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= 0001.2498.p (254 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311601|ref|YP_003775693.1| glutamine ABC transporter perip... 454 e-129 gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signa... 117 6e-28 gi|300313610|ref|YP_003777702.1| amino acid ABC transporter/sign... 105 3e-24 gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 94 1e-20 gi|300310494|ref|YP_003774586.1| amino acid ABC transporter/sign... 86 4e-18 >gi|300311601|ref|YP_003775693.1| glutamine ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 251 Score = 454 bits (1167), Expect = e-129, Method: Compositional matrix adjust. Identities = 221/254 (87%), Positives = 234/254 (92%), Gaps = 3/254 (1%) Query: 1 MMKLCKLLCAFTASLAMICAAIPAAQAAQPTDNVIRVGTDATFPPMEFVKDGKRTGFDVE 60 M KLLCA ASL+++ AA+PAA A VIRVGTDATFPPMEFVKDGKRTGFDVE Sbjct: 1 MKTFSKLLCAGMASLSLLIAAVPAAHA---NGEVIRVGTDATFPPMEFVKDGKRTGFDVE 57 Query: 61 LMEALVKTMGKKIQWVDIDFKGLIPGLISNRFDIAASAIYMTDERRKVVAFSDPYYRGGL 120 L+EAL KTMGKK+QW+DIDFKGLIPGL+SNRFDIAASAIYMTDERRKVV FSDPYYRGGL Sbjct: 58 LIEALAKTMGKKVQWIDIDFKGLIPGLVSNRFDIAASAIYMTDERRKVVNFSDPYYRGGL 117 Query: 121 AVLVRRDDSSIKVPEDLNKGKRVSVQVGTKSVGYLRDNFPGVERVEVEKNQAMFDLLATG 180 AVLVRRDD+SIKVPEDLNKGKRVSVQVGTKSVGYL+DNFPGVERVEVEKNQAMFDLLATG Sbjct: 118 AVLVRRDDNSIKVPEDLNKGKRVSVQVGTKSVGYLKDNFPGVERVEVEKNQAMFDLLATG 177 Query: 181 RVNAVVTGRPAAVEYARTQPLVRVLDKGLTTELYGFAMRKDDTALAEQLNKALQTLRING 240 RVNAVVTGRPAAVEYARTQPLVRVLDKGLTTELYGFA+RK DT L QLNKALQTLR+NG Sbjct: 178 RVNAVVTGRPAAVEYARTQPLVRVLDKGLTTELYGFALRKSDTELTAQLNKALQTLRMNG 237 Query: 241 TYTALTNKWFGKSE 254 TYTALT+KWFGKSE Sbjct: 238 TYTALTDKWFGKSE 251 >gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signal transduction system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 117 bits (294), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 78/252 (30%), Positives = 125/252 (49%), Gaps = 13/252 (5%) Query: 2 MKLCKLLCAFTASLAMICAAIPAAQAAQPTDNVIRVGTDATFPPMEFVKDGKRTGFDVEL 61 + KL+ A +L+++ A+ A + V D F P EF + GFD++L Sbjct: 3 LPFAKLVFASLVALSVVGASARA--------ETLVVACDTAFVPFEFKDRNQYVGFDIDL 54 Query: 62 MEALVKTMGKKIQWVDIDFKGLIPGLISNRFDIAASAIYMTDERRKVVAFSDPYYRGGLA 121 +A+ K +G + +DF G+IP L + D+A + I + DER+KV+ FSD YY G + Sbjct: 55 WDAIAKDIGVTYKLQPMDFNGIIPALQTKNVDVALAGITIKDERKKVIDFSDGYYDSGFS 114 Query: 122 VLVRRDDSSIKVPEDLNKGKRVSVQVGTKSVGYLRDNFPGVERVEVEKNQAMFDLLATGR 181 ++V SSIK DL GK ++V+ GT + Y + NF E + + L TGR Sbjct: 115 LMVPV-GSSIKSVADL-AGKALAVKSGTSAFDYAKANFKATELHQFPNIDNAYLELQTGR 172 Query: 182 VNAVVTGRPAAVEYART--QPLVRVLDKGLTTELYGFAMRKDDTALAEQLNKALQTLRIN 239 V+A + P + Y T + +V+ + YG K + L ++N AL ++ + Sbjct: 173 VDAAMHDTPNVLYYIATAGKGRAKVVGTQMMAHQYGIGFPK-GSPLVPKVNAALAKIKAD 231 Query: 240 GTYTALTNKWFG 251 G Y + KWFG Sbjct: 232 GRYAEIYRKWFG 243 >gi|300313610|ref|YP_003777702.