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: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value lin0848 [M] COG1181 D-alanine-D-alanine ligase and related ATP-g... 364 e-100 all0980 [M] COG1181 D-alanine-D-alanine ligase and related ATP-g... 312 5e-85 slr1874 [M] COG1181 D-alanine-D-alanine ligase and related ATP-g... 310 3e-84 ddlA [M] COG1181 D-alanine-D-alanine ligase and related ATP-gras... 292 6e-79 Z0477 [M] COG1181 D-alanine-D-alanine ligase and related ATP-gra... 292 6e-79 >lin0848 [M] COG1181 D-alanine-D-alanine ligase and related ATP-grasp enzymes Length = 671 Score = 364 bits (935), Expect = e-100, Method: Compositional matrix adjust. Identities = 17/370 (4%), Positives = 61/370 (16%), Gaps = 13/370 (3%) Query: 5 KITVGLVYGGKSGEHEVSLQTAFAVMNAFDYAKYEIIPFYISKQGLWKVGAAMDAPFGTI 64 + + ++ A+Y+ + + + Sbjct: 2 ESIEQQLTELRTTLRHHEYLYHVMDAPEIPDAEYDRLMRELRELETKHPELITPDSPTQR 61 Query: 65 QEL--------KLGGEAGDMSMALNAVFSGLTGGDQLIDVMFPLLHGTNGEDGTIQGLFE 116 ++ + Sbjct: 62 VGAAPLAAFSQIRHEVPMLSLDN-VFDEESFLAFNKRVQDRLKNNEKVTWCCELKLDGLA 120 Query: 117 MANIPYIGAGVLASSAGMDKVVMKKLFGEAGLDQCEYCYFNISAWKRKSHELIISLEDKL 176 ++ + G V A++ G + + R + L Sbjct: 121 VSILYENGVLVSAATRGDGTTGEDITSNVRTIRAIPLKLHGENIPARLEVRGEVFLPQAG 180 Query: 177 GYPVFVKPANLGSSVGISKAVDKESLIKAVEVAFRYDTKVIIEEFVDAREVEVSVLGNEE 236 + G V + ++ ++ + + + Sbjct: 181 FEKINEDARRTGGKVFANPRNAAAGSLRQLDPRITAKRPLTFFCYGVGVLEGGELPDTHL 240 Query: 237 PEASVPGEIVSSG---EYYDYAAKYTDGKSQMLIPAPVDPEVADRLRESAIQAFRAIEGS 293 + +A+ + + + E Sbjct: 241 GRLLQFKKWGLPVSDRVTLCESAEEVLAFYHKVEEDRPTLGFDIDGVVIKVNSLAQQEQL 300 Query: 294 GITRADFFLRKSDGKILINEVNTMPGFTPYSMYPLLWRETGVSYQALLDRMIELALERYH 353 G K E T + + + + + ++ H Sbjct: 301 GFVARAPRWAV-AFKFPAQEQMTFVRDVEFQVGRTGAITPVARLEPVHVAGVLVSNATLH 359 Query: 354 FKQNLKYDNE 363 ++ Sbjct: 360 NADEIERLGL 369 >all0980 [M] COG1181 D-alanine-D-alanine ligase and related ATP-grasp enzymes Length = 364 Score = 312 bits (800), Expect = 5e-85, Method: Compositional matrix adjust. Identities = 164/367 (44%), Positives = 236/367 (64%), Gaps = 25/367 (6%) Query: 6 ITVGLVYGGKSGEHEVSLQTAFAVMNAF----DYAKYEIIPFYISKQGLWKVGAAMDAPF 61 + VGL++GG+SGEHEVS+ +A A+ +A + +KYEI+PFYI K G W G A Sbjct: 1 MRVGLLFGGRSGEHEVSISSARAIASALSAGENASKYEILPFYIHKDGRWLAGEAPQ--- 57 Query: 62 GTIQELKLGG---EAGDMSMALNAVFSG-------LTGGDQL--IDVMFPLLHGTNGEDG 109 Q LK G E+ + S A N + + Q+ +DV FP+LHG NGEDG Sbjct: 58 ---QVLKSGAPLLESSNSSPAENNLVNSQQQTLERWQSPSQVAEVDVWFPILHGPNGEDG 114 Query: 110 TIQGLFEMANIPYIGAGVLASSAGMDKVVMKKLFGEAGLDQCEY-CYFNISAWKRKS--H 166 TIQGL + P++G+GVL S+ GMDK+ MK F +AGL Q +Y W Sbjct: 115 TIQGLLTLMQTPFVGSGVLGSALGMDKIAMKMAFEQAGLPQVKYKAVTRAQIWSNPCVFP 174 Query: 167 ELIISLEDKLGYPVFVKPANLGSSVGISKAVDKESLIKAVEVAFRYDTKVIIEEFVDARE 226 +L +E LGYP FVKPANLGSSVGISK ++ L A++ A YD ++IIE V ARE Sbjct: 175 