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= 0443.0022.p (363 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_830125.1| D-alanine--D-alanine ligase [Bacillus cereus AT... 392 e-108 ref|NP_976593.1| D-alanine--D-alanine ligase [Bacillus cereus AT... 387 e-106 ref|NP_388337.1| D-alanyl-D-alanine ligase A [Bacillus subtilis]... 378 e-103 ref|NP_464381.1| D-alanine--D-alanine ligase [Listeria monocytog... 367 e-100 ref|NP_470190.1| D-alanine--D-alanine ligase [Listeria innocua] ... 364 1e-99 >ref|NP_830125.1| D-alanine--D-alanine ligase [Bacillus cereus ATCC 14579] sp|Q81IU1|DDLB_BACCR D-alanine--D-alanine ligase B (D-alanylalanine synthetaseB) (D-Ala-D-Ala ligase B) gb|AAP07326.1| D-alanine--D-alanine ligase [Bacillus cereus ATCC 14579] Length = 361 Score = 392 bits (1008), Expect = e-108, Method: Compositional matrix adjust. Identities = 192/359 (53%), Positives = 259/359 (72%), Gaps = 3/359 (0%) Query: 4 TKITVGLVYGGKSGEHEVSLQTAFAVMNAFDYAKYEIIPFYISKQGLWKVGAAMDAPFGT 63 TKI +GL+YGGKS EH+VSLQTA A + A + K+EI P YI++QG W G ++ Sbjct: 2 TKIKLGLLYGGKSAEHQVSLQTALAAIKALNQDKFEIHPIYITEQGQWVRGERIEGEVTD 61 Query: 64 IQELKLGGEAGDMS-MALNA-VFSGLTGGDQLIDVMFPLLHGTNGEDGTIQGLFEMANIP 121 ++ LK+ G +S ++L+ + + IDV+FPLLHG NGEDGT+QGL E+ NIP Sbjct: 62 VEALKMSGAENAISPLSLSTEIIPSAASEENAIDVIFPLLHGPNGEDGTVQGLLELMNIP 121 Query: 122 YIGAGVLASSAGMDKVVMKKLFGEAGLDQCEYCYFNISAWKRKSHELIISLEDKLGYPVF 181 Y+G GVLASSAGMDKVVMK +F EAGL Q +Y F SAW++ E +EDKLGYP F Sbjct: 122 YVGNGVLASSAGMDKVVMKNIFAEAGLKQAKYASFIRSAWEKNREEAYSKVEDKLGYPCF 181 Query: 182 VKPANLGSSVGISKAVDKESLIKAVEVAFRYDTKVIIEEFVDAREVEVSVLGNEEPEASV 241 VKPANLGSSVGI+K ++E L A AF++D K+I+EE + REVEV VLGN+EP+ SV Sbjct: 182 VKPANLGSSVGINKCKNREELEDAFVEAFQFDRKIIVEENIVGREVEVGVLGNDEPKCSV 241 Query: 242 PGEIVSSGEYYDYAAKYTDGKSQMLIPAPVDPEVADRLRESAIQAFRAIEGSGITRADFF 301 GEIV ++YDY +KY DG + ++IPA + E ++ ++ AI AF++++G+G+TRADFF Sbjct: 242 VGEIVPKKDFYDYKSKYIDGDTALIIPAEMTEEESNVIKRDAIIAFQSLDGAGLTRADFF 301 Query: 302 LRKSDGKILINEVNTMPGFTPYSMYPLLWRETGVSYQALLDRMIELALERYHFKQNLKY 360 L K DG++ INEVNTMPGFTP+SM+PLLW+ TG+ Y L++ +I LA+ER+ KQ +KY Sbjct: 302 LTK-DGEVYINEVNTMPGFTPFSMFPLLWQHTGLPYPELIEELIRLAIERHEEKQKIKY 359 >ref|NP_976593.1| D-alanine--D-alanine ligase [Bacillus cereus ATCC 10987] gb|AAS39201.1| D-alanine--D-alanine ligase [Bacillus cereus ATCC 10987] Length = 361 Score = 387 bits (995), Expect = e-106, Method: Compositional matrix adjust. Identities = 