RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15483
(830 letters)
>2a65_A Leutaa, Na(+):neurotransmitter symporter (SNF family); membrane
protein, transport protein; HET: BOG; 1.65A {Aquifex
aeolicus} SCOP: f.54.1.1 PDB: 2q6h_A* 2q72_A* 2qb4_A*
2qei_A* 3f3a_A* 3f3c_A* 3f3d_A* 3f3e_A* 3f48_A* 3f4i_A*
3f4j_A* 3usg_A* 3usi_A 3usj_A 3usk_A 3usl_A* 3usm_A*
3uso_A 3usp_A* 3qs5_A* ...
Length = 519
Score = 131 bits (331), Expect = 2e-32
Identities = 55/273 (20%), Positives = 95/273 (34%), Gaps = 39/273 (14%)
Query: 64 RETWGSNADFLLSIIGFAVDLANVWRFPYLCYKNGGGAFLVPYTLMLVFGAVPLFYMELI 123
RE W + +L++ G AV L N RFP +NGGGAF++PY + + +PL ++E
Sbjct: 5 REHWATRLGLILAMAGNAVGLGNFLRFPVQAAENGGGAFMIPYIIAFLLVGIPLMWIEWA 64
Query: 124 LGQFNRQGPISVWRIC-------PLFKGVGFCAVLVAFYVSFYYNVIIGWALYFLFASTT 176
+G++ K +G + + V+ YY I W L F
Sbjct: 65 MGRYGGAQGHGTTPAIFYLLWRNRFAKILGVFGLWIPLVVAIYYVYIESWTLGFAIKFLV 124
Query: 177 SELPWLNCNNTWNTPLCEDTYNRTNGSSFTFYHYDFSRAVLEMQWSEGLHDMGYPKWSLV 236
P T + F + Y + + +G + P
Sbjct: 125 ---------GLVPEPPPNATDPDSILRPFKEFLYSY------IGVPKGDEPILKPSLFAY 169
Query: 237 LCVFSVYCMLYLSLFKGVKSSGMKFKESSESKVVWATATMP--YVVLTILLIRGLMLP-- 292
+ + L +G+ + +A MP +++ L+IR +L
Sbjct: 170 IVFLITMFINVSILIRGISKGIER----------FAKIAMPTLFILAVFLVIRVFLLETP 219
Query: 293 --GALTGIAYYLQQPAPSSLPGNLVTTAPLRQV 323
A G+ + P L V A + Q+
Sbjct: 220 NGTAADGLNFLW-TPDFEKLKDPGVWIAAVGQI 251
Score = 57.0 bits (138), Expect = 2e-08
Identities = 12/98 (12%), Positives = 30/98 (30%), Gaps = 10/98 (10%)
Query: 527 LQRQDNLSPSS--ITFRDCIITSLVNCFTSFFSGFVIFTYLGYMSFKQKIPISRVATDGP 584
+++ ++ S + ++ S + F ++
Sbjct: 269 VRKDQDIVLSGLTAATLNEKAEVILGGSISIPAAVAFFGVANAVAIA--------KAGAF 320
Query: 585 GLVFQVYPEAVATLPASNVWSMLFFFMLIMLGIDSAVS 622
L F P + L+FF+L G+ S+++
Sbjct: 321 NLGFITLPAIFSQTAGGTFLGFLWFFLLFFAGLTSSIA 358
Score = 38.5 bits (90), Expect = 0.009
Identities = 13/50 (26%), Positives = 24/50 (48%), Gaps = 6/50 (12%)
Query: 338 WATATMP--YVVLTILLIRGLMLP----GALTGIAYYLQPELSRLKETQV 381
+A MP +++ L+IR +L A G+ + P+ +LK+ V
Sbjct: 194 FAKIAMPTLFILAVFLVIRVFLLETPNGTAADGLNFLWTPDFEKLKDPGV 243
Score = 30.4 bits (69), Expect = 2.5
Identities = 9/66 (13%), Positives = 19/66 (28%), Gaps = 6/66 (9%)
Query: 722 GWSLALSSILMIPIVAIFKLITTPGTLKEGGIYMFHLFDTYSAGISLLCSALFESVAVSW 781
S + + IV + D ++ I ++ L E + W
Sbjct: 372 KLSRKHAVLWTAAIVFFSAHLVM------FLNKSLDEMDFWAGTIGVVFFGLTELIIFFW 425
Query: 782 FYGKSR 787
+G +
Sbjct: 426 IFGADK 431
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 57.2 bits (137), Expect = 2e-08
