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= 0188.0022.p (340 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_901788.1| probable bacteriophage regulatory protein [Chro... 149 7e-35 ref|NP_463073.1| putative cytoplasmic protein [Salmonella typhim... 118 2e-25 dbj|BAA96860.1| orf7 [Pectobacterium carotovorum subsp. carotovo... 115 1e-24 ref|NP_900086.1| probable bacteriophage regulatory protein [Chro... 115 2e-24 ref|NP_456043.1| putative bacteriophage regulatory protein [Salm... 115 2e-24 >ref|NP_901788.1| probable bacteriophage regulatory protein [Chromobacterium violaceum ATCC 12472] gb|AAQ59791.1| probable bacteriophage regulatory protein [Chromobacterium violaceum ATCC 12472] Length = 390 Score = 149 bits (377), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 101/347 (29%), Positives = 164/347 (47%), Gaps = 29/347 (8%) Query: 8 VLELKYNGKDITMDIAKSLTDFQYNDAVSGSLDDLTVSLEDRERNWQGPWVPVEGDQINA 67 V +L Y +IT DI + Y D +SG D+L V+LED + W W P +GD++ Sbjct: 11 VFQLAYGQHNITSDITPYVLSVTYTDYLSGQSDELEVALEDSDGRWINVWYPRQGDKLKL 70 Query: 68 SIRTINWDKPGENKKLPLGTFEIDSIDFNGPPDTISIKAVSLPISSEIRMQRSSRSWEKT 127 I GE LP G FEID ++F PP T+SIKA++ + +R R R++E T Sbjct: 71 KI-----GYAGE-PLLPCGEFEIDEVEFAFPPSTVSIKALAAGVKKSVRT-RVGRAYENT 123 Query: 128 NLKTVAAQVAKRANLKLIYEAQDNPSYERLEQSEMSDLAFLLNTATQEGIAIKVSGGSLI 187 L +A ++AKR +L L+ + +D +R+ Q + D+AFL+ A + G K++G ++ Sbjct: 124 TLAAIALRIAKRNHLVLVGKIRD-IRIDRVTQYQERDVAFLVRLAREFGYVFKITGNKMV 182 Query: 188 LFDEMVYEQKEAITTIVRGDDNVTGYSFALNTAYA-----------------AFRACTVT 230 + A+ T+ R D + Y +A V Sbjct: 183 FSELADLRDGAAVLTLQRTDLTSVHLRDKIKEVYQEAKLKRHNPKTKKLVVYGMKAGQVA 242 Query: 231 YTPPTSKEPLKATYTPNGAPKNGPVLKINEQVDTXXXXXXXXXXXXXXXXXEGGKGTLSL 290 T++ K +TP+ +G LK+ + + E G L+L Sbjct: 243 EVGHTTQTNKKGGHTPS---TSGDTLKMAGRASSRATAHAKVKAAMDKSNLEQTSGNLAL 299 Query: 291 MGDIRMVTGLTINIKGWQRFDGKYIIESAKHSIG-SSGYTTNLEIRK 336 G ++V G T ++ G + DG+Y++ESA+H I SSGY+T LE+++ Sbjct: 300 PGQPKLVAGTTFDLAGLGKLDGRYLVESARHRIDRSSGYSTELEVKR 346 >ref|NP_463073.1| putative cytoplasmic protein [Salmonella typhimurium LT2] gb|AAL23032.1| putative cytoplasmic protein [Salmonella typhimurium LT2] Length = 347 Score = 118 bits (296), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 91/337 (27%), Positives = 159/337 (47%), Gaps = 20/337 (5%) Query: 8 VLELKYNGKDITMDIAKSLTDFQYNDAVSGSLDDLTVSLEDRERNWQGPWVPVEGDQINA 67 + L Y K+IT DIA +T Y+D++ D + ++LED W W P +GD + Sbjct: 17 IFTLWYGHKEITYDIAPYVTSISYSDSIKNESDVIAIALEDSTGRWVNEWYPGKGDTL-- 74 Query: 68 SIRTINWDKPGENKKLPLGTFEIDSIDFNGPPDTISIKAVSLPISSEIRMQRSSRSWEKT 127 + GE+ L G + ID ID + PP T++I ++ +S +R ++S+ +E+T Sbjct: 75 ---ALRLGYQGED-LLDCGIYVIDKIDISAPPSTVNIDGIATSVSKALRT-KNSQGFEET 129 Query: 128 NLKTVAAQVAKRANLKLIYEAQDNP-SYERLEQSEMSDLAFLLNTATQEGIAIKVSGGSL 186 L +A+++A++ L L + P + +R+ Q +D+AFL A++ G +KV+ L Sbjct: 130 TLSAIASRIAQKHGLTL--AGKIAPLTIDRVTQYAETDVAFLKRLASEYGYTVKVTATEL 187 Query: 