RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 007749
(591 letters)
>3ilv_A Glutamine-dependent NAD(+) synthetase; protein structure initiative
II(PSI II), NYSGXRC, structural genomics; 1.79A
{Cytophaga hutchinsonii atcc 33406}
Length = 634
Score = 576 bits (1486), Expect = 0.0
Identities = 151/580 (26%), Positives = 240/580 (41%), Gaps = 64/580 (11%)
Query: 1 MRLLKVATCNLNNWALDFDCNLKNIKESIGRAKEAGAVIRLGPELEITGYGCEDHFLELD 60
+ +++ +N +D++ N+KNI ++I AK A I PEL ITGYGCED FL
Sbjct: 3 LSTIRIGGAAVNQTPIDWENNVKNILDAIEEAKNANVEILCLPELCITGYGCEDLFLTDW 62
Query: 61 TVTHAWECLKDLLLGDWTDGILCSFGMPVIKGSERYNCQVLCLNRKIIMIRPKLWLANDG 120
A E ++ I S G+P+ YNC L N + K +LAN+G
Sbjct: 63 VAETAIEYCFEIA--ASCTDITVSLGLPMRIAGITYNCVCLVENGIVKGFSAKQFLANEG 120
Query: 121 NYRELRWFTAWKQKDQLEDFQLPNEISVALKQKSVPFGYGFIQFLDTAVAAEICEELFTP 180
+ E RWFTAW + + + PFG D + EICE+ +
Sbjct: 121 VHYETRWFTAWPR---------NHTTTFLYNDVKYPFGDVLYNVKDARIGFEICEDAWRT 171
Query: 181 IPPHADLALNGVEVFMNASGSHHQLRKLDYRIRAFISATHSRGGVYMYSNHQGCDGGRLY 240
G + +N S SH K R I + Y+Y+N G + GR+
Sbjct: 172 DRVGIRHYEKGATLVLNPSASHFAFGKSAIRYDLVIGGSERFDCTYVYANLLGNEAGRMI 231
Query: 241 FDGCSCVVVNGDMIAQGSQFSLKDVEIVVAQVDLDAVAGFRGSISSFQEQASCKTKIPSV 300
+DG + G +I + + S K+V ++ A + D+ ++
Sbjct: 232 YDGEVLIAHKGKLIQRNDRLSFKNVNLIYADIATDSAETPETVLTQD------------- 278
Query: 301 AVPYNLCQPFNLKMSLSSPLKINYHSPEEEIAFGPGCWLWDYLRRSGASGFLLPLSGGAD 360
E E L+DY+R+S + GF+L LSGGAD
Sbjct: 279 -----------------------DLEKEFEFWEATSLGLFDYMRKSRSKGFVLSLSGGAD 315
Query: 361 SSSVAAIVGCMCQLVVKEISNGDEQVKADAIRIGH---YANGEFPTDSREFAKRIFYTVF 417
SS+ A +V M + +KE+ K++ + + F +++ T +
Sbjct: 316 SSACAIMVAEMIRKGLKELGLTAFLQKSNMETLFDLPALQHLPFEEQAKKITAVFLTTAY 375
Query: 418 MGSENSSQETRMLAKKLADEIGSWHLDVSIDTVVSAFLSLFQTLTGKRPCYKVDGGSNVE 477
+ NS ET AK LA+ IG+ + S+D + + + + + + +
Sbjct: 376 QSTRNSGDETYTSAKTLAESIGATFYNWSVDEEIEQYKATIENVIERPL------TWEKD 429
Query: 478 NLGLQNIQARIRMVLAFMLASLLPWVHNKPGFYLVLGSSNVDEGLRGYLTKYDCSSADIN 537
++ LQNIQAR R + +ML N L++ +SN EG GY T ++ I
Sbjct: 430 DITLQNIQARGRAPIIWMLT-------NVKQ-ALLITTSNRSEGDVGYATMDGDTAGGIA 481
Query: 538 PIGSISKQDLRTFLRWAATHLGYSSLAEIEAAPPTAELEP 577
PI + K +R++LRWA + L + PTAEL P
Sbjct: 482 PIAGVDKDFIRSWLRWAEKNRNQHGLHIVNKLAPTAELRP 521
>3sdb_A Glutamine-dependent NAD(+) synthetase; glutamine-amidotransferase,
glutaminase, glutamine-dependent synthetase, ligase;
2.00A {Mycobacterium tuberculosis} PDB: 3seq_A* 3sez_A*
3szg_A* 3dla_A* 3syt_A*
Length = 680
Score = 521 bits (1343), Expect = e-179
Identities = 116/605 (19%), Positives = 205/605 (33%), Gaps = 81/605 (13%)
