYL 106 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 0.314 0.127 0.369 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: 611,216 Number of extensions: 23890 Number of successful extensions: 99 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 94 Number of HSP's successfully gapped: 4 Length of query: 220 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 138 Effective length of database: 1,231,600 Effective search space: 169960800 Effective search space used: 169960800 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 (22.0 bits) S2: 129 (54.3 bits)