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= 0342.0003.p (282 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_389022.1| oligopeptide ABC transporter (permease) [Bacill... 222 6e-57 ref|ZP_00082221.1| COG1173: ABC-type dipeptide/oligopeptide/nick... 212 6e-54 ref|ZP_00172239.1| hypothetical protein Mflag196401 [Methylobaci... 207 2e-52 ref|NP_952486.1| peptide ABC transporter, permease protein [Geob... 206 3e-52 ref|NP_693370.1| dipeptide ABC transporter permease [Oceanobacil... 200 3e-50 >ref|NP_389022.1| oligopeptide ABC transporter (permease) [Bacillus subtilis] sp|P42063|APPC_BACSU Oligopeptide transport system permease protein appC pir||I40547 oligopeptide ABC transporter (permease) appC - Bacillus subtilis gb|AAA62360.1| AppC emb|CAB12997.1| oligopeptide ABC transporter (permease) [Bacillus subtilis subsp. subtilis str. 168] Length = 303 Score = 222 bits (566), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 122/263 (46%), Positives = 162/263 (61%), Gaps = 7/263 (2%) Query: 3 GLVVLLFFIVIAALAPFLTKYKPEAIDLMFANLKPGVDGHLLGTDELGRDILTRLLYSAR 62 G V+L I+ A AP + Y E L+ PG++ HL+GTD+ GRDI +R+LY AR Sbjct: 42 GAVILFIIIMSAVFAPLIAPYPQEQQSLLDKYKAPGLE-HLMGTDKFGRDIFSRILYGAR 100 Query: 63 ISLMIGXXXXXXXXXXXXXXXXXXXXXXXWVDTVFMRIVDVMNSVPTLFLNILVLAIFGS 122 +SL++G VD V MR+VD++ S+P +FL I ++ IF Sbjct: 101 VSLLVGFASVVGSILIGTVLGALAGYFRGIVDAVIMRVVDIVLSIPDIFLLITLVTIFKP 160 Query: 123 RMEYMIMILALTSWMSIARLVRGNFLQLREMQYVEAAKAIGVSSWGIIFRHLLRNASFPI 182 ++ +I+I LT W + ARLVRG FL LR +YV AAK IG + IIF H+L NA PI Sbjct: 161 GVDKLILIFCLTGWTTTARLVRGEFLSLRSREYVLAAKTIGTKTHKIIFSHILPNALGPI 220 Query: 183 IVNATLMVGGAILSESALSYLGLGIQAPATSWGLMLSNAQEFMLIDPLQA----VYPGLC 238 IV+ATL VG IL+ESALSYLG GIQ P SWG ML +AQ F ++ +QA ++PGL Sbjct: 221 IVSATLKVGSVILAESALSYLGFGIQPPIASWGNMLQDAQNFTVM--IQAWWYPLFPGLF 278 Query: 239 ILLVVLAVNFIGDGIRDGLDPRQ 261 IL+ VL NF+GDG+RD LDP+ Sbjct: 279 ILMTVLCFNFVGDGLRDALDPKN 301 >ref|ZP_00082221.1| COG1173: ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Geobacter metallireducens] Length = 284 Score = 212 bits (540), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 111/244 (45%), Positives = 153/244 (62%), Gaps = 1/244 (0%) Query: 17 APFLTKYKPEAIDLMFANLKPGVDGHLLGTDELGRDILTRLLYSARISLMIGXXXXXXXX 76 AP++T + P AID L P + H GTDELGRD+ TR++Y ARISL +G Sbjct: 39 APYITPWDPHAIDAYHVLLPPSAN-HWFGTDELGRDVFTRVVYGARISLKVGFVSVGIAV 97 Query: 77 