Identities = 78/501 (15%), Positives = 141/501 (28%), Gaps = 145/501 (28%)
Query: 170 FLFASTTSELPWL------NCNN-TWNTPLCEDTYNRTNGSSFTFYHYDFSRA------- 215
F+ +L + T + + +R + F Y+ SR
Sbjct: 82 FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR 141
Query: 216 --VLEMQWSEG--LHDM-GYPKWSLVLCVFSVYCMLYLSLFKGVKSSGMKFKESSESKVV 270
+LE++ ++ + + G K + L V Y K + + K+
Sbjct: 142 QALLELRPAKNVLIDGVLGSGKTWVALDVCLSY----------------KVQCKMDFKIF 185
Query: 271 WATA---TMPYVVLTIL--LIRGLM------------LPGALTGIAYYL-----QQPAPS 308
W P VL +L L+ + + + I L +P +
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN 245
Query: 309 SLPGNLVTTAPLRQV--PTFI-SFDIISGKVVWAT----------ATMPYVVLTILLIRG 355
L LV L V +F++ K++ T A +
Sbjct: 246 CL---LV----LLNVQNAKAWNAFNLSC-KILLTTRFKQVTDFLSAATTTHISLDHHSMT 297
Query: 356 LMLPGALTGIAYYLQPELSRLKETQVKFISLNYLSVQGNTGVERCSRPDFLLCWGRIWCS 415
L + + YL L +V + LS+ + + + D W + C
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPR-EVLTTNPRRLSIIAESIRDGLATWDN---WKHVNCD 353
Query: 416 RFRVHLADHCTTEELSL-SLTP-----LCWCLVLFP----------CFTWNSFSDSSTDK 459
+ T E SL L P + L +FP W D
Sbjct: 354 KLT-------TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWF---DVIKSD 403
Query: 460 GPSVFGEFVLYSKMGGLECVITGLMDEFRVYFKGYPHAREIFTCCAIAVSFSVAMINVTP 519
V + YS L+++ +I + V + N
Sbjct: 404 VMVVVNKLHKYS-----------LVEKQPKESTISIP--------SIYLELKVKLENEYA 444
Query: 520 VHEHLTELQRQDNLSPSSITFRDCIITSLVNCFTSFFS----------GFVIFTYLGYMS 569
+H + + N+ P + D I L F S +F + ++
Sbjct: 445 LHRSIVD---HYNI-PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV-FLD 499
Query: 570 F---KQKIPISRVATDGPGLV 587
F +QKI A + G +
Sbjct: 500 FRFLEQKIRHDSTAWNASGSI 520
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 45.8 bits (108), Expect = 6e-05
Identities = 99/614 (16%), Positives = 174/614 (28%), Gaps = 228/614 (37%)
Query: 3 VTNIVPQ---FEVRSLK-KFGRHLSSFPEEVEVRLESGTEDKYEL------YVLNVDSKK 52
+VP F L+ +F + L E E EL YV ++
Sbjct: 18 HVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDE--PTTPAELVGKFLGYVSSLVEPS 75
Query: 53 SSKQ----------EFEHPDGRETWGSNADFLLS--IIGFAVDLANVWRFPYL------- 93
Q EFE+ +L I A L +
Sbjct: 76 KVGQFDQVLNLCLTEFEN-----------CYLEGNDIHALAAKLLQENDTTLVKTKELIK 124
Query: 94 CYKNGGGAFLVPYT-----------------LMLVFGAVPLFYMELILGQFNRQGPISVW 136
Y P+ L+ +FG GQ G +
Sbjct: 125 NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG-----------GQ----GNTDDY 169
Query: 137 RICPLFKGVGFCAVLVAFYVSFYYNVIIGWALYFLFASTTSELPWLNCNNTWNTPLCEDT 196
F+ L Y + Y+V++G L + L + L T
