BLASTP 2.2.22 [Sep-27-2009] 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. Reference for composition-based statistics starting in round 2: Schaffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Query= batch____ (196 letters) Database: uniref50.fasta 3,077,464 sequences; 1,040,396,356 total letters Searching..................................................done Results from round 1 Score E Sequences producing significant alignments: (bits) Value UniRef50_P41068 Protein traP n=37 Tax=root RepID=TRAP_ECOLI 412 e-114 UniRef50_B5N6I3 Conjugative transfer protein n=4 Tax=Salmonella ... 100 3e-20 UniRef50_A4TSZ2 Conjugative transfer protein n=2 Tax=Yersinia pe... 62 1e-08 UniRef50_B5MU69 Conjugative transfer protein n=1 Tax=Salmonella ... 55 2e-06 UniRef50_A6TIG5 Inner membrane protein n=1 Tax=Klebsiella pneumo... 52 8e-06 >UniRef50_P41068 Protein traP n=37 Tax=root RepID=TRAP_ECOLI Length = 196 Score = 412 bits (1058), Expect = e-114, Method: Compositional matrix adjust. Identities = 196/196 (100%), Positives = 196/196 (100%) Query: 1 MANNMSSRQACHAARYVVARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLV 60 MANNMSSRQACHAARYVVARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLV Sbjct: 1 MANNMSSRQACHAARYVVARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLV 60 Query: 61 KEINFVRQTAPAGQFPVSECWFSSSDSSGRSEIQGICHYRAADAADYVRETDRSLMQLVT 120 KEINFVRQTAPAGQFPVSECWFSSSDSSGRSEIQGICHYRAADAADYVRETDRSLMQLVT Sbjct: 61 KEINFVRQTAPAGQFPVSECWFSSSDSSGRSEIQGICHYRAADAADYVRETDRSLMQLVT 120 Query: 121 ALWATLALMYVSLAAITGKYPVRPGKMKCIRVVTADEHLKEVYTEDASLPGKIRKCPVYL 180 ALWATLALMYVSLAAITGKYPVRPGKMKCIRVVTADEHLKEVYTEDASLPGKIRKCPVYL Sbjct: 121 ALWATLALMYVSLAAITGKYPVRPGKMKCIRVVTADEHLKEVYTEDASLPGKIRKCPVYL 180 Query: 181 PDDRTNRNNGDKNEHA 196 PDDRTNRNNGDKNEHA Sbjct: 181 PDDRTNRNNGDKNEHA 196 >UniRef50_B5N6I3 Conjugative transfer protein n=4 Tax=Salmonella enterica subsp. enterica RepID=B5N6I3_SALET Length = 198 Score = 100 bits (249), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 66/199 (33%), Positives = 99/199 (49%), Gaps = 6/199 (3%) Query: 1 MANNMSSRQACHAARYVVARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLV 60 M NN + A Y +A +LR L W +KY VI PLAT A++ + + +TTPG+ + Sbjct: 1 MGNNRLNNLKGRAVLYRIAGLLRWLIWGVKYAVIWPLATTAIVVILLFRTGDTTPGQQMA 60 Query: 61 KEINFVRQTAPAGQFPVSEC---WFSSSDSSGRSEIQGICHYRAADAADYVRETDRSLMQ 117 +EI VR AP+G FPV +C F+ S + + C + A +Y + D+SL Q Sbjct: 61 QEIGRVRAMAPSGMFPVRDCPDPAFTVSSPVPLNLTEN-CPLKITGAEEYAADIDQSLSQ 119 Query: 118 LVTALWATLALMYVSLAAITGKYPVRPGKMKCIRVVTADEHLKEVYTEDASLPGKIR-KC 176 LW LAL+Y ++A + G P R + TA +LK + E+ K+ Sbjct: 120 TGWLLWGMLALLYTAVAVMIGDRPYRHNPL-TYAYDTATNNLKYIDKENEIRTLKVNTNG 178 Query: 177 