Query: 3 LLKVATCNLNNWALDFDCNLKNIKESIGRAKEAGAVIRLGPELEITGYGCEDHFLELDTV 62
++VA C + D N ++ + + GA + + PEL ++GY ED L+ +
Sbjct: 12 FVRVAACTHHTTIGDPAANAASVLDMARACHDDGAALAVFPELTLSGYSIEDVLLQDSLL 71
Query: 63 THAWECLKDLLLGDWTDGILCSFGMPVIKGSERYNCQVLCLNRKIIMIRPKLWLANDGNY 122
+ L DL+ + G P+ YN V+ ++ + PK +L +
Sbjct: 72 DAVEDALLDLVTESADLLPVLVVGAPLRHRHRIYNTAVVIHRGAVLGVVPKSYLPTYREF 131
Query: 123 RELRWFTAWKQKDQLEDFQLPNEISVALKQKSVPFGYGFI----QFLDTAVAAEICEELF 178
E R + V FG + + EI E++F
Sbjct: 132 YERRQMAPGDGERGTIRI----------GGADVAFGTDLLFAASDLPGFVLHVEIAEDMF 181
Query: 179 TPIPPHADLALNGVEVFMNASGSHHQLRKLDYRIRAFISATHSRGGVYMYSNH-QGCDGG 237
P+PP A+ AL G V N SGS + + + R SA+ Y+Y+ +G
Sbjct: 182 VPMPPSAEAALAGATVLANLSGSPITIGRAEDRRLLARSASARCLAAYVYAAAGEGESTT 241
Query: 238 RLYFDGCSCVVVNGDMIAQGSQFSLKDVEIVVAQVDLDAVAGFRGSISSFQEQASCKTKI 297
L +DG + + NG ++A+ +F K V VA VD + + R + +F + ++
Sbjct: 242 DLAWDGQTMIWENGALLAESERFP-KGVRRSVADVDTELLRSERLRMGTFDDNRRHHREL 300
Query: 298 PSVAVPYNL-CQPFNLKMSLSSPLKINYHSP---------EEEIAFGPGCWLWDYLRRSG 347
+ P + L ++ P E L LR
Sbjct: 301 TESFRRIDFALDPPAGDIGLLREVERFPFVPADPQRLQQDCYEAYNIQVSGLEQRLRALD 360
Query: 348 ASGFLLPLSGGADSSSVAAIVGCMCQLVVKEISNGDEQVKADAIRIGHYANGEFPTDSRE 407
++ +SGG DS+ + D
Sbjct: 361 YPKVVIGVSGGLDSTHALIVATHAM-------------------------------DREG 389
Query: 408 FAKRIFYTVFMGSENSSQETRMLAKKLADEIGSWHLDVSIDTVVSAFLSLFQTLTGKRPC 467
+ + + + T+ A KLA +G ++ I L
Sbjct: 390 RPRSDILAFALPGFATGEHTKNNAIKLARALGVTFSEIDIGDTARLMLHTIG-------- 441
Query: 468 YKVDGGSNVENLGLQNIQARIRMVLAFMLASLLPWVHNKPGFYLVLGSSNVDEGLRGYLT 527
+ G V ++ +N+QA +R F +A N+ G +VLG+ ++ E G+ T
Sbjct: 442 HPYSVGEKVYDVTFENVQAGLRTDYLFRIA-------NQRGG-IVLGTGDLSELALGWST 493
Query: 528 KYDCSS--ADINPIGSISKQDLRTFLRWAATHLGYSS-----LAEIEAAPPTAELEPIRS 580
Y + N + K ++ +RW + + L + T EL P
Sbjct: 494 -YGVGDQMSHYNVNAGVPKTLIQHLIRWVISAGEFGEKVGEVLQSVLDTEITPELIPTGE 552
Query: 581 NYSQV 585
Q
Sbjct: 553 EELQS 557
>3n05_A NH(3)-dependent NAD(+) synthetase; ligase, structural genomics,
protein structure initiative, P nysgrc; 2.35A
{Streptomyces avermitilis}
Length = 590
Score = 203 bits (519), Expect = 4e-58
Identities = 119/595 (20%), Positives = 196/595 (32%), Gaps = 120/595 (20%)
Query: 4 LKVATCNLNNWALDFDCNLKNIKESIGRAKEAGAVIRLGPELEITGYGCEDHFLE---LD 60
L++A +++ D N + I + E GA + PE+ +TGY ED L ++
Sbjct: 5 LRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSSFVE 64
Query: 61 TVTHAWECLKDLLLGDWTDGILCSFGMPV----------IKGSERYNCQVLCLNRKIIMI 110
A L L + + G N + ++ +
Sbjct: 65 ASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRVALT 124
Query: 111 RPKLWLANDGNYRELRWFTAWKQKDQLEDFQLPNEISVALKQKSVPFGYGFIQFLDTAVA 170