187 ILFDEMVYEQKEAITTIVRGDDNVTGYSFALNTAYAAFRACTVTYTPPTSKEPLKATY-- 244 I + T+ R D V+ Y+F +T ++ TV + KE + T+ Sbjct: 188 IFSHLPTLRCLAPVKTLRRTD--VSHYTFK-DTINRIYKNATVQHQNSKQKELVIYTHDS 244 Query: 245 ----TPNGAPKNGPVLKINEQVDTXXXXXXXXXXXXXXXXXEGGKGTLSLMGDIRMVTGL 300 + GA + LKIN + GTLSLMG ++ G Sbjct: 245 QEKTSARGAATSADTLKINSRAPDTGAAQAKANAALDSHNEYQQTGTLSLMGCPQLTAGN 304 Query: 301 TINIKGWQRFDGKYIIESAKHSIG-SSGYTTNLEIRK 336 I + + G+++I+ + H + S GYTT ++I + Sbjct: 305 KIELSDFGVLSGQWLIDKSMHKLTRSGGYTTEIDISR 341 >dbj|BAA96860.1| orf7 [Pectobacterium carotovorum subsp. carotovorum] Length = 386 Score = 115 bits (289), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 87/329 (26%), Positives = 153/329 (46%), Gaps = 20/329 (6%) Query: 13 YNGKDITMDIAKSLTDFQYNDAVSGSLDDLTVSLEDRERNWQGPWVPVEGDQINASIRTI 72 Y KDIT DIA +T Y D++ D + V L+D + W W P GD ++ + + Sbjct: 27 YQQKDITNDIAPYVTSVTYTDSIKNESDSIEVRLDDTDGRWMDKWYPGTGDTLSLKLGYL 86 Query: 73 NWDKPGENKKLPLGTFEIDSIDFNGPPDTISIKAVSLPISSEIRMQRSSRSWEKTNLKTV 132 GE GTF ID I+ + PP + I+ V+ ++ +R +S+R +E T L + Sbjct: 87 -----GE-MLFDCGTFSIDEIEVSSPPSEVMIRGVATSVNRALRT-KSNRGFEDTTLAAI 139 Query: 133 AAQVAKRANLKLIYEAQDNPSYERLEQSEMSDLAFLLNTATQEGIAIKVSGGSLILFDEM 192 A ++AK+ L L+ + Q +R+ Q +D+AFL A++ G +KV LI F + Sbjct: 140 ATRIAKKHQLMLVGKIQ-IIKIDRVTQYAETDVAFLKRLASEYGYVVKVVSDQLI-FSHL 197 Query: 193 VYEQKEAITTIVRGDDNVTGYSFALNTAYAAFRACTVTYTPPTSKEPL--------KATY 244 + +A ++ D V +S + +T ++ Y + K+ + Sbjct: 198 ATLRNQASVRQIKPTD-VARFSLS-DTISHVYKNAKTKYQKGSEKKLMVYEANGGANNEM 255 Query: 245 TPNGAPKNGPVLKINEQVDTXXXXXXXXXXXXXXXXXEGGKGTLSLMGDIRMVTGLTINI 304 P GA + LK+N + + KG+++LMG ++ G + + Sbjct: 256 KPAGAETSADTLKVNVRAADASGARMKTDAALDAHNEKQQKGSMTLMGSPQLAAGNKVEL 315 Query: 305 KGWQRFDGKYIIESAKHSI-GSSGYTTNL 332 + + G ++IESA+H++ SGYTT + Sbjct: 316 VSFGQLSGHWLIESARHALERGSGYTTEI 344 >ref|NP_900086.1| probable bacteriophage regulatory protein [Chromobacterium violaceum ATCC 12472] gb|AAQ58094.1| probable bacteriophage regulatory protein [Chromobacterium violaceum ATCC 12472] Length = 352 Score = 115 bits (288), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 87/348 (25%), Positives = 159/348 (45%), Gaps = 31/348 (8%) Query: 1 MQDARRAVLELKYNGKDITMDIAKSLTDFQYNDAVSGSLDDLTVSLEDRERNWQGPWVPV 60 +QD V EL YNGK IT DIA+ + Y D +SG D+L V LED + W W P Sbjct: 10 IQDVAAPVFELSYNGKSITADIAQYALNISYTDHLSGESDELEVELEDCDGRWLNGWYPD 69 Query: 61 EGDQINASIRTINWDKPGENKKL-PLGTFEIDSIDFNGPPDTISIKAVSLPISSEIRMQR 119 +G T+++ L LG+F++D +D++ PP + I+A++ + +R Sbjct: 70 KGA-------TLDFKLGYRGAALVALGSFDVDEVDYSAPPSVVHIRALATGVQHPLRTP- 121 Query: 120 SSRSWEKTNLKTVAAQVAKRANLKLIYEAQDNPSYERLEQSEMSDLAFLLNTATQEGIAI 179 R+++K L+ +A ++AKR +KL + +D + ERL Q +DL FL ++ G Sbjct: 122 EGRAYDKLTLQALAQRIAKRHGMKLEGKIED-VAIERLTQYHETDLQFLQRVSSHYGYVC 180 Query: 180 KVSGGSLILFDEMVYEQKEAITTIVRGDDNVTGYSFALNTAYAAF-------RACTVTYT 232 KV + L + +++ E + + +V ++ A ++ A A V+Y Sbjct: 181 