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= 0001.0688.p (202 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310060|ref|YP_003774152.1| nicotinamidase-like protein [He... 314 3e-87 gi|300310658|ref|YP_003774750.1| 2,3-dihydro-2,3-dihydroxybenzoa... 65 3e-12 gi|300310740|ref|YP_003774832.1| isochorismatase family protein ... 57 1e-09 gi|300313872|ref|YP_003777964.1| 2,3-dihydro-2,3-dihydroxybenzoa... 56 2e-09 gi|300310742|ref|YP_003774834.1| cysteine hydrolase falmily prot... 56 2e-09 >gi|300310060|ref|YP_003774152.1| nicotinamidase-like protein [Herbaspirillum seropedicae SmR1] Length = 202 Score = 314 bits (804), Expect = 3e-87, Method: Compositional matrix adjust. Identities = 164/202 (81%), Positives = 180/202 (89%) Query: 1 MSYPQTLVQIAGGTARTATWQEAVLLIIDHQTEYTTGRAPMTGIDAAIGQVAELLRQARA 60 MS PQTL+QIAGG+ R ATWQEA L+IIDHQTEYTTGRAP+ GI AA+ +VA LL ARA Sbjct: 1 MSTPQTLIQIAGGSPRAATWQEAALVIIDHQTEYTTGRAPLAGIGAAVAEVALLLEHARA 60 Query: 61 AGAPVIHVVHHGKPGGAMFDPQGPHVAIIDGVQPVTGELVLSKSLPNSFAGTSLDEAIRK 120 A APVIHVVHHGKPGGAMFDPQGPHVAIIDGVQP GE V++K LPNSFAGT+LDE ++K Sbjct: 61 AAAPVIHVVHHGKPGGAMFDPQGPHVAIIDGVQPQPGEAVITKGLPNSFAGTTLDETLKK 120 Query: 121 TGRKSLIVAGFATHMCVSATVRSALDHGYASTVVAAACATRDLPDALGGPAIAAADIQRV 180 TGRKSLI+AGFATHMCVSATVRSALDHGYA TVVAAACATRDLPD LGGPA++AA+IQRV Sbjct: 121 TGRKSLIIAGFATHMCVSATVRSALDHGYACTVVAAACATRDLPDPLGGPALSAAEIQRV 180 Query: 181 ALAELADRYATVVADAAALASV 202 ALAELADRYATVVA A L +V Sbjct: 181 ALAELADRYATVVAHAGLLPAV 202 >gi|300310658|ref|YP_003774750.1| 2,3-dihydro-2,3-dihydroxybenzoate synthetase [Herbaspirillum seropedicae SmR1] Length = 207 Score = 65.5 bits (158), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 56/183 (30%), Positives = 81/183 (44%), Gaps = 26/183 (14%) Query: 25 LLIIDHQTEYTTGRAPMTG-IDAAIGQVAELLRQARAAGAPVIH-------------VVH 70 LLI+D + + G I AI + LL AR G PV H + Sbjct: 25 LLIVDFVNSFADPQQFGGGNIPQAIERTRSLLAHARQQGWPVAHSRIVFADDDADRNIFG 84 Query: 71 HGKPGGAMFDPQGPHVAIIDGVQPVTGELVLSKSLPNSFAGTSLDEAIRKTGRKSLIVAG 130 PG P AI+ + P GELV+ K++P++F GTSL + + G ++L+VAG Sbjct: 85 MKVPGMVTLKEDLPGSAIVPQLAPANGELVVRKTVPSAFFGTSLAPWLTQHGVQTLLVAG 144 Query: 131 FATHMCVSATVRSALDHGYASTVVAAACATRDLPDALGGPAIAAADIQRVALAELADRYA 190 T CV A+V A+ G+ VV+ R L GP L ++A +YA Sbjct: 145 AVTSGCVRASVVDAMSWGFRPLVVSDCVGDRAL-----GP-------HEANLFDMAQKYA 192 Query: 191 TVV 193 V+ Sbjct: 193 AVM 195 >gi|300310740|ref|YP_003774832.1| isochorismatase family protein [Herbaspirillum seropedicae SmR1] Length = 227 Score = 57.0 bits (136), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 35/116 (30%), Positives = 58/116 (50%), Gaps = 