PVYLPDDRTNRNNGDKNEH 195 V ++ + GDKNEH Sbjct: 179 QVSYSGNKEAKKEGDKNEH 197 >UniRef50_A4TSZ2 Conjugative transfer protein n=2 Tax=Yersinia pestis RepID=A4TSZ2_YERPP Length = 188 Score = 62.0 bits (149), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 41/141 (29%), Positives = 63/141 (44%), Gaps = 17/141 (12%) Query: 17 VVARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLVKEINFVRQTAPAGQFP 76 V+ LR L W Y +I P AT+ L+ +LW +NTTPG+ + +EI V +G+F Sbjct: 8 VLLYCLRWLAWAFHYLIIWPAATLMLLVAMLLWMENTTPGEAMAQEIIAVTHNVSSGEFR 67 Query: 77 VSECW------FSSSDSSGRSE-------IQGICHYRAA---DAADYVRETDRSLMQLVT 120 ++ C F G+S +CH R + DA Y D +L Sbjct: 68 IAACRDEPLDPFIPPAPQGKSSGLTLHDAPSAVCHNRGSVVTDAKGYAGHVDGALSAF-K 126 Query: 121 ALWATLALMYVSLAAITGKYP 141 LW +A+++ A + G P Sbjct: 127 LLWIVMAIVFSGAALLMGCRP 147 >UniRef50_B5MU69 Conjugative transfer protein n=1 Tax=Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29 RepID=B5MU69_SALET Length = 214 Score = 54.7 bits (130), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 40/137 (29%), Positives = 55/137 (40%), Gaps = 9/137 (6%) Query: 17 VVARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLVKEINFVRQTAPAGQFP 76 ++A LR L W Y VI P T+ L+ V D TTPG ++V + ++ Sbjct: 8 LIAYCLRWLAWTFHYLVIWPAGTLVLIVALVFCLDKTTPGMVVVDYLQEAGNITDGQRWT 67 Query: 77 VSECW--------FSSSDSSGRSEIQ-GICHYRAADAADYVRETDRSLMQLVTALWATLA 127 EC SS Q C +DA Y DR+LM+ + LW + Sbjct: 68 WRECTKQIPAGLPASSELPKSTDRFQPDACPEVVSDARGYAAYVDRTLMRTLNWLWVLMG 127 Query: 128 LMYVSLAAITGKYPVRP 144 L Y LA + G P P Sbjct: 128 LTYAGLAWLLGIRPYFP 144 >UniRef50_A6TIG5 Inner membrane protein n=1 Tax=Klebsiella pneumoniae subsp. pneumoniae MGH 78578 RepID=A6TIG5_KLEP7 Length = 198 Score = 52.4 bits (124), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 41/148 (27%), Positives = 65/148 (43%), Gaps = 10/148 (6%) Query: 18 VARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLVKEINFVRQTAPAGQFPV 77 V VLR W +K V+ PLA M L+ + V T G+ LVK + V+Q + + Sbjct: 9 VLSVLRWAHWLVKCAVVYPLAMMMLLVVLVFRTGPYTFGQTLVKTVESVQQEG----YVI 64 Query: 78 SECWFSSSDSSGRSE------IQGICHYRAADAADYVRETDRSLMQLVTALWATLALMYV 131 +C +S +Q C DAA Y D+S + LW +A+++ Sbjct: 65 QDCTGPKELNSDAVNAPLPPLLQEDCTTVITDAAGYAAYIDQSYTHNILWLWLLMAVVFT 124 Query: 132 SLAAITGKYPVRPGKMKCIRVVTADEHL 159 +A + + PVR G ++ VV + L Sbjct: 125 GIAVVFRRTPVRRGIIRKNGVVVGESVL 152 Searching..................................................done Results from round 2 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: UniRef50_P41068 Protein traP n=37 Tax=root RepID=TRAP_ECOLI 297 1e-79 UniRef50_B5N6I3 Conjugative transfer protein n=4 Tax=Salmonella ... 269 4e-71 UniRef50_A6TIG5 Inner membrane protein n=1 Tax=Klebsiella pneumo... 