K L N G + E R+F ++ +A
Sbjct: 125 FAKHHLPNYGVFDEFRYFVPGDT-------------------------MPIVRLHGVDIA 159
Query: 171 AEICEELFTPIPPHADLALNGVEVFMNASGSHHQLRKLDYRIRAFISATHSRGGVYMYSN 230
ICE+L+ G + ++ + S ++ K D R+ G Y
Sbjct: 160 LAICEDLWQDGGRVPAARSAGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLA 219
Query: 231 HQGCDGGR--LYFDGCSCVV-VNGDMIAQGSQFSLKDVEIVVAQVDLDAVAGFRGSISSF 287
GG+ L FDG S VV +G+++A+ QF VV +DL A +
Sbjct: 220 -MI--GGQDELVFDGDSIVVDRDGEVVARAPQF---SEGCVVLDLDLPAAEAEPPTGVVD 273
Query: 288 QEQASCKTKIPSVAVPYNLCQPFNLKMSLSSPLKINYHSPEEEIAFGPGCWLWDYLRRSG 347
+ I +P + + + +EE+ L Y+ ++G
Sbjct: 274 DGLRIDRLVISEEPLPAYEAEL--------AGGYADRLDADEEVYSALVVGLRAYVAKNG 325
Query: 348 ASGFLLPLSGGADSSSVAAIVGCMCQLVVKEISNGDEQVKADAIRIGHYANGEFPTDSRE 407
L+ LSGG DS+ VAAI DA+
Sbjct: 326 FRSVLIGLSGGIDSALVAAIA-------------------CDALG--------------- 351
Query: 408 FAKRIFYTVFMGSENSSQETRMLAKKLADEIGSWHLDVSIDTVVSAFLSLFQTLTGKRPC 467
A+ + Y V M S+ SS ++ A +LA G VSI+ + A+++
Sbjct: 352 -AQNV-YGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASL--------- 400
Query: 468 YKVDGGSNVENLGLQNIQARIRMVLAFMLASLLPWVHNKPGFYLVLGSSNVDEGLRGYLT 527
+ L +N+Q+R+R ++ N+ G ++VL N E GY T
Sbjct: 401 -------GLTGLAEENLQSRLRGTTLMAIS-------NQEG-HIVLAPGNKSELAVGYST 445
Query: 528 KYDCSSADINPIGSISKQDLRTFLRWAATHLGYSSLAE-----IEAAPPTAELEP 577
Y S PI + K + W PP+AEL P
Sbjct: 446 LYGDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPPSAELRP 500
>4f4h_A Glutamine dependent NAD+ synthetase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, ligase; 1.75A {Burkholderia thailandensis}
Length = 565
Score = 161 bits (408), Expect = 7e-43
Identities = 118/599 (19%), Positives = 191/599 (31%), Gaps = 145/599 (24%)
Query: 1 MRLLKVATCNLNNWALDFDCNLKNIKESIGRAKEAGAVIRLGPELEITGYGCEDHFLELD 60
++A LN DF N+ I + A +AGA + PEL ++GY ED L
Sbjct: 4 SMKTRIALAQLNVTVGDFAGNVAKIVAAAQAAHDAGAHFLIAPELALSGYPPEDLLLRPA 63
Query: 61 TVTHAWECLKDL------------LLG-----DWTDGILCSFGMPVIKGSERYNCQVLCL 103
+ L +L L+G DG + + YN L +
Sbjct: 64 FYAASDAALAELAAQLKPFAGLAVLVGHPLRAPSADGNANRAIERGVPPVDTYNAASLIV 123
Query: 104 NRKIIMIRPKLWLANDGNYRELRWFTAWKQKDQLEDFQLPNEISVALKQKSVPFGYGFIQ 163
++ K L N + E R+F F
Sbjct: 124 GGEVAGTYRKQDLPNTEVFDEKRYFAT--------------------DAAPYVFELN--- 160
Query: 164 FLDTAVAAEICEELFTPIPPHADLALNGVEVFMNASGSHHQLRKLDYRIRAFISATHSRG 223
ICE+++ G +V + +GS + + K RI + G
Sbjct: 161 --GVKFGVVICEDVWHASAA-QLAKAAGAQVLIVPNGSPYHMNKDAVRIDILRARIRETG 217
Query: 224 GVYMYSNHQGCDGGRLYFDGCSCVV-VNGDMIAQGSQFSLKDVEIVVAQVDLDAVAGFRG 282
+Y N G + FDG S V+ G+++A+ Q
Sbjct: 218 LPMVYVNLVGGQDELV-FDGGSFVLDGAGELVAKMPQ----------------------- 253