KLCDEIEASLGYPCFVKPANLGSSVGISKVRSRQELEDALDNAANYDRRIIIEAGVAARE 234 Query: 227 VEVSVLGNEEPEASVPGEIVSSGEYYDYAAKYTDGKSQMLIPAPVDPEVADRLRESAIQA 286 VE +VLGN++P+AS GEI + ++YDY KYT GK+ +LIPA + +++ +++ A+QA Sbjct: 235 VECAVLGNDQPQASTVGEITFNSDFYDYETKYTAGKADLLIPAIIPDDISRQIQNMALQA 294 Query: 287 FRAIEGSGITRADFFLRKSDGKILINEVNTMPGFTPYSMYPLLWRETGVSYQALLDRMIE 346 F A++ +G+ R DFF ++ G++LINE+NT+PGFT SMYP LW +G+ + L+D++++ Sbjct: 295 FAAVDAAGLARVDFFYVEATGEVLINEINTLPGFTATSMYPQLWAHSGIPFPELVDKLVQ 354 Query: 347 LALERYH 353 LA+ER++ Sbjct: 355 LAIERHN 361 >slr1874 [M] COG1181 D-alanine-D-alanine ligase and related ATP-grasp enzymes Length = 354 Score = 310 bits (793), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 163/356 (45%), Positives = 229/356 (64%), Gaps = 16/356 (4%) Query: 6 ITVGLVYGGKSGEHEVSLQTAFAVMNAF----DYAKYEIIPFYISKQGLWKVGAAMDAPF 61 + VGL++GG SGEHEVS+++A A+ A + KY++ PFYI K G+W P Sbjct: 1 MRVGLLFGGCSGEHEVSIKSAQAIAKALASDDNQTKYQVSPFYIQKNGVWL------GPD 54 Query: 62 GTIQELKLGGEAGDMSMALNAVFSGLTGGDQLIDVMFPLLHGTNGEDGTIQGLFEMANIP 121 + Q L G GD + + ++ +V FP+LHG NGEDGT+QGLF + +P Sbjct: 55 VSQQVLDQGVPWGDQPVTAGQRWQFPPEAARM-EVWFPILHGPNGEDGTVQGLFSLMQVP 113 Query: 122 YIGAGVLASSAGMDKVVMKKLFGEAGLDQCEYCYFNISA-WKRKS--HELIISLEDKLGY 178 Y+G+GVL S GMDK+ MK +F AGL Q Y W L +E ++GY Sbjct: 114 YVGSGVLGSCVGMDKLAMKMVFERAGLPQVNYMGVERGEIWSNPCVFPALCEKIEAQVGY 173 Query: 179 PVFVKPANLGSSVGISKAVDKESLIKAVEVAFRYDTKVIIEE-FVDAREVEVSVLGNEEP 237 P FVKPANLGSSVGI+K ++ L A++ A YD ++I+E D REVE +VLGNE P Sbjct: 174 PCFVKPANLGSSVGIAKVRNRSELEAALDNAASYDRRIIVEAGLTDIREVECAVLGNENP 233 Query: 238 EASVPGEIVSSGEYYDYAAKYTDGKSQMLIPAPVDPEVADRLRESAIQAFRAIEGSGITR 297 +ASV GEI ++YDY KYTDG+SQM IPA + V ++++ AIQAF+A++ +G+ R Sbjct: 234 QASVVGEITYDSDFYDYETKYTDGRSQMHIPANLPKAVVNQIQTMAIQAFKAVDAAGLGR 293 Query: 298 ADFFLRKSDGKILINEVNTMPGFTPYSMYPLLWRETGVSYQALLDRMIELALERYH 353 DFF + + G+I+INE+NT+PGFT +SMYP LWR +GV + +L+DR+++LAL+ YH Sbjct: 294 LDFFYQPTTGQIVINEINTLPGFTAFSMYPELWRASGVEFPSLVDRLLQLALD-YH 348 >ddlA [M] COG1181 D-alanine-D-alanine ligase and related ATP-grasp enzymes Length = 364 Score = 292 bits (748), Expect = 6e-79, Method: Compositional matrix adjust. Identities = 150/364 (41%), Positives = 233/364 (64%), Gaps = 14/364 (3%) Query: 5 KITVGLVYGGKSGEHEVSLQTAFAVMNAFDYAKYEIIPFYISKQGLWKVGAAMDAPFGTI 64 K+ VG+V+GGKS EHEVSLQ+A +++A D ++++++ I KQG W V A + Sbjct: 3 KLRVGIVFGGKSAEHEVSLQSAKNIVDAIDKSRFDVVLLGIDKQGQWHVSDASNYLLNAD 62 Query: 65 QELKLGGEAGDMSMAL------NAVFSGLTGGD-QLIDVMFPLLHGTNGEDGTIQGLFEM 117 + S+A + + G +DV+FP++HGT GEDG++QG+ + Sbjct: 63 DPAHIALRPSATSLAQVPGKHEHQLIDAQNGQPLPTVDVIFPIVHGTLGEDGSLQGMLRV 122 Query: 118 ANIPYIGAGVLASSAGMDKVVMKKLFGEAGLDQCEYCYFNISAWKRKSHELIIS-LEDKL 176 AN+P++G+ VLAS+A MDK V K+L +AGL+ + I+ + H + + +E KL Sbjct: 123 ANLPFVGSDVLASAACMDKDVTKRLLRDAGLNIAPF----ITLTRANRHNISFAEVESKL 