KVMDNNRKL---VFWKRAELVASA-----SVRRFAPADLISWRARDQLSQVPSAVEVSYH 232 Query: 233 PPTSKEPLKA-----TYTPNGAPKNGPVLKINEQVDTXXXXXXXXXXXXXXXXXEGGKGT 287 P ++ A P G + V+K+ + + + Sbjct: 233 DPHKRKLQTARVGGDARAPGGKASSADVVKLTRKSGGREQAELQAKAEMERRQLARTEMS 292 Query: 288 LSLMGDIRMVTGLTINIKGWQRFDGKYIIESAKHSIG-SSGYTTNLEI 334 +++ G ++ G + + G+ + G+Y+IE A+H + GY L++ Sbjct: 293 VTVDGSPQLAAGRNVELSGFGKLSGRYLIERARHRLSRQEGYICELDL 340 >ref|NP_456043.1| putative bacteriophage regulatory protein [Salmonella enterica subsp. enterica serovar Typhi] ref|NP_805152.1| putative bacteriophage regulatory protein [Salmonella enterica subsp. enterica serovar Typhi Ty2] pir||AE0688 probable bacteriophage regulatory protein STY1632 [imported] - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) emb|CAD01878.1| putative bacteriophage regulatory protein [Salmonella enterica subsp. enterica serovar Typhi] gb|AAO69001.1| putative bacteriophage regulatory protein [Salmonella enterica subsp. enterica serovar Typhi Ty2] Length = 384 Score = 115 bits (287), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 95/349 (27%), Positives = 163/349 (46%), Gaps = 26/349 (7%) Query: 1 MQDARRAVLELKYNGKDITMDIAKSLTDFQYNDAVSGSLDDLTVSLEDRERNWQGPWVPV 60 + D V L Y K+IT DIA +T ++D + D + V L+D + W W P Sbjct: 17 VSDVLTPVFTLWYLQKNITSDIAPYVTRVVWSDNIKNESDTIEVELDDTDGRWLDKWYPG 76 Query: 61 EGDQINASIRTINWDKPGENKKLPLGTFEIDSIDFNGPPDTISIKAVSLPISSEIRMQRS 120 +GD + T+ GE K L GTF ID I+ + P ++I+ V+ ++S +R +S Sbjct: 77 KGDTL-----TLKMGYQGE-KLLSCGTFSIDEIEVSSPASVVAIRGVATSVNSALRT-KS 129 Query: 121 SRSWEKTNLKTVAAQVAKRANLKLIYEAQDNPSYERLEQSEMSDLAFLLNTATQEGIAIK 180 SR +E T L VA ++A++ LKL+ + ++ +R+ Q +D+ FL A++ G A+K Sbjct: 130 SRGFENTTLAAVAGRIARKHRLKLV-GSIESIKIDRVTQYAETDVGFLRRLASEYGYAVK 188 Query: 181 VSGGSLILFDEMVYEQKEAITTIVRGDDNVTGYSFALNTAYAAFRACTVTYTPPTSKEPL 240 V LI +E + + V +S +T +++ V + +SK+ + Sbjct: 189 VVSDQLIFSHLATLRSQEPVRQL--KPQGVARFSLR-DTINRVYKSAKVKHQKSSSKKLI 245 Query: 241 KATYTPNGAP-------KNGPV-----LKINEQVDTXXXXXXXXXXXXXXXXXEGGKGTL 288 Y +G K G V LK+N +V G+L Sbjct: 246 --VYEADGGTRESDKKLKGGKVTSADSLKVNSRVSDPDSARIKADSALARHNEYQQNGSL 303 Query: 289 SLMGDIRMVTGLTINIKGWQRFDGKYIIESAKHSI-GSSGYTTNLEIRK 336 +L G ++ G I + G+ + G ++I +A+H+ +SGYTT LE+ + Sbjct: 304 TLTGTPQLTAGNKIELVGFGQLSGPWLIITARHAFERNSGYTTELEVAR 352 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 0.313 0.131 0.377 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: 472,832,408 Number of extensions: 18082486 Number of successful extensions: 34762 Number of sequences better than 1.0e-05: 28 Number of HSP's gapped: 34735 Number of HSP's successfully gapped: 28 Length of query: 340 Length of database: 757,237,578 Length adjustment: 126 Effective length of query: 214 Effective length of database: 415,135,104 Effective search space: 88838912256 Effective search space used: 88838912256 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 126 (53.1 bits)