Query: 283 SISSFQEQASCKTKIPSVAVPYNLCQPFNLKMSLSSPLKINYHSPEEEIAFGPGCWLWDY 342
F+E + + A+P + S E ++ + DY
Sbjct: 254 ----FEEGNAIVEFDGARALPAAIAPAL---------------SVEAQVYRALVLGVRDY 294
Query: 343 LRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEISNGDEQVKADAIRIGHYANGEFP 402
+ ++G G ++ LSGG DS+ V A+ G E+V+A
Sbjct: 295 IGKNGFPGAIIGLSGGVDSALVLAVAVDAL---------GAERVRA-------------- 331
Query: 403 TDSREFAKRIFYTVFMGSENSSQETRMLAKKLADEIGSWHLDVSIDTVVSAFLSLFQTLT 462
V M S ++ + A +A +G + +++I + AF +
Sbjct: 332 -------------VMMPSRYTAGISTTDAADMARRVGVRYDEIAIAPMFDAFRASLAAEF 378
Query: 463 GKRPCYKVDGGSNVENLGLQNIQARIRMVLAFMLASLLPWVHNKPGFYLVLGSSNVDEGL 522
E+ +NIQARIR L L+ NK G +VL + N E
Sbjct: 379 AGLA----------EDATEENIQARIRGTLLMALS-------NKFG-SIVLTTGNKSEMA 420
Query: 523 RGYLTKYDCSSADINPIGSISKQDLRTFLRWAATHLGYSSLAEIEAA----PPTAELEP 577
GY T Y + I I+K + R+ Y + P+AEL
Sbjct: 421 VGYCTLYGDMAGGFAVIKDIAKTLVYRLCRYRNAAAEYGQPDIVPERILTRAPSAELRE 479
>3fiu_A NH(3)-dependent NAD(+) synthetase; rossman fold, adenine nucleotide
alpha hydrolase-like, ATP- binding, ligase,
nucleotide-binding; HET: AMP; 1.85A {Francisella
tularensis subsp}
Length = 249
Score = 111 bits (281), Expect = 5e-28
Identities = 53/241 (21%), Positives = 87/241 (36%), Gaps = 62/241 (25%)
Query: 338 WLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEISNGDEQVKADAIRIGHYA 397
WL D A GF++ LSGG DS A+ +
Sbjct: 19 WLSDSCMNYPAEGFVIGLSGGIDS----AVAASLAVK----------------------- 51
Query: 398 NGEFPTDSREFAKRIFYTVFMGSENSSQETRMLAKKLADEIGSWHLDVSIDTVVSAFLSL 457
+ + S+N+ + A +L + + H +SI AFL+
Sbjct: 52 -----------TGLPTTALILPSDNNQHQDMQDALELIEMLNIEHYTISIQPAYEAFLAS 100
Query: 458 FQTLTGKRPCYKVDGGSNVENLGLQNIQARIRMVLAFMLASLLPWVHNKPGFYLVLGSSN 517
Q+ T + N + + N QAR+RM+ + A +N +V+G+ N
Sbjct: 101 TQSFTNLQN--------NRQLVIKGNAQARLRMMYLYAYAQQ----YN----RIVIGTDN 144
Query: 518 VDEGLRGYLTKY-DCSSADINPIGSISKQDLRTFLRWAATHLGYSSLAEIEAAPPTAELE 576
E GY TK+ D +ADI P+ ++ K + + +L I P+A L
Sbjct: 145 ACEWYMGYFTKFGD-GAADILPLVNLKKSQVFELGK----YLD--VPKNILDKAPSAGLW 197
Query: 577 P 577
Sbjct: 198 Q 198
>3p52_A NH(3)-dependent NAD(+) synthetase; structural genomics, center for
structural genomics of infec diseases, NADE, CSGI; 2.74A
{Campylobacter jejuni}
Length = 249
Score = 108 bits (271), Expect = 1e-26
Identities = 49/241 (20%), Positives = 89/241 (36%), Gaps = 66/241 (27%)
Query: 337 CWLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEISNGDEQVKADAIRIGHY 396
++ + ++ S + G +L LSGG DS+ VA + A+
Sbjct: 15 DFIQEKVKNSQSQGVVLGLSGGIDSALVATLC-------------------KRAL----- 50