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 105 bits (263), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 77/235 (32%), Positives = 118/235 (50%), Gaps = 27/235 (11%) Query: 34 VIRVGTDATFPPMEFVKDGKRT-GFDVELMEALVKTMGKKIQWVDIDFKGLIPGLISNRF 92 V VG ++ + P + K GFD+++M+AL K +G ++++V F+G L Sbjct: 48 VYVVGVESAYAPFSSENEQKDVVGFDIDIMKALAKKIGIEVKFVPTPFEGFFNFLAQGDR 107 Query: 93 DIAASAIYMTDERRKVVAFSDPYYRGGLAVLVRRDDSSIKVPEDLNKGKRVSVQVGTKSV 152 D+ SAI +TDER+K VAFS+PY+ + + D+ + EDL + VGT+S Sbjct: 108 DLLISAITITDERKKSVAFSEPYFVATQTIALPAADTKVSKMEDLK-----PLTVGTQSA 162 Query: 153 GYLRDNFPGVERVE--VEKNQAM---FDL-------LATGRVNAVVTGRPAAVEYARTQP 200 G E V+ + KN A FD L +G V+AVV P Y P Sbjct: 163 T------SGDELVQQVLGKNSAKIKRFDSTPLALKELESGGVDAVVADEPVVKNYIANNP 216 Query: 201 ---LVRVLDKGLTTELYGFAMRKDDTALAEQLNKALQTLRINGTYTALTNKWFGK 252 L V D E YG A+RKDD L ++NK L ++ +G++ A++ ++FGK Sbjct: 217 NSKLRTVTDPSFPKEDYGIAVRKDDPELLAKINKGLAEMKADGSFAAISAQYFGK 271 >gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 94.0 bits (232), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 74/260 (28%), Positives = 124/260 (47%), Gaps = 26/260 (10%) Query: 7 LLCAFTASLAMICAAIPAAQAAQP--TDNVIRVGTDATFPPMEF--VKDGKRTGFDVELM 62 LL A+L ++ AA Q + ++V + +PP F K G+ TGF+V++ Sbjct: 9 LLAGVGAALLASSLSVSAADLLQSVKSSGTLKVALEGNYPPFNFKDPKTGELTGFEVDVA 68 Query: 63 EALVKTMGKKIQWVDIDFKGLIPGLISNRFDIAASAIYMTDERRKVVAFSDPYYRGGLAV 122 + L +G K + ++ G++ GL + ++D+ + + +TDER+K FSDPY + Sbjct: 69 KLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKAFDFSDPYTLSSAQL 128 Query: 123 LVRRDDS-SIKVPEDLNKGKRVSVQVGTKSVGYLRDNF-------PGVERVEVEKNQAMF 174 +VR+D+ K EDL KGK++ + GT NF PG++ + Sbjct: 129 IVRKDEKREFKSLEDL-KGKKLGLGQGT--------NFEQKAKAVPGIDVRTYPGSPEYL 179 Query: 175 DLLATGRVNAVVTGRPAAVEY---ARTQPLVRVLDKGLTTELYGFAMRKDDTALAEQLNK 231 LA GR++A + V Y + PL G ++ G RK + LNK Sbjct: 180 ADLAAGRIDAALNDS-LLVGYILKSTNLPLKAGSPIGAVDKI-GIPFRKGNPEFKAALNK 237 Query: 232 ALQTLRINGTYTALTNKWFG 251 AL ++ +G++ A + KWFG Sbjct: 238 ALADIKADGSFKAASEKWFG 257 >gi|300310494|ref|YP_003774586.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 258 Score = 85.5 bits (210), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 77/224 (34%), Positives = 107/224 (47%), Gaps = 14/224 (6%) Query: 36 RVGTDATFPPMEF--VKDGKRTGFDVELMEALVKTMGKKIQWVDIDFKGLIPGLISNRFD 93 VG +T P F +K K G V+ + A+ G + F LIP L N+ D Sbjct: 36 NVGATSTGVPFTFLDIKTNKLQGMMVDTVTAVGNKAGFSVNIQQTPFAALIPSLTGNKID 95 Query: 94 IAASAIYMTDERRKVVAFSDPYYRGGLAVLVR-RDDSSIKVPEDLNKGKRVSVQVGTKSV 152 I A+A+ T+ R ++V FSDP Y G + V +D S K +DL KG+ V QVGT V Sbjct: 96 IIAAAMLKTEARAQIVDFSDPVYSYGEGLFVNAQDGKSYKNLDDL-KGEIVGAQVGTVFV 154 Query: 153 GYLRDNFPGVERVEVEKNQA-MFDLLATGRVNAVVTGRPAAVEYARTQ---PLVRVLDKG 208 L G + V+ + A M +A GR+ A RP V Y Q P VR++ K Sbjct: 155 DALNKK-GGFKEVKTYDSVADMMRDVALGRIKAGFGDRP-IVAYQLAQGANPQVRLV-KE 211 Query: 209 LTTELYG---FAMRKDDTALAEQLNKALQTLRINGTYTALTNKW 249 L G +RK D L E+LNKA+ L+ +GT + +W Sbjct: 212 YQPTLMGDVCLVIRKGDPKLMERLNKAIAELKADGTLARIVEQW 255 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 0.321 0.135 0.389 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: 700,520 Number of extensions: 27731 Number of successful extensions: 108 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 94 Number of HSP's successfully gapped: 14 Length of query: 254 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 171 Effective length of database: 1,226,865 Effective search space: 209793915 Effective search space used: 209793915 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: 129 (54.3 bits)