178 Query: 177 GYPVFVKPANLGSSVGISKAVDKESLIKAVEVAFRYDTKVIIEEFVDAREVEVSVLGNEE 236 G P+FVKPAN GSSVG+SK +E AV++AF +D KVI+E+ + RE+E +VLGN+ Sbjct: 179 GLPLFVKPANQGSSVGVSKVTSEEQYAIAVDLAFEFDHKVIVEQGIKGREIECAVLGNDN 238 Query: 237 PEASVPGEIVSSGEYYDYAAKYTDGK-SQMLIPAPVDPEVADRLRESAIQAFRAIEGSGI 295 P+AS GEIV + ++Y Y KY D +++++PA + PE+ D++R A+QA++ + +G+ Sbjct: 239 PQASTCGEIVLTSDFYAYDTKYIDEDGAKVVVPAAIAPEINDKIRAIAVQAYQTLGCAGM 298 Query: 296 TRADFFLRKSDGKILINEVNTMPGFTPYSMYPLLWRETGVSYQALLDRMIELALERYHFK 355 R D FL + +++INE+NT+PGFT SMYP LW+ +G+ Y L+ R+IELALER+ Sbjct: 299 ARVDVFL-TPENEVVINEINTLPGFTNISMYPKLWQASGLGYTDLITRLIELALERHAAD 357 Query: 356 QNLK 359 LK Sbjct: 358 NALK 361 >Z0477 [M] COG1181 D-alanine-D-alanine ligase and related ATP-grasp enzymes Length = 364 Score = 292 bits (748), Expect = 6e-79, Method: Compositional matrix adjust. Identities = 150/364 (41%), Positives = 233/364 (64%), Gaps = 14/364 (3%) Query: 5 KITVGLVYGGKSGEHEVSLQTAFAVMNAFDYAKYEIIPFYISKQGLWKVGAAMDAPFGTI 64 K+ VG+V+GGKS EHEVSLQ+A +++A D ++++++ I KQG W V A + Sbjct: 3 KLRVGIVFGGKSAEHEVSLQSAKNIVDAIDKSRFDVVLLGIDKQGQWHVSDASNYLLNAD 62 Query: 65 QELKLGGEAGDMSMAL------NAVFSGLTGGD-QLIDVMFPLLHGTNGEDGTIQGLFEM 117 + S+A + + G +DV+FP++HGT GEDG++QG+ + Sbjct: 63 DPAHIALRPSATSLAQVPGKHEHQLIDAQNGQPLPTVDVIFPIVHGTLGEDGSLQGMLRV 122 Query: 118 ANIPYIGAGVLASSAGMDKVVMKKLFGEAGLDQCEYCYFNISAWKRKSHELIIS-LEDKL 176 AN+P++G+ VLAS+A MDK V K+L +AGL+ + I+ + H + + +E KL Sbjct: 123 ANLPFVGSDVLASAACMDKDVTKRLLRDAGLNIAPF----ITLTRANRHNISFAEVESKL 178 Query: 177 GYPVFVKPANLGSSVGISKAVDKESLIKAVEVAFRYDTKVIIEEFVDAREVEVSVLGNEE 236 G P+FVKPAN GSSVG+SK +E AV++AF +D KVI+E+ + RE+E +VLGN+ Sbjct: 179 GLPLFVKPANQGSSVGVSKVTSEEQYAIAVDLAFEFDHKVIVEQGIKGREIECAVLGNDN 238 Query: 237 PEASVPGEIVSSGEYYDYAAKYTDGK-SQMLIPAPVDPEVADRLRESAIQAFRAIEGSGI 295 P+AS GEIV + ++Y Y KY D +++++PA + PE+ D++R A+QA++ + +G+ Sbjct: 239 PQASTCGEIVLTSDFYAYDTKYIDEDGAKVVVPAAIAPEINDKIRAIAVQAYQTLGCAGM 298 Query: 296 TRADFFLRKSDGKILINEVNTMPGFTPYSMYPLLWRETGVSYQALLDRMIELALERYHFK 355 R D FL + +++INE+NT+PGFT SMYP LW+ +G+ Y L+ R+IELALER+ Sbjct: 299 ARVDVFL-TPENEVVINEINTLPGFTNISMYPKLWQASGLGYTDLITRLIELALERHAAD 357 Query: 356 QNLK 359 LK Sbjct: 358 NALK 361 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 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: 115334 Number of Hits to DB: 28,161,636 Number of extensions: 1226088 Number of successful extensions: 5619 Number of sequences better than 1.0e-05: 26 Number of HSP's gapped: 5560 Number of HSP's successfully gapped: 26 Length of query: 363 Length of database: 38,378,431 Length adjustment: 108 Effective length of query: 255 Effective length of database: 25,922,359 Effective search space: 6610201545 Effective search space used: 6610201545 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: 116 (49.3 bits)