Query: 397 ANGEFPTDSREFAKRIFYTVFMGSENSSQETRMLAKKLADEIGSWHLDVSIDTVVSAFLS 456
E + + + M ++ S++ A +L ++ + + I +++ AF+
Sbjct: 51 --KE----------NV-FALLMPTQISNKANLEDALRLCADLNLEYKIIEIQSILDAFIK 97
Query: 457 LFQTLTGKRPCYKVDGGSNVENLGLQNIQARIRMVLAFMLASLLPWVHNKPGFYLVLGSS 516
+ + L N ARIRM L + + LV+G+S
Sbjct: 98 QSENT---------------TLVSLGNFAARIRMSLLYDYS-------ALKN-SLVIGTS 134
Query: 517 NVDEGLRGYLTKYDCSSADINPIGSISKQDLRTFLRWAATHLGYSSLAEIEAAPPTAELE 576
N E L GY T Y + NPIGS+ K ++ ++ L P+A+L
Sbjct: 135 NKSELLLGYGTIYGDLACAFNPIGSLYKSEIYALAKY----LNLHE--NFIKKAPSADLW 188
Query: 577 P 577
Sbjct: 189 E 189
>1kqp_A NAD+ synthase, NH(3)-dependent NAD(+) synthetase, SPOR; ligase,
amidotransferase, ATP pyrophosphatase, NAD-adenylate;
HET: ADJ; 1.03A {Bacillus subtilis} SCOP: c.26.2.1 PDB:
1fyd_A* 1ifx_A* 1ee1_A* 1ih8_A* 1nsy_A* 2nsy_A* 2pzb_A
2pza_A* 2pz8_A
Length = 271
Score = 107 bits (269), Expect = 4e-26
Identities = 60/242 (24%), Positives = 95/242 (39%), Gaps = 60/242 (24%)
Query: 338 WLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEI--SNGDEQVKADAIRIGH 395
+L Y++++GA GF+L +SGG DS + G + QL V+ I GD Q A
Sbjct: 28 FLKQYVKKTGAKGFVLGISGGQDS----TLAGRLAQLAVESIREEGGDAQFIA------- 76
Query: 396 YANGEFPTDSREFAKRIFYTVFMGSENSSQETRMLAKKLADEIG-SWHLDVSIDTVVSAF 454
V + E A+ I I + VSAF
Sbjct: 77 --------------------VRLPHGTQQDEDD--AQLALKFIKPDKSWKFDIKSTVSAF 114
Query: 455 LSLFQTLTGKRPCYKVDGGSNVENLGLQNIQARIRMVLAFMLASLLPWVHNKPGFYLVLG 514
+Q TG + + + N++AR RM+ + + LVLG
Sbjct: 115 SDQYQQETGDQ----------LTDFNKGNVKARTRMIAQYAIGGQ----EG----LLVLG 156
Query: 515 SSNVDEGLRGYLTKYDCSSADINPIGSISKQDLRTFLRWAATHLGYSSLAEIEAAPPTAE 574
+ + E + G+ TKY AD+ P+ ++K+ RT L+ LG + + PTA+
Sbjct: 157 TDHAAEAVTGFFTKYGDGGADLLPLTGLTKRQGRTLLK----ELG--APERLYLKEPTAD 210
Query: 575 LE 576
L
Sbjct: 211 LL 212
>3dpi_A NAD+ synthetase; ssgcid, decode, structural genomics, PSI, protein
structure initiative; 2.20A {Burkholderia pseudomallei}
Length = 285
Score = 107 bits (269), Expect = 4e-26
Identities = 52/242 (21%), Positives = 89/242 (36%), Gaps = 50/242 (20%)
Query: 338 WLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEISNGDEQVKADAIRIGHYA 397
++ DYLR +G +L +SGG DS + G + QL V+ + +
Sbjct: 36 FVADYLRTAGLRACVLGISGGIDS----STAGRLAQLAVERLRASGYDAR---------- 81
Query: 398 NGEFPTDSREFAKRIFYTVFMGSENSSQETRMLAKKLADEIGSWHLDVSIDTVVSAFLSL 457
F + + E + LA L V + A L+
Sbjct: 82 ---------------FVAMRLPYGAQHDEAD-ARRALAFVRADETLTVDVKPAADAMLAA 125
Query: 458 FQTLTGKRPCYKVDGGSNVENLGLQNIQARIRMVLAFMLASLLPWVHNKPGFYLVLGSSN 517
+ + L NI+AR RM+ + +A N +V+G+ +
Sbjct: 126 LAAGGLAYLDHAQQ------DFVLGNIKARERMIAQYAVAGA----RN----GVVIGTDH 171
