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= 0504.0038.p (215 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value STM3666 [C] COG1142 Fe-S-cluster-containing hydrogenase componen... 117 2e-26 YPO0343 [C] COG1142 Fe-S-cluster-containing hydrogenase componen... 112 3e-25 ZygfS [C] COG1142 Fe-S-cluster-containing hydrogenase components 2 108 6e-24 ygfS [C] COG1142 Fe-S-cluster-containing hydrogenase components 2 108 6e-24 ZyiaI [C] COG1142 Fe-S-cluster-containing hydrogenase components 2 104 1e-22 >STM3666 [C] COG1142 Fe-S-cluster-containing hydrogenase components 2 Length = 157 Score = 117 bits (292), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 70/195 (35%), Positives = 91/195 (46%), Gaps = 51/195 (26%) Query: 7 NSLVIAYAAKCIGCKACELACFAVHNRDNGVGTAVGTVTMPVLPRLYVIRTDSFTMPVQC 66 N ++A A+ CIGC+ CE+AC H + T +PR+ VI+ DSFT C Sbjct: 2 NRFIMADASACIGCRTCEVACVVSHQEQQN---SAAVTTADFVPRIRVIKEDSFTTATVC 58 Query: 67 RQCENAPCAGACPVQAIRQQDGVIAIDAEACIGCKACALACPFGAISLYKAYSGGAELPX 126 QCE+APCA CPVQAIR+ G I + + CIGCK+C LACPFGA+++ + SG Sbjct: 59 HQCEDAPCANVCPVQAIRRDRGHIFVTSSRCIGCKSCMLACPFGAMTVVASASGA----- 113 Query: 127 XXXXXERRDSKLQRKTRITAYKCDLCRNTEIPGGTXXXXXXXXXXXXXXXXQDRNPSPAC 186 A KCDLC + R PAC Sbjct: 114 ------------------QAIKCDLCWH-------------------------REAGPAC 130 Query: 187 VAVCPEKALRLVEAG 201 V CP AL+ V+A Sbjct: 131 VEACPTSALQCVDAA 145 >YPO0343 [C] COG1142 Fe-S-cluster-containing hydrogenase components 2 Length = 185 Score = 112 bits (281), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 73/207 (35%), Positives = 97/207 (46%), Gaps = 40/207 (19%) Query: 7 NSLVIAYAAKCIGCKACELACFAVHNRDNGVGTAVGTVTMP--VLPRLYVIRTDSFTMPV 64 N VIA +CIGC+ CE+AC H+ DN V T MP PRL V+++ + + P+ Sbjct: 2 NRFVIADMTQCIGCRTCEIACVVAHSADNKVST-----LMPEQFHPRLSVMKSFAVSTPI 56 Query: 65 QCRQCENAPCAGACPVQAIRQQDGVIAIDAEACIGCKACALACPFGAISLYKAYSGGAEL 124 C QCE+APC ACP AI + + A CIGCK C L CPFGA+S+ + + G + Sbjct: 57 LCHQCEDAPCENACPNGAIITGSHGVQLLASRCIGCKTCMLVCPFGAMSIIERPADGQQ- 115 Query: 125 PXXXXXXERRDSKLQRKTRITAYKCDLCRNTEIPGGTXXXXXXXXXXXXXXXXQDRNPSP 184 + + R A+KCDLC R P Sbjct: 116 -----AADSQPVMASGSGRAQAHKCDLC-------------------------HQRESGP 145 Query: 185 ACVAVCPEKALRLVEAGTGSSCSLNRE 211 AC+ VCP AL+LV G +L RE Sbjct: 146 ACIEVCPTNALKLVTPGVLE--ALQRE 170 >ZygfS [C] COG1142 Fe-S-cluster-containing hydrogenase components 2 Length = 163 Score = 108 bits (270), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 68/192 (35%), Positives = 87/192 (45%), Gaps = 52/192 (27%) Query: 7 NSLVIAYAAKCIGCKACELACFAVHNRDNGVGTAVGTVTMPVLPRLYVIRTDSFTMPVQC 66 SL+I A CIGC+ CE+AC H + + V LPRL V R DS + PV C Sbjct: 3 KSLIIVNPADCIGCRTCEVACVVAHPSEQELNADV------FLPRLKVQRLDSISAPVMC 56 Query: 67 