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= 0004.0090.p (317 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313151|ref|YP_003777243.1| glutamate/aspartate ABC transpo... 345 4e-96 gi|300312815|ref|YP_003776907.1| amino acid ABC transporter/sign... 237 8e-64 gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 87 2e-18 gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signa... 87 2e-18 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 84 2e-17 >gi|300313151|ref|YP_003777243.1| glutamate/aspartate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 315 Score = 345 bits (884), Expect = 4e-96, Method: Compositional matrix adjust. Identities = 172/314 (54%), Positives = 227/314 (72%), Gaps = 8/314 (2%) Query: 4 IVMALCLMSSQVAHIAHAAPDEDLTGTLKKIKEKGVLVLGVRDSTKPFSYLNDKQSYEGY 63 +V A LMSS HA E+ TG LKKIK+ G L LGVRDS+ PFSYL+DKQSY+GY Sbjct: 10 LVGASVLMSS-----VHA---EEFTGRLKKIKDSGTLTLGVRDSSIPFSYLDDKQSYQGY 61 Query: 64 AVDLCLAIAKNIQRKLGVSQLTISMLPVTSSSRIPLIQNGTVDIECGNTTNTAERQNIVE 123 ++DLCL A IQ+KLG++ L I M+PVTS++RIPLI NGT DI C + TN ER N V Sbjct: 62 SIDLCLKAATAIQKKLGLTSLNIKMVPVTSATRIPLIANGTTDISCDSATNNQERWNQVA 121 Query: 124 FSPTYYVSGSRILSKRSSNIKTLADLRGKKLAINSGTTHIKMVSTLNDEQKLGIDIIASR 183 FS T +V+ ++ LSK+++N+KTL DL+GK + SGT+++K ++ LN E+ LG++I+A++ Sbjct: 122 FSVTEFVTANKFLSKKAANLKTLEDLKGKTVVSTSGTSNLKQITALNAERNLGMNILAAK 181 Query: 184 DTAEGMLLVETGRAAAFINDDIVLASLAGGSKISSELVVGKEALSVEPFGLIYRKNDPAF 243 D AE L+VETGRAAAF+ DDI+L+SLA SK + V EALSVEP+GLI K D F Sbjct: 182 DHAEAFLMVETGRAAAFVMDDILLSSLAANSKAPGDYQVSSEALSVEPYGLILPKGDKEF 241 Query: 244 KQIVDTSISTIFKSGDINKIYAKWFQSPALPHGQNLNWPMSPETQAAIAKITNSPNPADY 303 K +VD +++ ++K DI KIYAKWFQSP P G NLN PMSP+ QA +AK T+S +PA Y Sbjct: 242 KTVVDDALTVVYKGDDIKKIYAKWFQSPIPPKGVNLNVPMSPQLQAVLAKPTDSYDPAAY 301 Query: 304 AAIPKEQLSTIKKK 317 A +P+ Q + KKK Sbjct: 302 AVVPEAQKNMGKKK 315 >gi|300312815|ref|YP_003776907.1| amino acid ABC transporter/signal transduction system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 237 bits (605), Expect = 8e-64, Method: Compositional matrix adjust. Identities = 114/291 (39%), Positives = 182/291 (62%), Gaps = 1/291 (0%) Query: 8 LCLMSSQVAHIAHAAPDEDLTGTLKKIKEKGVLVLGVRDSTKPFSYLNDKQSYEGYAVDL 67 L +M + + A AA D L TL+KIK+ ++ +G R S+ PFSY ++ Q GY+ DL Sbjct: 14 LSMMLAVLPQQACAA-DSALGPTLQKIKDANLIAIGHRTSSIPFSYYDENQQVIGYSQDL 72 Query: 68 CLAIAKNIQRKLGVSQLTISMLPVTSSSRIPLIQNGTVDIECGNTTNTAERQNIVEFSPT 127 C + ++ K+G ++L + M+PVTS +R PL+QNGT+D+ECG T+N R V F+ Sbjct: 73 CNKVIDAVKTKIGAAKLEVRMVPVTSQNRTPLLQNGTIDLECGVTSNLKSRWQQVSFATN 132 Query: 128 YYVSGSRILSKRSSNIKTLADLRGKKLAINSGTTHIKMVSTLNDEQKLGIDIIASRDTAE 187 ++V+ SRIL+KR S IK DL GK + N+GTT +++ LN+ +K+G+ I +++D E Sbjct: 133 FFVASSRILTKRDSGIKDFPDLAGKAVVTNAGTTSEQLLRNLNEHRKMGMQIQSAKDYGE 192 Query: 188 GMLLVETGRAAAFINDDIVLASLAGGSKISSELVVGKEALSVEPFGLIYRKNDPAFKQIV 247 L++++GR AA++ DD++LA ++ ++ V+ EP+ + R++DP FKQ+V Sbjct: 193 AFLILQSGRVAAYVMDDVLLAGARTTAQKPNDWVLTGNPFGAEPYAFMVRRDDPQFKQLV 252 Query: 248 DTSISTIFKSGDINKIYAKWFQSPALPHGQNLNWPMSPETQAAIAKITNSP 298 D ++S + KSG+I KIYAKWF P P + N+PMS A ++ P Sbjct: 253 DDTLSGLMKSGEIKKIYAKWFTFPIPPKNVSFNFPMSDTVMKLYATPSDKP 303 >gi|300313886|ref|YP_003777978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 86.7 bits (213), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 75/264 (28%), Positives = 124/264 (46%), Gaps = 30/264 (11%) Query: 19 AHAAPDEDLTGTLKKIKEKGVLVLGVRDSTKPFSYLNDKQSYEGYAVDLCLAIAKNIQRK 