BLASTP 2.2.21 [Jun-14-2009] 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. Query= 0017.0063.p (470 letters) Database: COGmodified 192,987 sequences; 59,019,183 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value RSc0584 Non COG 355 1e-97 PA3047 [M] COG2027 D-alanyl-D-alanine carboxypeptidase (penicill... 321 3e-87 NMA0665 [M] COG2027 D-alanyl-D-alanine carboxypeptidase (penicil... 206 1e-52 NMB1797 [M] COG2027 D-alanyl-D-alanine carboxypeptidase (penicil... 201 3e-51 dacB [M] COG2027 D-alanyl-D-alanine carboxypeptidase (penicillin... 132 2e-30 >RSc0584 Non COG Length = 514 Score = 355 bits (912), Expect = 1e-97, Method: Compositional matrix adjust. Identities = 199/452 (44%), Positives = 260/452 (57%), Gaps = 16/452 (3%) Query: 31 LPPAVTGALKQAKIPARNVGVFVQAVDATRPMLAFNATAPFNPASVMKLVTTDAALELLG 90 LP V A +A IP V VFV P+L +NA A NPAS MKL+TT A L+LLG Sbjct: 61 LPANVALAFARAHIPLDAVSVFVIRTGTATPILQWNADAGMNPASTMKLLTTFAGLDLLG 120 Query: 91 PAFNWKTQAYIDGVLNDGVLLGDLSIKGSGDPKLVMENFWMFLRQIRAKGIRDIRGNVVL 150 P F WKT AY D GVL G+L ++G GDPKL+ E + +R G+ ++ GN+VL Sbjct: 121 PDFRWKTSAYADRPPAGGVLSGNLYLRGQGDPKLIPEELIKLVTDVRRAGVDELAGNIVL 180 Query: 151 DRSVFEENVYDPAQFDGDPQKPYNVGPDALLLNYKTVAIRFMPDEASGQVSVAMEPPLSG 210 DRS FE + D DGD + YNV PDALL +KT+ PD A+G V+V + PPL+ Sbjct: 181 DRSYFENGLSDAPPLDGDTGRAYNVAPDALLYAFKTLTFTLAPDAATGAVNVDVSPPLAQ 240 Query: 211 YTVAAPRMSKEAVCGDWQGKLQADVGVGA-----AVFNGAFPAVCGEKVWYIHPYRMSAT 265 V CGDW+ D+ A A F+G + CGE+++ + ++ Sbjct: 241 LQVDNQLHVTHGNCGDWRSHANFDIATQADGTVRASFDGRYAGACGERIFNVAA--LTHA 298 Query: 266 QYFGAVLRQMWSELGGTISGK--VMPGNVAPVARLLAEWQSPAVPEVIRDINKYSNNVMA 323 + +W + GGT + G V A LLA P + EV+ DI+KYSNNVMA Sbjct: 299 DFIWGGFLALWRQAGGTFRATPGLREGKVPHPAVLLATHYGPTLAEVVHDIDKYSNNVMA 358 Query: 324 RQLLLTIGAQASQSPGSTARGAQAIRGW-------XDELVIENGAGLSRNERIAPNTLGQ 376 RQL LTIGA+ + P S + A I W ELV+ENG+GLSR ERI+ LG+ Sbjct: 359 RQLFLTIGAEIGRKPASVQQSADIISRWLARQNLSMPELVLENGSGLSRIERISARNLGR 418 Query: 377 VLVTAFHSPVMPEFIASMPLVGYDGTMRKRLRGENVAGQAHIKTGSLNDVRSIAGYVQAA 436 +L A +P ++P+VG DGTMR RL VAG A IKTG+LNDVR+IAGYV+ Sbjct: 419 LLQQADANPNGAILRDALPVVGVDGTMRNRLTRAGVAGNAEIKTGTLNDVRAIAGYVEGE 478 Query: 437 SGKMYVVVCLINHPNAPFGQAAQDALLQWVFE 468 G+ YVVV +INHP+A GQAA DALLQW+++ Sbjct: 479 