189/359 (52%), Positives = 258/359 (71%), Gaps = 3/359 (0%) Query: 4 TKITVGLVYGGKSGEHEVSLQTAFAVMNAFDYAKYEIIPFYISKQGLWKVGAAMDAPFGT 63 TKI +GL+YGGKS EH+VSLQTA A + A + K+EI P YI++QG W G ++ Sbjct: 2 TKIKLGLLYGGKSAEHQVSLQTALAAIKALNQDKFEIHPIYITEQGQWVRGERIEGEVTD 61 Query: 64 IQELKLGGEAGDMS-MALNA-VFSGLTGGDQLIDVMFPLLHGTNGEDGTIQGLFEMANIP 121 ++ LK+ G +S ++L+ + + IDV+FPLLHG NGEDGT+QGL E+ NIP Sbjct: 62 VEVLKMSGAENAISPLSLSTEIIPSTNAEENAIDVIFPLLHGPNGEDGTVQGLLELMNIP 121 Query: 122 YIGAGVLASSAGMDKVVMKKLFGEAGLDQCEYCYFNISAWKRKSHELIISLEDKLGYPVF 181 Y+G GVLAS+AGMDKVVMK +F EAGL Q +Y F SAW++ +E+ LGYP F Sbjct: 122 YVGNGVLASAAGMDKVVMKNIFAEAGLKQAKYASFIRSAWEKDRETAYEKVEEVLGYPCF 181 Query: 182 VKPANLGSSVGISKAVDKESLIKAVEVAFRYDTKVIIEEFVDAREVEVSVLGNEEPEASV 241 VKPANLGSSVGI+K ++E L A E AF++D K+I+EE + REVEV VLGN+EP+ SV Sbjct: 182 VKPANLGSSVGINKCKNREELENAFEEAFQFDRKIIVEENIVGREVEVGVLGNDEPKCSV 241 Query: 242 PGEIVSSGEYYDYAAKYTDGKSQMLIPAPVDPEVADRLRESAIQAFRAIEGSGITRADFF 301 GEIV ++YDY +KY DG + ++IPA + E ++ ++ AI AF++++G+G+TRADFF Sbjct: 242 VGEIVPKKDFYDYKSKYIDGDTALIIPAEMTEEESNVIKRDAIVAFQSLDGAGLTRADFF 301 Query: 302 LRKSDGKILINEVNTMPGFTPYSMYPLLWRETGVSYQALLDRMIELALERYHFKQNLKY 360 L K DG++ INEVNTMPGFTP+SM+PLLW+ TG+ Y L++ +I LA+ER+ KQ +KY Sbjct: 302 LTK-DGEVYINEVNTMPGFTPFSMFPLLWQHTGLPYPELIEELIRLAMERHEEKQKIKY 359 >ref|NP_388337.1| D-alanyl-D-alanine ligase A [Bacillus subtilis] sp|P96612|DDL_BACSU D-alanine--D-alanine ligase (D-alanylalanine synthetase) (D-Ala-D-Ala ligase) pir||D69613 D-alanine-D-alanine ligase (EC 6.3.2.4) A ddlA - Bacillus subtilis dbj|BAA19293.1| PROBABLE D-ALANINE--D-ALANINE LIGASE A [Bacillus subtilis] emb|CAB12263.1| D-alanyl-D-alanine ligase A [Bacillus subtilis subsp. subtilis str. 168] Length = 354 Score = 378 bits (970), Expect = e-103, Method: Compositional matrix adjust. Identities = 188/353 (53%), Positives = 251/353 (71%), Gaps = 4/353 (1%) Query: 11 VYGGKSGEHEVSLQTAFAVMNAFDYAKYEIIPFYISKQGLWKVGAAMDAPFGTIQELKL- 69 +YGGKS EH VSLQTA AV+ A + K++I P YI+++G W GA + P ++ L+ Sbjct: 1 MYGGKSAEHNVSLQTALAVIKALNTEKFDIHPIYITEKGEWVRGARLTEPVSNVKMLQFE 60 Query: 70 -GGEAGDMSMALNAVF-SGLTGGDQLIDVMFPLLHGTNGEDGTIQGLFEMANIPYIGAGV 127 GG A + +F + ++ IDV+FPLLHG NGEDGTIQG+ E+ NIPY+G GV Sbjct: 61 QGGSAFSPAALNQEMFPQEASQQNEAIDVVFPLLHGPNGEDGTIQGMLELLNIPYVGNGV 120 Query: 128 LASSAGMDKVVMKKLFGEAGLDQCEYCYFNISAWKRKSHELIISLEDKLGYPVFVKPANL 187 LASSAGMDKVVMK LF + GL Q +Y F W R E +E +LGYP FVKPANL Sbjct: 121 