Query: 518 VDEGLRGYLTKYDCSSADINPIGSISKQDLRTFLRWAATHLGYSSLAEIEAAPPTAELEP 577
E + G+ TK+ AD+ P+ ++K+ +R R LG + PTA+LE
Sbjct: 172 AAESVMGFFTKFGDGGADVLPLAGLTKRRVRALAR----MLGAD--EPLVLKTPTADLET 225
Query: 578 IR 579
+R
Sbjct: 226 LR 227
>3q4g_A NH(3)-dependent NAD(+) synthetase; structural genomics, csgid,
center for structural genomics O infectious diseases,
alpha beta; 2.40A {Vibrio cholerae}
Length = 279
Score = 103 bits (259), Expect = 7e-25
Identities = 46/245 (18%), Positives = 85/245 (34%), Gaps = 46/245 (18%)
Query: 338 WLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEISNGDEQVKADAIRIGHYA 397
++ L + +L +SGG DS G + QL V+E++ +
Sbjct: 30 FIKRKLTEARYKSLVLGISGGVDS----TTCGRLAQLAVEELNQQHNTTEYQ-------- 77
Query: 398 NGEFPTDSREFAKRIFYTVFMGSENSSQETRMLAKKLADEIG-SWHLDVSIDTVVSAFLS 456
F V + E A+ I + + V+I V +
Sbjct: 78 ---------------FIAVRLPYGEQKDEDE--AQLALSFIRPTHSVSVNIKAGVDGLHA 120
Query: 457 LFQTLTGKRPCYKVDGGSNVENLGLQNIQARIRMVLAFMLASLLPWVHNKPGFYLVLGSS 516
+ + N++AR RMV + +A LVLG+
Sbjct: 121 ASHHALAN--TGLIPSDPAKVDFIKGNVKARARMVAQYEIAGY----VG----GLVLGTD 170
Query: 517 NVDEGLRGYLTKYDCSSADINPIGSISKQDLRTFLRWAATHLGYSSLAEIEAAPPTAELE 576
+ E + G+ TK+ + D+ P+ ++K+ +R + LG ++ PTA+LE
Sbjct: 171 HSAENITGFYTKFGDGACDLAPLFGLNKRQVRLLAK----TLGAPE--QLVYKTPTADLE 224
Query: 577 PIRSN 581
+
Sbjct: 225 ELAPQ 229
>1xng_A NH(3)-dependent NAD(+) synthetase; amidotransferase, ligase; HET:
DND ATP; 1.70A {Helicobacter pylori} SCOP: c.26.2.1 PDB:
1xnh_A
Length = 268
Score = 102 bits (257), Expect = 1e-24
Identities = 50/240 (20%), Positives = 82/240 (34%), Gaps = 66/240 (27%)
Query: 338 WLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEISNGDEQVKADAIRIGHYA 397
+L +++ G + LSGG DS+ V +
Sbjct: 15 FLEKEVQKRGFKKVVYGLSGGLDSAVVGVLC-------------------QKV------- 48
Query: 398 NGEFPTDSREFAKRIFYTVFMGSENSSQETRMLAKKLADEIGSWHLDVSIDTVVSAFLSL 457
F + + + M S S E + A L ++ + + SI + F S
Sbjct: 49 ----------FKENA-HALLMPSSVSMPENKTDALNLCEKFSIPYTEYSIAPYDAIFSSH 97
Query: 458 FQTLTGKRPCYKVDGGSNVENLGLQNIQARIRMVLAFMLASLLPWVHNKPGFYLVLGSSN 517
F+ + R N AR+RM + + K LV+G+SN
Sbjct: 98 FKDASLTR---------------KGNFCARLRMAFLYDYS-------LKSD-SLVIGTSN 134
Query: 518 VDEGLRGYLTKYDCSSADINPIGSISKQDLRTFLRWAATHLGYSSLAEIEAAPPTAELEP 577
E + GY T + + INPIG + K ++ R L +I PP+A+L
Sbjct: 135 KSERMLGYGTLFGDLACAINPIGELFKTEVYELARR----LNIPK--KILNKPPSADLFV 188
>2e18_A NH(3)-dependent NAD(+) synthetase; ligase, structural genomics,
NPPSFA, national project on Pro structural and
functional analyses; 2.10A {Pyrococcus horikoshii}
Length = 257
Score = 101 bits (253), Expect = 4e-24