GGQRYVVVSMINHPSAGGGQAAHDALLQWIYQ 510 >PA3047 [M] COG2027 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) Pae Pseudomonas aeruginosa Length = 476 Score = 321 bits (822), Expect = 3e-87, Method: Compositional matrix adjust. Identities = 196/474 (41%), Positives = 272/474 (57%), Gaps = 33/474 (6%) Query: 5 KEFRILALCAFAACGIASAQQLAAQELPPAVTGALKQAKIPARNVGVFVQAVDATRPMLA 64 K R LA + + Q+ A LP V AL+ K+ ++ + + +D Sbjct: 3 KSLRTLAFATLLPFALPTLAQVNA-TLPANVQKALQTNKLTGNDLSLVLIPLDGPGNPTY 61 Query: 65 FNATAPFNPASVMKLVTTDAALELLGPAFNWKTQAYIDGVLNDGVLLGDLSIKGSGDPKL 124 +NA NPAS MKL TT AALE+LGP + WKT+ Y DG L +GVL G+L +KG GDPKL Sbjct: 62 YNADVSVNPASTMKLFTTYAALEMLGPTYQWKTEFYTDGQLKNGVLNGNLYLKGGGDPKL 121 Query: 125 VMENFWMFLRQIRAKGIRDIRGNVVLDRSVFEENVYDPAQFD---GDPQKPYNVGPDALL 181 ME W+ +R +RA G+ + G++VLDRS F N+ F+ GD KP+ VGPD+LL Sbjct: 122 NMEKLWLLMRDLRANGVTKVTGDLVLDRSYF--NIPQLPVFNDDGGDDTKPFLVGPDSLL 179 Query: 182 LNYKTVAIRFMPDEASGQVSVAMEPPLSGYTVAAP-RMSKEAVCGDWQGKLQ----ADVG 236 +N K+V R + +V+V M+PPL+ + +M+ A C W KL+ Sbjct: 180 VNLKSV--RMVVRTDGNKVNVQMDPPLANVRIDNQVKMTAPATCPAWP-KLRFSPVTQFD 236 Query: 237 VGAAVFNGAFPAVCGEKVWYI---HPYRMSATQYFGAVLRQMWSELGGTISGKVMPGNVA 293 + G P C + + HP Y +R +W ELGG+I GK G+V Sbjct: 237 GTTLLATGQIPQGCSAQTYMSLLDHP------GYTAGAVRGIWQELGGSILGKDRQGSVP 290 Query: 294 PVARLLAEWQSPAVPEVIRDINKYSNNVMARQLLLTIGAQASQS-PGSTARGAQ-AIRGW 351 A L+A+ SP + E+IRDINKYSNN MARQL L+IGAQ S G A+ AQ +R W Sbjct: 291 RNATLIAKAFSPDLVEIIRDINKYSNNTMARQLFLSIGAQFRNSADGDDAQAAQRVVRQW 350 Query: 352 -------XDELVIENGAGLSRNERIAPNTLGQVLVTAFHSPVMPEFIASMPLVGYDGTMR 404 LV+ENG+GLSR ER++ + +L A+HSP E+I+S+PL G DGTMR Sbjct: 351 LARKGITAPRLVMENGSGLSRQERVSAREMAAMLQAAWHSPYAAEYISSLPLAGLDGTMR 410 Query: 405 KRLRGENVAGQAHIKTGSLNDVRSIAGYVQAASGKMYVVVCLINHPNAPFGQAA 458 KRLR + G+AH+KTG+LN VR++AG+ + ASG +VVV ++N P P+G +A Sbjct: 411 KRLRRTALVGEAHVKTGTLNTVRALAGFSRDASGHNWVVVAILNSPR-PWGASA 463 >NMA0665 [M] COG2027 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) NmA Neisseria meningitidis Z2491 Length = 469 Score = 206 bits (524), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 134/415 (32%), Positives = 210/415 (50%), Gaps = 18/415 (4%) Query: 43 KIPARNVGVFVQAVDATRPMLAFNATAPFNPASVMKLVTTDAALELLGPAFNWKTQAYID 102 +IP + V+VQ +D+ + ++ + P NPAS