Sbjct: 170 -----FEE------LRDLYQT--YHVLVG----DLIKFSAETL----------SELIRTT 202
Query: 197 YNRTNGSSFTFYH-YDFSRAVLEMQW---SEGLHDMGY--------PKWSLV-LCVFSVY 243
+ + F + ++W D Y P ++ L + V
Sbjct: 203 LD----AEKVFTQGLNI------LEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVT 252
Query: 244 CMLY-------LSLFKGV--KSSGM---KFKESSESKVVWATATMPYV-VLTILLIRGL- 289
L S KG S G+ ++S W + + +T+L G+
Sbjct: 253 AKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDS---WESFFVSVRKAITVLFFIGVR 309
Query: 290 --------MLPGALTGIAYYLQQPAPSSLPGNL-VTTAPLRQVPTFI---------SFDI 331
LP ++ + + PS + L ++ QV ++ +
Sbjct: 310 CYEAYPNTSLPPSILEDSLENNEGVPSPM---LSISNLTQEQVQDYVNKTNSHLPAGKQV 366
Query: 332 -ISGKVVWATATMPYVVLTILLIRGLMLPGALTGIAYYLQPELSRLK------ETQVKF- 383
IS + A +V++ G P +L G L L + K ++++ F
Sbjct: 367 EIS---LVNGAKN--LVVS-----G--PPQSLYG----LNLTLRKAKAPSGLDQSRIPFS 410
Query: 384 -----ISLNYLSVQGNTGVERCSRP---DFL-----LCWGRIWCSRFRVHLAD-----HC 425
S +L V + P L L + + + D +
Sbjct: 411 ERKLKFSNRFLPV---------ASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYD 461
Query: 426 TTE-----ELSLSLTP-LCWCLVLFPCFTWNSFSDSST----DKGP---SVFGEFVLYSK 472
T + LS S++ + C++ P W + + D GP S G +K
Sbjct: 462 TFDGSDLRVLSGSISERIVDCIIRLPVK-WETTTQFKATHILDFGPGGASGLGVLTHRNK 520
Query: 473 MG-GLECVITGLMD 485
G G+ ++ G +D
Sbjct: 521 DGTGVRVIVAGTLD 534
Score = 39.6 bits (92), Expect = 0.004
Identities = 53/323 (16%), Positives = 89/323 (27%), Gaps = 88/323 (27%)
Query: 505 AIAVSFSVAMINVTPVHEHLTELQRQ--DNLSPSSITF-RDCIITSLVNCFTSFFSGFVI 561
++ V T ++LQ Q L + F D T+ F
Sbjct: 15 SLEHVLLVP----TASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKF------ 64
Query: 562 FTYLGYMSFKQKIPISRVATDGPGLVFQVYPEAVATLPASNVWSMLFFFMLIMLGID--S 619
LGY+S S V G + + + + F + G D +
Sbjct: 65 ---LGYVS-------SLVEPSKVGQ----FDQVLNLC-------LTEFENCYLEGNDIHA 103
Query: 620 AVSRKPVVSGTLKSRVINW--------KTLGRKEPGSSSYGCFFSAWLRLL-----TLSG 666
++ + T + R S+ SA R + L
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSN-----SALFRAVGEGNAQLVA 158
Query: 667 VLGSNHGRG-GNLLTCL---------GGVIVSGTVKSRGVVLFSIIFHEPLQYNDYSYPG 716
+ G G GN V+V +K L +I + +
Sbjct: 159 IFG-----GQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTL--DAEKVFTQ 211
Query: 717 WAEWIGW---------SLALSSILM-IPIVAIFKLITTPGTLKEGGIYMFHLFDTYSAGI 766
+ W L SI + P++ + +L T K G L Y G
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRS-YLKGA 270
Query: 767 SL----LCSALFESVAVSW--FY 783
+ L +A+ + SW F+
Sbjct: 271 TGHSQGLVTAVAIAETDSWESFF 293
Score = 36.6 bits (84), Expect = 0.049