LASSAGMDKVVMKHLFAQVGLAQAKYAAFLKKDWTRSPKESCEEVEQELGYPCFVKPANL 180 Query: 188 GSSVGISKAVDKESLIKAVEVAFRYDTKVIIEEFVDAREVEVSVLGNEEPEASVPGEIVS 247 GSSVGISK ++E L KA E+AF+YD KV++EE ++ RE+E+ VLGN++P+ SV GEI Sbjct: 181 GSSVGISKCRNREELQKAFELAFQYDRKVVVEEGINGREIEIGVLGNDDPKCSVVGEIAP 240 Query: 248 SGEYYDYAAKYTDGKSQMLIPAPVDPEVADRLRESAIQAFRAIEGSGITRADFFLRKSDG 307 ++YDY AKY DG + ++IPA V E + + AI+AF+AI+GSG+ RADFFL +DG Sbjct: 241 KTDFYDYKAKYEDGDTDLMIPAIVTDEEYATISDMAIKAFKAIDGSGLVRADFFL-TADG 299 Query: 308 KILINEVNTMPGFTPYSMYPLLWRETGVSYQALLDRMIELALERYHFKQNLKY 360 ++LINEVNTMPGFTP+SM+PLLW+E GV Y L+++++ELA ER+ KQ +K+ Sbjct: 300 EVLINEVNTMPGFTPFSMFPLLWKEAGVEYADLIEQLVELAKERHAEKQLIKH 352 >ref|NP_464381.1| D-alanine--D-alanine ligase [Listeria monocytogenes EGD-e] sp|Q8Y8P1|DDL_LISMO D-alanine--D-alanine ligase (D-alanylalanine synthetase) (D-Ala-D-Ala ligase) pir||AG1181 D-alanine-D-alanine ligase [imported] - Listeria monocytogenes (strain EGD-e) emb|CAC98933.1| D-alanine--D-alanine ligase [Listeria monocytogenes] Length = 370 Score = 367 bits (941), Expect = e-100, Method: Compositional matrix adjust. Identities = 187/370 (50%), Positives = 252/370 (68%), Gaps = 13/370 (3%) Query: 5 KITVGLVYGGKSGEHEVSLQTAFAVMNAFDYAKYEIIPFYISKQGLWKVGAAMDAPFGTI 64 K + L+YGGKS EHEVSLQTAF+V+NA D K+E P YI+ +G W G + + Sbjct: 2 KTKLILLYGGKSAEHEVSLQTAFSVINALDLEKFEAAPIYITNEGEWIQGPLLSGKLDFV 61 Query: 65 QELKLGGEAGDMSMALN--------AVFSGLTGGDQLIDVMFPLLHGTNGEDGTIQGLFE 116 ++L+ + +A A+ + D V+FPLLHG NGEDGT+QGLFE Sbjct: 62 EQLRFSA-TDTIKLATTESEKSEGEAISPAVLEADGQETVVFPLLHGPNGEDGTVQGLFE 120 Query: 117 MANIPYIGAGVLASSAGMDKVVMKKLFGEAGLDQCEYCYFNISAWKRKSHELIISLEDKL 176 + NIPY+G GVLASSA MDK+VMKK+F +AG+ Q + WK E++ +E+ L Sbjct: 121 VLNIPYVGNGVLASSAAMDKIVMKKIFADAGIPQVPAVAVRLIDWKNYQEEMVAEMEEVL 180 Query: 177 GYPVFVKPANLGSSVGISKAVDKESLIKAVEVAFRYDTKVIIEEFVDAREVEVSVLGNEE 236 YPVFVKPANLGSSVGISKA +K+ L+ A+ AF YD +V++E+ V ARE+E+ VLGN+ Sbjct: 181 TYPVFVKPANLGSSVGISKATNKKELVDAMTEAFLYDRRVVVEQGVVAREIEMGVLGNDT 240 Query: 237 PEASVPGEIVSSG---EYYDYAAKYTDGKSQMLIPAPVDPEVADRLRESAIQAFRAIEGS 293 P SVPGEI+ G +YDY AKY D + ++IP VDPE+ ++++E AIQAF ++ S Sbjct: 241 PVCSVPGEILPEGAVATFYDYKAKYQDNNTALIIPTEVDPEILEQMKEYAIQAFLGLDAS 300 Query: 294 GITRADFFLRKSDGKILINEVNTMPGFTPYSMYPLLWRETGVSYQALLDRMIELALERYH 353 G+ RADFFL + D ++ +NEVNTMPGFTPYSMYPLLW+ETG+ Y AL++R+++LA ER+ Sbjct: 301 GLVRADFFLTE-DNQLFLNEVNTMPGFTPYSMYPLLWQETGLPYGALIERLVDLAKERHA 359 Query: 354 FKQNLKYDNE 363 K LKY E