RQCENAPCAGACPVQAIRQQDGVIAIDAEACIGCKACALACPFGAISLYKAYSGGAELPX 126 QCENAPC GACPV A+ + V+ ++ CIGC++C ACPFG I++ Sbjct: 57 HQCENAPCVGACPVGALTMGEQVVQTNSARCIGCQSCVSACPFGMITI------------ 104 Query: 127 XXXXXERRDSKLQRKTRITAYKCDLCRNTEIPGGTXXXXXXXXXXXXXXXXQDRNPSPAC 186 L TR KCDLC + R PAC Sbjct: 105 ---------QSLPGDTRQQIVKCDLC-------------------------EQREEGPAC 130 Query: 187 VAVCPEKALRLV 198 V CP +AL+L+ Sbjct: 131 VESCPTQALQLL 142 >ygfS [C] COG1142 Fe-S-cluster-containing hydrogenase components 2 Length = 163 Score = 108 bits (270), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 68/192 (35%), Positives = 87/192 (45%), Gaps = 52/192 (27%) Query: 7 NSLVIAYAAKCIGCKACELACFAVHNRDNGVGTAVGTVTMPVLPRLYVIRTDSFTMPVQC 66 SL+I A CIGC+ CE+AC H + + V LPRL V R DS + PV C Sbjct: 3 KSLIIVNPADCIGCRTCEVACVVAHPSEQELNADV------FLPRLKVQRLDSISAPVMC 56 Query: 67 RQCENAPCAGACPVQAIRQQDGVIAIDAEACIGCKACALACPFGAISLYKAYSGGAELPX 126 QCENAPC GACPV A+ + V+ ++ CIGC++C ACPFG I++ Sbjct: 57 HQCENAPCVGACPVGALTMGEQVVQTNSARCIGCQSCVSACPFGMITI------------ 104 Query: 127 XXXXXERRDSKLQRKTRITAYKCDLCRNTEIPGGTXXXXXXXXXXXXXXXXQDRNPSPAC 186 L TR KCDLC + R PAC Sbjct: 105 ---------QSLPGDTRQQIVKCDLC-------------------------EQREEGPAC 130 Query: 187 VAVCPEKALRLV 198 V CP +AL+L+ Sbjct: 131 VESCPTQALQLL 142 >ZyiaI [C] COG1142 Fe-S-cluster-containing hydrogenase components 2 Length = 157 Score = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 69/193 (35%), Positives = 95/193 (49%), Gaps = 51/193 (26%) Query: 7 NSLVIAYAAKCIGCKACELACFAVHNRDNGVGTAVGTVTMPVLPRLYVIRTDSFTMPVQC 66 N +IA A KCIGC+ CE+AC AV +++N A+ + R+ VI+ S+T V C Sbjct: 2 NRFIIADATKCIGCRTCEVAC-AVSHQENQDCAALSPDEF--ISRIRVIKDHSWTTAVAC 58 Query: 67 RQCENAPCAGACPVQAIRQQDGVIAIDAEACIGCKACALACPFGAISLYKAYSGGAELPX 126 QCE+APCA CPV AI ++ G I ++ CIGCK+C LACPFGA+ + + Sbjct: 59 HQCEDAPCANVCPVDAISREHGHIFVEQTRCIGCKSCMLACPFGAMEVVSS--------- 109 Query: 127 XXXXXERRDSKLQRKTRITAYKCDLCRNTEIPGGTXXXXXXXXXXXXXXXXQDRNPSPAC 186 ++K R A KCDLC + R PAC Sbjct: 110 ------------RKKAR--AIKCDLCWH-------------------------RETGPAC 130 Query: 187 VAVCPEKALRLVE 199 V CP KAL+ ++ Sbjct: 131 VEACPTKALQCMD 143 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.322 0.135 0.429 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 13,169,971 Number of extensions: 434033 Number of successful extensions: 3671 Number of sequences better than 1.0e-05: 109 Number of HSP's gapped: 3475 Number of HSP's successfully gapped: 109 Length of query: 215 Length of database: 38,378,431 Length adjustment: 102 Effective length of query: 113 Effective length of database: 26,614,363 Effective search space: 3007423019 Effective search space used: 3007423019 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 (22.0 bits) S2: 113 (48.1 bits)