XXXXXXXXXXXXXXXWVDTVFMRIVDVMNSVPTLFLNILVLAIFGSRMEYMIMILALTSW 136 +DTV MR VD+M PT FL + V+A + Y++ I+ LT W Sbjct: 98 AIGVVLGLVSGFYGGIIDTVIMRFVDIMLCFPTFFLILAVIAFLEPSIWYIMAIIGLTGW 157 Query: 137 MSIARLVRGNFLQLREMQYVEAAKAIGVSSWGIIFRHLLRNASFPIIVNATLMVGGAILS 196 M +ARLVR L LRE ++ AA+A+G S IIFRH+L NA P++V+ATL V GAIL+ Sbjct: 158 MGVARLVRAEVLSLRERDFILAARALGASDARIIFRHILPNALSPVLVSATLGVAGAILT 217 Query: 197 ESALSYLGLGIQAPATSWGLMLSNAQEFMLIDPLQAVYPGLCILLVVLAVNFIGDGIRDG 256 ESALS+LG+G+Q P SWG +L++ ++++ +++PGL IL+ VLA N +G+GIRD Sbjct: 218 ESALSFLGIGVQPPTPSWGNILTSGKDYIEFGWWLSLFPGLAILVTVLAYNLLGEGIRDA 277 Query: 257 LDPR 260 LDPR Sbjct: 278 LDPR 281 >ref|ZP_00172239.1| hypothetical protein Mflag196401 [Methylobacillus flagellatus KT] Length = 274 Score = 207 bits (528), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 107/262 (40%), Positives = 158/262 (60%), Gaps = 1/262 (0%) Query: 1 MSGLVVLLFFIVIAALAPFLTKYKPEAIDLMFANLKPGVDGHLLGTDELGRDILTRLLYS 60 ++G +++ ++A AP + Y PEAID+ L P H +GTD LGRD+ +R+L+ Sbjct: 11 LAGFIIITSIFLLALFAPLIAPYDPEAIDVKAILLSPS-SAHWMGTDALGRDVFSRMLFG 69 Query: 61 ARISLMIGXXXXXXXXXXXXXXXXXXXXXXXWVDTVFMRIVDVMNSVPTLFLNILVLAIF 120 ARISL++G WVD V MR VDVM S+PT FL + V+A Sbjct: 70 ARISLLVGLVAVGIATFIGIILGAIAGYYRGWVDVVIMRAVDVMLSIPTFFLILAVIAFL 129 Query: 121 GSRMEYMIMILALTSWMSIARLVRGNFLQLREMQYVEAAKAIGVSSWGIIFRHLLRNASF 180 + +++I+ LTSWM + RLVR FL LR ++V AA+ +G + +IF+HLL N+ Sbjct: 130 TPSIWNIMIIIGLTSWMGVTRLVRAEFLSLRNREFVMAAETLGANDNRLIFKHLLPNSMT 189 Query: 181 PIIVNATLMVGGAILSESALSYLGLGIQAPATSWGLMLSNAQEFMLIDPLQAVYPGLCIL 240 P+IV++ L V A+L ES LS+LGLG+QAP SWG +L++ +E++ +++PGL IL Sbjct: 190 PVIVSSVLGVASAVLIESGLSFLGLGVQAPQASWGNILTDGKEYIQFAWWLSLFPGLAIL 249 Query: 241 LVVLAVNFIGDGIRDGLDPRQQ 262 + VL N G+G+RD DPR Sbjct: 250 ITVLGYNLFGEGLRDAYDPRSS 271 >ref|NP_952486.1| peptide ABC transporter, permease protein [Geobacter sulfurreducens PCA] gb|AAR34809.1| peptide ABC transporter, permease protein [Geobacter sulfurreducens PCA] Length = 282 Score = 206 bits (525), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 110/248 (44%), Positives = 154/248 (62%), Gaps = 1/248 (0%) Query: 13 IAALAPFLTKYKPEAIDLMFANLKPGVDGHLLGTDELGRDILTRLLYSARISLMIGXXXX 72 I+ LAP++ + P+AID L P + H GTDELGRD+ TR++Y ARISL +G Sbjct: 35 ISFLAPYIAPWDPDAIDAYRVLLPPSAE-HWFGTDELGRDVFTRVIYGARISLKVGFVSV 93 Query: 73 XXXXXXXXXXXXXXXXXXXWVDTVFMRIVDVMNSVPTLFLNILVLAIFGSRMEYMIMILA 132 VDT+ MR VD+M PT FL + V+A + Y++ I+ Sbjct: 94 GIAVVIGTVLGLVSGFYGGLVDTIIMRFVDIMLCFPTFFLILAVIAFLEPSIWYIMAIIG 153 Query: 133 LTSWMSIARLVRGNFLQLREMQYVEAAKAIGVSSWGIIFRHLLRNASFPIIVNATLMVGG 192 LT WM +ARLVR L LRE +V AA+A+G S I+ RH+L NA P++V+ATL V G Sbjct: 154 LTGWMGVARLVRAEVLSLRERDFVLAARALGASDVRILLRHVLPNAVSPVLVSATLGVAG 213 Query: 193 AILSESALSYLGLGIQAPATSWGLMLSNAQEFMLIDPLQAVYPGLCILLVVLAVNFIGDG 252 AIL+ESALS+LG+G+Q P SWG +L++ ++++ +++PG IL+ VLA N +G+G Sbjct: 214 AILTESALSFLGIGVQPPTPSWGNILTSGKDYIEFAWWLSLFPGGAILVTVLAYNLLGEG 273 Query: 253 IRDGLDPR 260 IRD LDPR Sbjct: 274 IRDALDPR 281 >ref|NP_693370.1| dipeptide ABC transporter permease [Oceanobacillus iheyensis HTE831] dbj|BAC14405.1| dipeptide ABC transporter permease [Oceanobacillus iheyensis HTE831] Length = 307 Score = 200 bits (509), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 105/260 (40%), Positives = 154/260 (59%), Gaps = 1/260 (0%) Query: 3 GLVVLLFFIVIAALAPFLTKYKPEAIDLMFANLKPGVDGHLLGTDELGRDILTRLLYSAR 62 G+++L F+VIA + P LT Y DL P + HLLGTD +GRDI TR++Y A Sbjct: 48 GIIILFLFLVIAIIGPLLTPYDYAEQDLTNRLQSPSSE-HLLGTDHIGRDIATRIIYGAS 106 Query: 63 ISLMIGXXXXXXXXXXXXXXXXXXXXXXXWVDTVFMRIVDVMNSVPTLFLNILVLAIFGS 122 +SL +G WVD + R+ D++ + P++ L I ++AI G Sbjct: 107 VSLQVGFYAVTGALLFGTLLGIIAGFFGKWVDMIISRMFDILLAFPSILLAIAIVAILGP 166 Query: 123 RMEYMIMILALTSWMSIARLVRGNFLQLREMQYVEAAKAIGVSSWGIIFRHLLRNASFPI 182 +E ++ +A+ + RLVR + LRE +Y+ AA+A G+ + IIF+H+L N++ PI Sbjct: 167 SLENALVAIAIVNIPIFGRLVRSKVISLREEEYIMAARAQGMKNGRIIFQHILPNSTAPI 226 Query: 183 IVNATLMVGGAILSESALSYLGLGIQAPATSWGLMLSNAQEFMLIDPLQAVYPGLCILLV 242 IV ATL G AI+ +AL +LGLG Q P WG ML++ + F+ + P + PGLCI+LV Sbjct: 227 IVQATLSFGTAIIEAAALGFLGLGAQHPTPEWGRMLADGRAFLQLAPWTLIAPGLCIMLV 286 Query: 243 VLAVNFIGDGIRDGLDPRQQ 262 VLA N IGDG+RD LDP+ + Sbjct: 287 VLAFNLIGDGLRDALDPKMK 306 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.328 0.142 0.421 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 347,148,594 Number of extensions: 11897357 Number of successful extensions: 46863 Number of sequences better than 1.0e-05: 1662 Number of HSP's gapped: 44961 Number of HSP's successfully gapped: 1663 Length of query: 282 Length of database: 757,237,578 Length adjustment: 124 Effective length of query: 158 Effective length of database: 420,565,302 Effective search space: 66449317716 Effective search space used: 66449317716 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 125 (52.8 bits)