184 2e-45 UniRef50_B5MU69 Conjugative transfer protein n=1 Tax=Salmonella ... 181 1e-44 UniRef50_A4TSZ2 Conjugative transfer protein n=2 Tax=Yersinia pe... 165 6e-40 Sequences not found previously or not previously below threshold: CONVERGED! >UniRef50_P41068 Protein traP n=37 Tax=root RepID=TRAP_ECOLI Length = 196 Score = 297 bits (760), Expect = 1e-79, Method: Composition-based stats. Identities = 196/196 (100%), Positives = 196/196 (100%) Query: 1 MANNMSSRQACHAARYVVARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLV 60 MANNMSSRQACHAARYVVARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLV Sbjct: 1 MANNMSSRQACHAARYVVARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLV 60 Query: 61 KEINFVRQTAPAGQFPVSECWFSSSDSSGRSEIQGICHYRAADAADYVRETDRSLMQLVT 120 KEINFVRQTAPAGQFPVSECWFSSSDSSGRSEIQGICHYRAADAADYVRETDRSLMQLVT Sbjct: 61 KEINFVRQTAPAGQFPVSECWFSSSDSSGRSEIQGICHYRAADAADYVRETDRSLMQLVT 120 Query: 121 ALWATLALMYVSLAAITGKYPVRPGKMKCIRVVTADEHLKEVYTEDASLPGKIRKCPVYL 180 ALWATLALMYVSLAAITGKYPVRPGKMKCIRVVTADEHLKEVYTEDASLPGKIRKCPVYL Sbjct: 121 ALWATLALMYVSLAAITGKYPVRPGKMKCIRVVTADEHLKEVYTEDASLPGKIRKCPVYL 180 Query: 181 PDDRTNRNNGDKNEHA 196 PDDRTNRNNGDKNEHA Sbjct: 181 PDDRTNRNNGDKNEHA 196 >UniRef50_B5N6I3 Conjugative transfer protein n=4 Tax=Salmonella enterica subsp. enterica RepID=B5N6I3_SALET Length = 198 Score = 269 bits (687), Expect = 4e-71, Method: Composition-based stats. Identities = 66/199 (33%), Positives = 99/199 (49%), Gaps = 6/199 (3%) Query: 1 MANNMSSRQACHAARYVVARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLV 60 M NN + A Y +A +LR L W +KY VI PLAT A++ + + +TTPG+ + Sbjct: 1 MGNNRLNNLKGRAVLYRIAGLLRWLIWGVKYAVIWPLATTAIVVILLFRTGDTTPGQQMA 60 Query: 61 KEINFVRQTAPAGQFPVSEC---WFSSSDSSGRSEIQGICHYRAADAADYVRETDRSLMQ 117 +EI VR AP+G FPV +C F+ S + + C + A +Y + D+SL Q Sbjct: 61 QEIGRVRAMAPSGMFPVRDCPDPAFTVSSPVPLNLTEN-CPLKITGAEEYAADIDQSLSQ 119 Query: 118 LVTALWATLALMYVSLAAITGKYPVRPGKMKCIRVVTADEHLKEVYTEDASLPGKIR-KC 176 LW LAL+Y ++A + G P R + TA +LK + E+ K+ Sbjct: 120 TGWLLWGMLALLYTAVAVMIGDRPYRHNPL-TYAYDTATNNLKYIDKENEIRTLKVNTNG 178 Query: 177 PVYLPDDRTNRNNGDKNEH 195 V ++ + GDKNEH Sbjct: 179 QVSYSGNKEAKKEGDKNEH 197 >UniRef50_A6TIG5 Inner membrane protein n=1 Tax=Klebsiella pneumoniae subsp. pneumoniae MGH 78578 RepID=A6TIG5_KLEP7 Length = 198 Score = 184 bits (466), Expect = 2e-45, Method: Composition-based stats. Identities = 41/148 (27%), Positives = 65/148 (43%), Gaps = 10/148 (6%) Query: 18 VARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLVKEINFVRQTAPAGQFPV 77 V VLR W +K V+ PLA M L+ + V T G+ LVK + V+Q + + Sbjct: 9 VLSVLRWAHWLVKCAVVYPLAMMMLLVVLVFRTGPYTFGQTLVKTVESVQQEG----YVI 64 Query: 78 SECWFSSSDSSGRSE------IQGICHYRAADAADYVRETDRSLMQLVTALWATLALMYV 