1/116 (0%) Query: 45 DAAIGQVAELLRQARAAGAPVIHVVHHGKPGGAMFDPQGPHVAIIDGVQPVTGELVLSKS 104 ++ + +++ R R G P + + G P G + P I+ + P+ GE+V+ K Sbjct: 72 ESHLPDLSDCPRTKRLRGNPTLGIGDVG-PMGRILVRGEPGNQILPQLTPMAGEIVIDKP 130 Query: 105 LPNSFAGTSLDEAIRKTGRKSLIVAGFATHMCVSATVRSALDHGYASTVVAAACAT 160 +F T L +++ G L+VAG T +CV ++R A D GY VV ACA+ Sbjct: 131 GKGAFYATDLHAQLQERGITHLLVAGVTTEVCVQTSMREANDRGYECLVVEDACAS 186 >gi|300313872|ref|YP_003777964.1| 2,3-dihydro-2,3-dihydroxybenzoate synthetase [Herbaspirillum seropedicae SmR1] Length = 176 Score = 56.2 bits (134), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 46/136 (33%), Positives = 63/136 (46%), Gaps = 3/136 (2%) Query: 25 LLIIDHQTEYTTGRAPMTGIDAAIGQVAELLRQARAAGAPVIHVVHHGKPGGAMFDPQGP 84 LLIID Q G + A I +V +L QARAAGAPVI V H +G Sbjct: 5 LLIIDIQHALCHGPDAVENSAAVIDRVNQLADQARAAGAPVI-FVQHEDEDALQRGSEG- 62 Query: 85 HVAIIDGVQPVTGELVLSKSLPNSFAGTSLDEAIRKTGRKSLIVAGFATHMCVSATVRSA 144 ++ G+ +L L K ++F T L ++ +L++ G T CV +TVR A Sbjct: 63 -WQLMPGLHQQPEDLHLPKRGSDAFHHTELQAMLKMRHISALVICGMQTEYCVESTVRRA 121 Query: 145 LDHGYASTVVAAACAT 160 L GY + A A T Sbjct: 122 LALGYPVMLAADAHTT 137 >gi|300310742|ref|YP_003774834.1| cysteine hydrolase falmily protein [Herbaspirillum seropedicae SmR1] Length = 231 Score = 55.8 bits (133), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 47/203 (23%), Positives = 81/203 (39%), Gaps = 37/203 (18%) Query: 25 LLIIDHQTEYTT--GRAPMTGID-----AAIGQVAELLRQARAAGAPVIHV--------- 68 L++ID QT++ G G D A I + ++L RA G +IH Sbjct: 26 LIVIDMQTDFCGIGGYVDKMGYDLSLTRAPIEPIRKVLAAMRAGGYTIIHTREGHRPDLS 85 Query: 69 -------------------VHHGKPGGAMFDPQGPHVAIIDGVQPVTGELVLSKSLPNSF 109 + P G + P II + P+ GE+++ K SF Sbjct: 86 DLPANKRWRSRQIGANGVGIGDAGPCGRILVRGEPGWEIIPELAPIAGEIIIDKPGKGSF 145 Query: 110 AGTSLDEAIRKTGRKSLIVAGFATHMCVSATVRSALDHGYASTVVAAACATRDLPDALGG 169 T L+ + G +++++ G T +CV T+R A D G+ +++ C D + L Sbjct: 146 CATDLEMILHTRGIRNIVLTGITTDVCVHTTMREANDRGFECVMLSDCCGATDYNNHLA- 204 Query: 170 PAIAAADIQRVALAELADRYATV 192 A++ +Q +AD A + Sbjct: 205 -ALSMIKMQGGVFGAVADSAALI 226 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 0.318 0.131 0.375 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: 636,137 Number of extensions: 26110 Number of successful extensions: 115 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 114 Number of HSP's successfully gapped: 5 Length of query: 202 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 121 Effective length of database: 1,236,335 Effective search space: 149596535 Effective search space used: 149596535 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: 128 (53.9 bits)