Identities = 53/241 (21%), Positives = 96/241 (39%), Gaps = 66/241 (27%)
Query: 337 CWLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEISNGDEQVKADAIRIGHY 396
+ +++R G +G ++ +SGG DS++VA + K + G E+V
Sbjct: 11 ERILEFIREKGNNGVVIGISGGVDSATVAYLA-------TKAL--GKEKVLG-------- 53
Query: 397 ANGEFPTDSREFAKRIFYTVFMGSENSSQETRMLAKKLADEIGSWHLDVSIDTVVSAFLS 456
+ M + AK +A+++G + ++I +V +F+
Sbjct: 54 -------------------LIMPY--FENKDVEDAKLVAEKLGIGYKVINIKPIVDSFVE 92
Query: 457 LFQTLTGKRPCYKVDGGSNVENLGLQNIQARIRMVLAFMLASLLPWVHNKPGFYLVLGSS 516
N++ GL NI +R RM++ + A N G +VLG+S
Sbjct: 93 NL--------------ELNLDRKGLGNIMSRTRMIMLYAHA-------NSLG-RIVLGTS 130
Query: 517 NVDEGLRGYLTKYDCSSADINPIGSISKQDLRTFLRWAATHLGYSSLAEIEAAPPTAELE 576
N E L GY TK+ ++D PI ++ K ++ + +G I P+A L
Sbjct: 131 NRSEFLTGYFTKWGDGASDYAPIINLYKTEVWEIAKR----IGVPE--RIVKKKPSAGLW 184
Query: 577 P 577
Sbjct: 185 E 185
>1wxi_A NH(3)-dependent NAD(+) synthetase; NADE, E.coli, ligase; HET: AMP;
1.70A {Escherichia coli} SCOP: c.26.2.1 PDB: 1wxf_A
1wxg_A* 1wxh_A* 1wxe_A* 3hmq_A*
Length = 275
Score = 99.0 bits (247), Expect = 2e-23
Identities = 48/248 (19%), Positives = 85/248 (34%), Gaps = 56/248 (22%)
Query: 338 WLWDYLRRSG-ASGFLLPLSGGADSSSVAAIVGCMCQLVVKEISNGDEQVKADAIRIGHY 396
+L YL+ +L +SGG DS + G +CQ+ + E+
Sbjct: 29 FLKSYLQTYPFIKSLVLGISGGQDS----TLAGKLCQMAINELRLETGNESLQ------- 77
Query: 397 ANGEFPTDSREFAKRIFYTVFM-GSENSSQETRMLAKKLADEIGSWHLDVSIDTVVSAFL 455
F V + + ++ A L V+I V A
Sbjct: 78 ----------------FIAVRLPYGVQADEQDCQDAIAFIQPDRV--LTVNIKGAVLASE 119
Query: 456 SLFQTLTGKRPCYKVDGGSNVENLGLQNIQARIRMVLAFMLASLLPWVHNKPGFYLVLGS 515
+ + G + + N +AR RM + +A + + +V+G+
Sbjct: 120 QALR-----------EAGIELSDFVRGNEKARERMKAQYSIAGM----TS----GVVVGT 160
Query: 516 SNVDEGLRGYLTKYDCSSADINPIGSISKQDLRTFLRWAATHLGYSSLAEIEAAPPTAEL 575
+ E + G+ TKY DINP+ ++K+ + L L + PTA+L
Sbjct: 161 DHAAEAITGFFTKYGDGGTDINPLYRLNKRQGKQLLA----ALACPE--HLYKKAPTADL 214
Query: 576 EPIRSNYS 583
E R +
Sbjct: 215 EDDRPSLP 222
>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 = 65.3 bits (158), Expect = 3e-11
Identities = 86/587 (14%), Positives = 187/587 (31%), Gaps = 148/587 (25%)
Query: 55 HFLELDTVTHAWECLKDLLLGDWTDGILCSFGMPVIKGSERYNCQVLCLNRKI--IMIRP 112
H ++ +T H ++ KD+L + D + +F ++ + +L +I I++
Sbjct: 5 HHMDFETGEHQYQY-KDILS-VFEDAFVDNFDCKDVQDMPK---SILS-KEEIDHIIMSK 58
Query: 113 KLWLANDGNYRELRWFTAWKQKDQLEDFQLPNEISVALKQKSVPFGYGFIQFLDTAVAAE 172
A G R L W KQ++ ++ F + L+ Y F+ +
Sbjct: 59 D---AVSGTLR-LFWTLLSKQEEMVQKF-----VEEVLRIN-----YKFL-------MSP 97
Query: 173 ICEELFTPIPPHA------DLALNGVEVF--MNAS--GSHHQLRKLDYRIRAFISATHSR 222