Identities = 74/404 (18%), Positives = 117/404 (28%), Gaps = 141/404 (34%)
Query: 300 YYLQQPAPSSLPGN--------LVTTAPLRQVP----------TFISFDIISGKVV---- 337
YL P S P +VT L P T S +++ +
Sbjct: 229 DYLLS-IPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETD 287
Query: 338 -WATATMPYVVLTILLIRGLMLPGALTGIAYYLQPELSRLKETQVKFISLNYLSVQGNTG 396
W + + V I L G AY P S L + ++ S++ N G
Sbjct: 288 SWES----FFVSVRKAITVLFFIGVRCYEAY---PNTS-LPPSILE------DSLENNEG 333
Query: 397 -------VERCSRPDFLLCWGRIWCSRFRVHLADHCTTEELSLSLTPLCWCLVLFPCFTW 449
+ ++ + + + ++ HL +++ +SL
Sbjct: 334 VPSPMLSISNLTQ-EQVQD----YVNKTNSHLPAG---KQVEISLV-------------- 371
Query: 450 NSFSDSSTDKGPSVFGEFV-------LYSKMGGLE--CVITGLMDEFRVYFKGYPHAREI 500
N G V LY L +GL D+ R+ P +
Sbjct: 372 N---------GAK---NLVVSGPPQSLYGLNLTLRKAKAPSGL-DQSRI-----PFSER- 412
Query: 501 FTCCAIAVSFSVAMINVT-PVHEHL----TELQRQDNLSPSSITFR--DCIITSLVNCFT 553
+ FS + V P H HL ++L +D L ++++F D I
Sbjct: 413 ------KLKFSNRFLPVASPFHSHLLVPASDLINKD-LVKNNVSFNAKDIQIP------- 458
Query: 554 SFFSGFVIFTYLGY--MSFKQKIP--ISRVATDGPGLVFQVYPEAVATLPASNVWSMLFF 609
V T+ G I I P V E A+++ L F
Sbjct: 459 ------VYDTFDGSDLRVLSGSISERIVDCIIRLP-----VKWETTTQFKATHI---LDF 504
Query: 610 FMLIMLGIDSAVSRKPVVSGTLKSRVINWKTLGRKEPGSSS-YG 652
G+ R GT RVI TL + YG
Sbjct: 505 GPGGASGLGVLTHR--NKDGT-GVRVIVAGTL---DINPDDDYG 542
Score = 34.6 bits (79), Expect = 0.15
Identities = 49/303 (16%), Positives = 87/303 (28%), Gaps = 110/303 (36%)
Query: 448 TWNSFSDSSTDKGPSVFGEFVLYSKMGGLECVITGLMDEFRVYFKGYPHAREIFTCCAIA 507
+W SF S + + G+ C YP+ +
Sbjct: 288 SWESFFVSVRK-----AITVLFFI---GVRCYEA------------YPNT----SLPPSI 323
Query: 508 VSFSVA--------MINVTPV-HEHLTELQRQDNLS-PSSITFRDCIITSLVNCFTSF-F 556
+ S+ M++++ + E + + + N P+ + SLVN +
Sbjct: 324 LEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAG----KQVEISLVNGAKNLVV 379
Query: 557 SGFVIFTYLGYMSF-KQKIPI----SRVATDGPGLVFQV------------YPEAVATLP 599
SG Y ++ K K P SR+ L F + L
Sbjct: 380 SGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLI 439
Query: 600 ASNVWSMLFFFMLIMLGIDSAVSRKPV-----------VSGTLKSRV--------INWKT 640
++ F + I PV +SG++ R+ + W+T
Sbjct: 440 NKDLVKNNVSFNAKDIQI-------PVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWET 492
Query: 641 LGRKE--------PGSSSYGCFFSAWLRLLTLSGVLGSN-HGRGGNLLTCLGGVIVSGTV 691
+ + PG +S L + N G G VIV+GT+
Sbjct: 493 TTQFKATHILDFGPGGAS------------GLGVLTHRNKDGTG-------VRVIVAGTL 533
Query: 692 KSR 694
Sbjct: 534 DIN 536
Score = 34.6 bits (79), Expect = 0.18
Identities = 51/367 (13%), Positives = 97/367 (26%), Gaps = 138/367 (37%)