MKLVT AA + G + W T+ + Sbjct: 26 RIPQNEIAVYVQELDSGKVIIDHRSDVPVNPASTMKLVTAFAAFKTFGSNYRWATEFKSN 85 Query: 103 GVLNDGVLLGDLSIKGSGDPKLVMENFWMFLRQIRAKGIRDIRGNVVLDRSVFEENVYDP 162 G +NDG L G+L GSGDP EN RQ+R +GIR+I G+++LD S++ E V P Sbjct: 86 GTVNDGTLDGNLYWAGSGDPVFNQENLLAVQRQLREQGIRNITGHLMLDHSLWGE-VGSP 144 Query: 163 AQFDGDPQKPYNVGPDALLLNYKTVAIRFMPDEASGQVSVAMEPPLSGYTVAAPRM---S 219 F+ D P+ P+ +L+ V +R A+ + +PPL + A + + Sbjct: 145 DDFEADSGSPFMTPPNPTMLSAGMVMVR-AERNAADSTDILTDPPLP-HIFAQNNLKITA 202 Query: 220 KEAVCGDWQGKLQADVGVGAAVFNGAFPAVCGEKVWYIHPYRMSATQYFGAVLRQMWSEL 279 +A C + ++A G P C K + + + + W Sbjct: 203 SQAACPSIKKLMRASFSDNTLKLRGNIPESCLGKPVGVRMFALD--ELIRQSFTNHWLLG 260 Query: 280 GGTISGKVMPGNVAPVARLLAEWQSPAVPEVIRDINKYSNNVMARQLLLTIGAQA----- 334 GG IS + + A+ LA S + E++ D+NK S+N++AR + L +G Sbjct: 261 GGRISDGIGISDTPEGAQTLAVAHSKPMKEILTDMNKRSDNLIARSVFLKLGGDGKLPAV 320 Query: 335 SQSPGSTARGAQAIRGWX-DELVIENGAGLSRNERIAPNTLGQVLVTAFHSPVMPEFIAS 393 S+ S R A+ G +LV+ENG+GLSR ER+ + Q+L TA+ SP +FI + Sbjct: 321 SEQAASAVRRELAVSGIDVADLVLENGSGLSRKERVTARMMAQMLETAYFSPFAQDFIDT 380 Query: 394 MPLVGYDGTMRKRLRGENVAGQAHIKTGSLNDVRSIAGYVQAASGKMYVVVCLIN 448 +P+ G DGT+R R + G +KTG+LN+VR++AGY K VV +IN Sbjct: 381 LPIAGTDGTLRNRFK--QSGGLLRLKTGTLNNVRALAGYWLG--DKPMAVVVIIN 431 >NMB1797 [M] COG2027 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) Nme Neisseria meningitidis MC58 Length = 469 Score = 201 bits (512), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 132/415 (31%), Positives = 210/415 (50%), Gaps = 18/415 (4%) Query: 43 KIPARNVGVFVQAVDATRPMLAFNATAPFNPASVMKLVTTDAALELLGPAFNWKTQAYID 102 +IP + V+VQ +D+ + ++ + P NPAS MKLVT AA + G + W T+ + Sbjct: 26 RIPQNEIAVYVQELDSGKVIIDHRSDVPVNPASTMKLVTAFAAFKTFGSNYRWATEFKSN 85 Query: 103 GVLNDGVLLGDLSIKGSGDPKLVMENFWMFLRQIRAKGIRDIRGNVVLDRSVFEENVYDP 162 G +NDG L G+L GSGDP EN +Q+R +GI +I G+++LD S++ E V P Sbjct: 86 GTVNDGTLDGNLYWAGSGDPVFNQENLLDAQKQLREQGILNITGHLMLDHSLWGE-VGSP 144 Query: 163 AQFDGDPQKPYNVGPDALLLNYKTVAIRFMPDEASGQVSVAMEPPLSGYTVAAPRM---S 219 F+ D P+ P+ +L+ V +R A+G + +PPL + A + + Sbjct: 145 DDFEADSGSPFMTPPNPTMLSAGMVMVR-AERNAAGSTDILTDPPLP-HIFAQNNLKITA 202 Query: 220 KEAVCGDWQGKLQADVGVGAAVFNGAFPAVCGEKVWYIHPYRMSATQYFGAVLRQMWSEL 279 +A C + ++A G P C K + + + + W Sbjct: 203 