Sbjct: 360 AKNALKYKLE 369 >ref|NP_470190.1| D-alanine--D-alanine ligase [Listeria innocua] sp|Q92DG5|DDL_LISIN D-alanine--D-alanine ligase (D-alanylalanine synthetase) (D-Ala-D-Ala ligase) pir||AH1538 D-alanine-D-alanine ligase [imported] - Listeria innocua (strain Clip11262) emb|CAC96080.1| D-alanine--D-alanine ligase [Listeria innocua] Length = 370 Score = 364 bits (935), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 188/370 (50%), Positives = 253/370 (68%), Gaps = 13/370 (3%) Query: 5 KITVGLVYGGKSGEHEVSLQTAFAVMNAFDYAKYEIIPFYISKQGLWKVGAAMDAPFGTI 64 K + L+YGGKS EHEVSLQTAF+V+NA D K+E P YI+ +G W G + + Sbjct: 2 KTKLILLYGGKSAEHEVSLQTAFSVINALDLEKFEAEPIYITNEGEWVQGPLLSGKLDFV 61 Query: 65 QEL--------KLGGEAGDMSMALNAVFSGLTGGDQLIDVMFPLLHGTNGEDGTIQGLFE 116 ++L KL + S A+ + D V+FPLLHG NGEDGT+QGLFE Sbjct: 62 EQLRFSATDRVKLATAESEKSEG-EAISPAVLEADGQETVVFPLLHGPNGEDGTVQGLFE 120 Query: 117 MANIPYIGAGVLASSAGMDKVVMKKLFGEAGLDQCEYCYFNISAWKRKSHELIISLEDKL 176 + NIPY+G GVLASSA MDK+VMKK+F +AG+ Q + WK E++ +E+ L Sbjct: 121 VLNIPYVGNGVLASSAAMDKIVMKKIFADAGIPQVPAVAVRLIDWKNYQEEMVTEMEEVL 180 Query: 177 GYPVFVKPANLGSSVGISKAVDKESLIKAVEVAFRYDTKVIIEEFVDAREVEVSVLGNEE 236 YPVFVKPANLGSSVGISKA +K LI+A+ AF YD +V++E+ V ARE+E+ VLGN+ Sbjct: 181 TYPVFVKPANLGSSVGISKATNKTELIEAMTEAFLYDRRVVVEQGVVAREIEMGVLGNDT 240 Query: 237 PEASVPGEIVSSG---EYYDYAAKYTDGKSQMLIPAPVDPEVADRLRESAIQAFRAIEGS 293 P SVPGEI+ G ++YDY AKY D + ++IP V+PE+ ++++E A+QAF ++ S Sbjct: 241 PVCSVPGEILPEGAVAKFYDYKAKYQDNNTALIIPTEVEPEILEQMKEYAVQAFLGLDAS 300 Query: 294 GITRADFFLRKSDGKILINEVNTMPGFTPYSMYPLLWRETGVSYQALLDRMIELALERYH 353 G+ RADFFL + D ++ +NEVNTMPGFTPYSMYPLLW+ETG+ Y AL++R+++LA ER+ Sbjct: 301 GLVRADFFLTE-DNQLFLNEVNTMPGFTPYSMYPLLWQETGLPYGALIERLVDLAKERHA 359 Query: 354 FKQNLKYDNE 363 K LKY E Sbjct: 360 AKNALKYKLE 369 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 0.318 0.137 0.394 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: 552,754,789 Number of extensions: 23362083 Number of successful extensions: 59897 Number of sequences better than 1.0e-05: 773 Number of HSP's gapped: 58249 Number of HSP's successfully gapped: 780 Length of query: 363 Length of database: 757,237,578 Length adjustment: 127 Effective length of query: 236 Effective length of database: 412,420,005 Effective search space: 97331121180 Effective search space used: 97331121180 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: 41 (21.7 bits) S2: 126 (53.1 bits)