78 AHAA L L IK+ G + + ST F Y ++K G V+ +A++ Sbjct: 23 AHAA----LADQLDDIKKAGKIRIATTSSTPLFGYSDEKLQLAGSDVEAARLLAQD---- 74 Query: 79 LGVSQLTISMLPVTSSSRIPLIQNGTVDIECGNTTNTAERQNIVEFSPTYYVSGSRILSK 138 LGV + ++PV +++R+P +Q DI G+ + T ER +++FS Y V I + Sbjct: 75 LGVQ---LDLIPVANAARVPTLQANRADIVVGSLSITPERLKVIDFSTPYAVISLIIGAP 131 Query: 139 RSSNIKTLADLRGKKLAINSGTTHIKMVSTLNDEQKLGIDIIASRDTAEGMLLVETGRAA 198 +S IK ADL GK++ + T + TL + G +I+ D A + + TG+ Sbjct: 132 KSMVIKDYADLNGKRIGVTRATPN----DTLTTQNAKGAEIMRYEDDATLITSMVTGQVD 187 Query: 199 AFINDDIVLASL---AGGSKISSELVVGKEALSVEPFGLIYRKNDPAFKQIVDTSISTIF 255 F + L + A G + E+ ++A G+ KN P K+ +D + T Sbjct: 188 VFSSTPSNLQEMQKKAPGKNL--EMKFEQKAFD---LGIAINKNQPRLKEWIDGWVKTNM 242 Query: 256 KSGDINKIYAKWFQSPALPHGQNL 279 K+G +N IY K+ HG++L Sbjct: 243 KNGKLNAIYKKY-------HGRDL 259 >gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signal transduction system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 86.7 bits (213), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 69/230 (30%), Positives = 117/230 (50%), Gaps = 16/230 (6%) Query: 40 LVLGVRDSTKPFSYLNDKQSYEGYAVDLCLAIAKNIQRKLGVSQLTISMLPVTSSSRIPL 99 LV+ + PF + D+ Y G+ +DL AIAK+I +T + P+ + IP Sbjct: 28 LVVACDTAFVPFEF-KDRNQYVGFDIDLWDAIAKDIG-------VTYKLQPMDFNGIIPA 79 Query: 100 IQNGTVDIECGNTTNTAERQNIVEFSPTYYVSGSRILSKRSSNIKTLADLRGKKLAINSG 159 +Q VD+ T ER+ +++FS YY SG ++ S+IK++ADL GK LA+ SG Sbjct: 80 LQTKNVDVALAGITIKDERKKVIDFSDGYYDSGFSLMVPVGSSIKSVADLAGKALAVKSG 139 Query: 160 TTHIKMVSTLNDEQKLGIDIIASRDTAEGMLLVETGRAAAFINDDI-VLASLAGGSKISS 218 T+ + + + + D A L ++TGR A ++D VL +A K + Sbjct: 140 TSAFDYAKA--NFKATELHQFPNIDNA--YLELQTGRVDAAMHDTPNVLYYIATAGKGRA 195 Query: 219 ELVVGKEALSVEPFGLIYRKNDPAFKQIVDTSISTIFKSGDINKIYAKWF 268 + VVG + ++ + +G+ + K P + V+ +++ I G +IY KWF Sbjct: 196 K-VVGTQMMAHQ-YGIGFPKGSPLVPK-VNAALAKIKADGRYAEIYRKWF 242 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 83.6 bits (205), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 61/238 (25%), Positives = 116/238 (48%), Gaps = 12/238 (5%) Query: 34 IKEKGVLVLGVRDSTKPFSYLNDKQSYEGYAVDLCLAIAKNIQRKLGVSQLTISMLPVTS 93 IK + +++ + PF N K +G V+ +AK++ +L + Q VT Sbjct: 33 IKARKKVLVAIDLGAPPFGMTNAKLEPQGSDVETARLLAKDLGVELEIVQ-------VTG 85 Query: 94 SSRIPLIQNGTVDIECGNTTNTAERQNIVEFSPTYYVSGSRILSKRSSNIKTLADLRGKK 153 +RIP + G D+ + + T ERQ +V F+ Y S + + + NIK+L DL GK+ Sbjct: 86 PNRIPFLMTGKADMVISSFSITPERQKVVAFTQPYGASQFVVAAPKGENIKSLNDLVGKR 145 Query: 154 LAINSGTTHIKMVSTLNDEQKLGIDIIASRDTAEGMLLVETGRAAAFINDDIVLASLAGG 213 +A+ G +++ + + G +I+ D A + +G+ A + + +++A Sbjct: 146 VAVVRGNMQDSLLTPIAPK---GTNIVRFDDDATVTAAIISGQVDALCTPNSLASAIA-- 200 Query: 214 SKISSELVVGKEALSVEPFGLIYRKNDPAFKQIVDTSISTIFKSGDINKIYAKWFQSP 271 + S+ + K A+ P+ + RK +PA ++ ++ IS K+G + IY +W SP Sbjct: 201 KQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWISANLKNGKLPGIYQQWVGSP 258 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 0.130 0.360 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: 893,128 Number of extensions: 34089 Number of successful extensions: 129 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 109 Number of HSP's successfully gapped: 16 Length of query: 317 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 232 Effective length of database: 1,217,395 Effective search space: 282435640 Effective search space used: 282435640 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (22.0 bits) S2: 130 (54.7 bits)