SQAACPSIKKLMRASFSDNTLKLRGNIPESCLGKPVGVRMFALD--ELIRQSFTNHWLLG 260 Query: 280 GGTISGKVMPGNVAPVARLLAEWQSPAVPEVIRDINKYSNNVMARQLLLTIGAQA----- 334 GG IS + + A+ LA + + E++ D+NK S+N++AR + L +G Sbjct: 261 GGRISDGIGIADTPEGAQTLAVAHAKPMKEILTDMNKRSDNLIARSVFLKLGGDGKLPAV 320 Query: 335 SQSPGSTARGAQAIRGWX-DELVIENGAGLSRNERIAPNTLGQVLVTAFHSPVMPEFIAS 393 S+ S R A+ G +LV+ENG+GLSR ER+ + Q+L TA+ SP +FI + Sbjct: 321 SEQAASAVRRELAVSGIDVADLVLENGSGLSRKERVTARMMAQMLETAYFSPFAQDFIDT 380 Query: 394 MPLVGYDGTMRKRLRGENVAGQAHIKTGSLNDVRSIAGYVQAASGKMYVVVCLIN 448 +P+ G DGT+R R + G +KTG+LN+VR++AGY K VV +IN Sbjct: 381 LPIAGTDGTLRNRFK--QSGGLLRLKTGTLNNVRALAGY--WLGDKPMAVVVIIN 431 >dacB [M] COG2027 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) Eco Escherichia coli K12 Length = 477 Score = 132 bits (331), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 117/417 (28%), Positives = 195/417 (46%), Gaps = 29/417 (6%) Query: 48 NVGVFVQAVDATRPMLAFNATAPFNPASVMKLVTTDAALELLGPAFNWKTQAYIDGVLND 107 N+ + VQ V A+ P + +++ PAS K++T AAL LGP F + T G + + Sbjct: 35 NLALMVQKVGASAPAIDYHSQQMALPASTQKVITALAALIQLGPDFRFTTTLETKGNVEN 94 Query: 108 GVLLGDLSIKGSGDPKLVMENFWMFLRQIRAKGIRDIRGNVVLDRSVFEENVYDPAQFDG 167 GVL GDL + DP L ++ + ++ G+ I GNV++D S+F + P Sbjct: 95 GVLKGDLVARFGADPTLKRQDIRNMVATLKKSGVNQIDGNVLIDTSIFASHDKAPGWPWN 154 Query: 168 DPQKPYNVGPDALLLNYKTVAIRFMPDEASGQ---VSVAMEPPLSGYTV--AAPRMSKEA 222 D + ++ P A +++ ++ G + VA P++ ++ PR S EA Sbjct: 155 DMTQCFSAPPAAAIVDRNCFSVSLYSAPKPGDMAFIRVASYYPVTMFSQVRTLPRGSAEA 214 Query: 223 -VCGDWQGKLQADV---GVGAAVFNGAFPAVCGEKVWYIHPYRMSATQYFGAVLRQMWSE 278 C + DV + G P E + + A+ Y GA+L+ + Sbjct: 215 QYC-------ELDVVPGDLNRFTLTGCLPQRS-EPLPLAFAVQDGAS-YAGAILKDELKQ 265 Query: 279 LGGTISGKVM-PGNVAPVARLLAEWQSPAVPEVIRDINKYSNNVMARQLLLTIGAQASQS 337 G T SG ++ V ++A QS + ++++ + K S+N++A + IG Sbjct: 266 AGITWSGTLLRQTQVNEPGTVVASKQSAPLHDLLKIMLKKSDNMIADTVFRMIGHARFNV 325 Query: 338 PGSTARGAQAIRGWXDE--------LVIENGAGLSRNERIAPNTLGQVLVTAFHSPVMPE 389 PG+ G+ A+R + +I +G+GLSR+ IAP T+ QVL Sbjct: 326 PGTWRAGSDAVRQILRQQAGVDIGNTIIADGSGLSRHNLIAPATMMQVLQYIAQHDNELN 385 Query: 390 FIASMPLVGYDGTMRKR--LRGENVAGQAHIKTGSLNDVRSIAGYVQAASGKMYVVV 444 FI+ +PL GYDG+++ R L V G+ KTGSL V ++AG++ ASG+ V Sbjct: 386 FISMLPLAGYDGSLQYRAGLHQAGVDGKVSAKTGSLQGVYNLAGFITTASGQRMAFV 442