Query: 42 ELYVLNVDSKKSSKQEFEHPDGRETWGSNAD-FLLSIIGFAVDLANVWRFPYLCYKNGGG 100
+LY K+S ++ W + AD GF+ + ++ N
Sbjct: 1634 DLY-------KTS------KAAQDVW-NRADNHFKDTYGFS--ILDIVI------NN--- 1668
Query: 101 AFLVPYTLMLVFGAVPLFYMELILGQFNRQGPISVWRICPLFKGVGFCAVLVAFYVSFYY 160
P L + FG G+ R+ Y + +
Sbjct: 1669 ----PVNLTIHFGGEK--------GKRIREN-----------------------YSAMIF 1693
Query: 161 NVIIGWALYF--LFASTTSELPWLNCNNTWNTPLCEDTYNRTNGSSFT----FYHYDFSR 214
I+ L +F T+ + + + T FT +
Sbjct: 1694 ETIVDGKLKTEKIFKEINEHSTSY----TFRSE--KGLLSAT---QFTQPALTLM---EK 1741
Query: 215 AVLEMQWSEGLHDMGYPKWSLVLCVF---SV--YCMLYLSLFKGVKSSG-MKFKESSESK 268
A E S+GL F S+ Y L + M +
Sbjct: 1742 AAFEDLKSKGLIPAD--------ATFAGHSLGEYAAL-------ASLADVMSIES----- 1781
Query: 269 VVWATATMPYVVLTILLIRGLMLPGALTGIAYYLQQPAPSSL-PGNLVTT---APLRQVP 324
++ ++ RG+ + A+ ++ PG + + L+ V
Sbjct: 1782 -----------LVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVV 1830
Query: 325 TFISFDIISGKVVWA----TATMPYVVLTILLIRGLMLPGALTGIAYYLQPELSRLKETQ 380
+ +G +V YV G L + + L+ +K +
Sbjct: 1831 ERVGKR--TGWLVEIVNYNVENQQYVA-----------AGDLRALDT-VTNVLNFIKLQK 1876
Query: 381 VKFISLN 387
+ I L
Sbjct: 1877 IDIIELQ 1883
Score = 31.9 bits (72), Expect = 1.0
Identities = 38/244 (15%), Positives = 67/244 (27%), Gaps = 105/244 (43%)
Query: 473 MGGLECVITGLMDEFRVYFKGYPHAREIF----TCCAIAVSFSVAMINVTPVHEHLTELQ 528
MG MD ++ A++++ FS+ I V
Sbjct: 1631 MG---------MDLYKTS----KAAQDVWNRADNHFKDTYGFSILDI----V-------- 1665
Query: 529 RQDNLSPSSITF-----RDCIITSLVN--CFTSFFSGFVIFTYLGYMSFKQKIPISRVAT 581
+N P ++T + I + F + G + + FK+ I+ +T
Sbjct: 1666 -INN--PVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKI----FKE---INEHST 1715
Query: 582 DGPGLVFQVYPEAVATL-----PASNVWSMLFFFMLIMLGIDSAVSRKPVVSGTLKSRVI 636
F+ + + + PA + F L G+ + +G S
Sbjct: 1716 S---YTFR-SEKGLLSATQFTQPALTLMEKAAFEDLKSKGL---IPADATFAG--HS--- 1763
Query: 637 NWKTLGRKEPGSSSYGCFFSAWLRLLTLSGVLGSNHGRGGNLLTCLGGVI-----VSGTV 691
LG E ++A L L V+ V V
Sbjct: 1764 ----LG--E---------YAA---------------------LASLADVMSIESLVE-VV 1786
Query: 692 KSRG 695
RG
Sbjct: 1787 FYRG 1790
>1u1z_A (3R)-hydroxymyristoyl-[acyl carrier protein] dehydratase; fatty
acid biosynthesis, hot DOG fold, lyase; 2.50A
{Pseudomonas aeruginosa} SCOP: d.38.1.6
Length = 168
Score = 30.7 bits (70), Expect = 1.0
Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 19/68 (27%)
Query: 584 PGLVFQVYPEAVA---------TLPASNVWSMLFFFMLIMLGIDSAVSRKPVVSG---TL 631
PG V + EA+A L L++F+ G D R+PV+ G L