131 +C +S +Q C DAA Y D+S + LW +A+++ Sbjct: 65 QDCTGPKELNSDAVNAPLPPLLQEDCTTVITDAAGYAAYIDQSYTHNILWLWLLMAVVFT 124 Query: 132 SLAAITGKYPVRPGKMKCIRVVTADEHL 159 +A + + PVR G ++ VV + L Sbjct: 125 GIAVVFRRTPVRRGIIRKNGVVVGESVL 152 >UniRef50_B5MU69 Conjugative transfer protein n=1 Tax=Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29 RepID=B5MU69_SALET Length = 214 Score = 181 bits (458), Expect = 1e-44, Method: Composition-based stats. Identities = 40/140 (28%), Positives = 55/140 (39%), Gaps = 9/140 (6%) Query: 14 ARYVVARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLVKEINFVRQTAPAG 73 ++A LR L W Y VI P T+ L+ V D TTPG ++V + Sbjct: 5 ILALIAYCLRWLAWTFHYLVIWPAGTLVLIVALVFCLDKTTPGMVVVDYLQEAGNITDGQ 64 Query: 74 QFPVSECW--------FSSSDSSGRSEIQ-GICHYRAADAADYVRETDRSLMQLVTALWA 124 ++ EC SS Q C +DA Y DR+LM+ + LW Sbjct: 65 RWTWRECTKQIPAGLPASSELPKSTDRFQPDACPEVVSDARGYAAYVDRTLMRTLNWLWV 124 Query: 125 TLALMYVSLAAITGKYPVRP 144 + L Y LA + G P P Sbjct: 125 LMGLTYAGLAWLLGIRPYFP 144 >UniRef50_A4TSZ2 Conjugative transfer protein n=2 Tax=Yersinia pestis RepID=A4TSZ2_YERPP Length = 188 Score = 165 bits (418), Expect = 6e-40, Method: Composition-based stats. Identities = 44/156 (28%), Positives = 67/156 (42%), Gaps = 19/156 (12%) Query: 15 RYVVARVLRGLFWCLKYTVILPLATMALMALFVLWKDNTTPGKLLVKEINFVRQTAPAGQ 74 V+ LR L W Y +I P AT+ L+ +LW +NTTPG+ + +EI V +G+ Sbjct: 6 LSVLLYCLRWLAWAFHYLIIWPAATLMLLVAMLLWMENTTPGEAMAQEIIAVTHNVSSGE 65 Query: 75 FPVSECW------FSSSDSSGRSE-------IQGICHYR---AADAADYVRETDRSLMQL 118 F ++ C F G+S +CH R DA Y D +L Sbjct: 66 FRIAACRDEPLDPFIPPAPQGKSSGLTLHDAPSAVCHNRGSVVTDAKGYAGHVDGALSAF 125 Query: 119 VTALWATLALMYVSLAAITGKYPVR--PGKMKCIRV 152 LW +A+++ A + G P G+M+ R Sbjct: 126 -KLLWIVMAIVFSGAALLMGCRPYFCLYGQMRSARF 160 Database: uniref50.fasta Posted date: Mar 8, 2010 10:38 AM Number of letters in database: 1,040,396,356 Number of sequences in database: 3,077,464 Lambda K H 0.311 0.126 0.342 Lambda K H 0.267 0.0384 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 666,417,168 Number of Sequences: 3077464 Number of extensions: 21025224 Number of successful extensions: 57837 Number of sequences better than 1.0e-01: 5 Number of HSP's better than 0.1 without gapping: 8 Number of HSP's successfully gapped in prelim test: 2 Number of HSP's that attempted gapping in prelim test: 57819 Number of HSP's gapped (non-prelim): 10 length of query: 196 length of database: 1,040,396,356 effective HSP length: 122 effective length of query: 74 effective length of database: 664,945,748 effective search space: 49205985352 effective search space used: 49205985352 T: 11 A: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.4 bits) S2: 89 (39.0 bits)