Sbjct: 77 PG-VLII--EAMAQAAGILGFKMLDVKPADGTLYYFV----GSDKLRFRQPVLPGDQLQL 129
Query: 632 KSRVINWK 639
++ I+ K
Sbjct: 130 HAKFISVK 137
>3kw3_A Alanine racemase; niaid, ssgcid, seattle structural genomics center
for infect disease, iodide SOAK, LLP, CAT-scratch DI
isomerase; HET: LLP; 2.04A {Bartonella henselae}
Length = 376
Score = 30.2 bits (69), Expect = 2.7
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 11/51 (21%)
Query: 613 IML-GI----DSAVSRKPVVSGTLKSRVINWKTLGRKEPGSS-SYGCFFSA 657
I L G+ K VV ++++V+ + + + G Y F
Sbjct: 233 IALYGVDPHGKHPTPLKAVV--KVEAQVLQSRFI---DAGIPVGYRESFMT 278
>3co8_A Alanine racemase; protein structure initiative II, PSI-II, PLP, TIM
barrel, structural genomics, NEW YORK SGX center for
structural genomics; HET: PLP; 1.70A {Oenococcus oeni}
Length = 380
Score = 29.0 bits (66), Expect = 7.2
Identities = 12/35 (34%), Positives = 14/35 (40%), Gaps = 6/35 (17%)
Query: 624 KPVVSGTLKSRVINWKTLGRKEPGSS-SYGCFFSA 657
KPV LKS + K + G SYG F
Sbjct: 244 KPVF--ELKSALTFVKKI---PAGEGISYGSKFVT 273
>3hur_A Alanine racemase; structural genomics, isomerase, pyridoxal
phosphate, PSI-2, protein structure initiative; 2.50A
{Oenococcus oeni psu-1}
Length = 395
Score = 28.6 bits (65), Expect = 8.8
Identities = 5/35 (14%), Positives = 14/35 (40%), Gaps = 6/35 (17%)
Query: 624 KPVVSGTLKSRVINWKTLGRKEPGSS-SYGCFFSA 657
+ + ++ S + + + + + S SYG
Sbjct: 248 ERIF--SVCSEIADVRFV---KKDQSLSYGASERM 277
>2rjg_A Alanine racemase; alpha/beta barrel, cell shape, cell WALL
biogenesis/degradat isomerase, peptidoglycan synthesis,
pyridoxal phosphate; HET: KCX PLP; 2.40A {Escherichia
coli} PDB: 2rjh_A* 3b8v_A* 3b8u_A* 3b8t_A* 3b8w_A*
Length = 379
Score = 28.6 bits (65), Expect = 9.8
Identities = 8/35 (22%), Positives = 16/35 (45%), Gaps = 6/35 (17%)
Query: 624 KPVVSGTLKSRVINWKTLGRKEPGSS-SYGCFFSA 657
+PV+ +L S +I + + G YG + +
Sbjct: 252 QPVM--SLTSSLIAVREH---KAGEPVGYGGTWVS 281
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.325 0.140 0.445
Gapped
Lambda K H
0.267 0.0587 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 12,745,244
Number of extensions: 759781
Number of successful extensions: 1551
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1540
Number of HSP's successfully gapped: 28
Length of query: 830
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 728
Effective length of database: 3,853,851
Effective search space: 2805603528
Effective search space used: 2805603528
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 61 (27.6 bits)