I E P D N +VF N S + +LR+ +R
Sbjct: 98 IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELR--------- 148
Query: 223 GGVYMYSNHQGCDGGRLYFDGCSCVVVNGDMIAQGSQFSLKDVEIVVAQV--DLDAVAGF 280
+ V+++G ++ G K V V
Sbjct: 149 -------PAKN-------------VLIDG-VLGSG-----KTW--VALDVCLSYKVQCKM 180
Query: 281 RGSIS--SFQEQASCKTKIPSVAVPYNLC----QPFNLKMSLSSPLKINYHSPEEEIAFG 334
I + +C + + + L + + SS +K+ HS + E
Sbjct: 181 DFKIFWLNL---KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE---- 233
Query: 335 PGCWLWDYLRRSGASGFLLPLSGGADSSSVAAI-VGCMCQLVV----KEISNGDEQVKAD 389
L L+ LL L ++ + A + C ++++ K++++
Sbjct: 234 ----LRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC--KILLTTRFKQVTDFLSAATTT 287
Query: 390 AIRIGHYANGEFPTDSRE-FAKRIFYTVFMGSENSS--QETR--------MLAKKLADEI 438
I + H++ P + + K ++ +E ++A+ + D +
Sbjct: 288 HISLDHHSMTLTPDEVKSLLLK------YLDCRPQDLPREVLTTNPRRLSIIAESIRDGL 341
Query: 439 GSW----HLDVS-IDTVVSAFLSLFQTLTGKRPCYK--------VDGGSNV-ENLGLQNI 484
+W H++ + T++ + L++ + R + + + + I
Sbjct: 342 ATWDNWKHVNCDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI 400
Query: 485 QARIRMVLAFMLASLLPWVHNK------PGFYLVLGSSNVDEGL--RGYLTKYDCSSADI 536
++ + +V+ + L K P YL L +E R + Y+
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTF- 459
Query: 537 NPIGSISKQDLRTFLRWAATHLGYSSLAEIEAAPPTAELEPIRSNYS 583
+ L + H+G+ L IE + ++
Sbjct: 460 -DSDDLIPPYLDQYFYS---HIGH-HLKNIEHPERMTLFRMVFLDFR 501
>3ivz_A Nitrilase; alpha-beta sandwich, hydrolase; 1.57A {Pyrococcus
abyssi} PDB: 3iw3_A 3ki8_A 3klc_A 1j31_A
Length = 262
Score = 52.2 bits (126), Expect = 1e-07
Identities = 67/303 (22%), Positives = 106/303 (34%), Gaps = 83/303 (27%)
Query: 3 LLKVATCNLNNWALDFDCNLKNIKESIGRAKEAGAVIRLGPELEITGYGC--EDHFLEL- 59
++KVA +N L+ D N ++ I A + GA + + PEL TGY + E+
Sbjct: 1 MVKVAYVQMNPQILEPDKNYSKAEKLIKEASKQGAQLVVLPELFDTGYNFETREEVFEIA 60
Query: 60 ------DTVTHAWECLKDLLLGDWTDGILCSFGMPVIKGSERYNCQVLCLNRKIIMIRPK 113
+T T + +D G+ G G YN V+ + P+
Sbjct: 61 QKIPEGETTTFLMDVARDT-------GVYIVAGTAEKDGDVLYNSAVV--------VGPR 105
Query: 114 LWLANDGNYR-------ELRWFTAWKQKDQLEDFQLPNEISVALKQKSVPFG-YGFIQFL 165
++ G YR E +F G GF F
Sbjct: 106 GFI---GKYRKIHLFYREKFFFEP---------------------------GDLGFRVF- 134
Query: 166 DTA---VAAEICEELFTPIPPHADLALNGVEVFMN--ASGSHHQLRKLDYRIRAFISATH 220
D V IC + F P LAL G +V + + IRA +
Sbjct: 135 DLGFMKVGVMICFDWFFPESART-LALKGADVIAHPANLVMPYA--PRAMPIRALEN--- 188
Query: 221 SRGGVYM-YSNHQGCDGGRLYFDGCSCVVV-NGDMIAQGSQFSLKDVEIVVAQVDLDAVA 278
VY ++ G + G L F G S + ++++ S+ + E+ VA++DL V
Sbjct: 189 ---KVYTVTADRVGEERG-LKFIGKSLIASPKAEVLSMASE---TEEEVGVAEIDLSLVR 241
Query: 279 GFR 281
R
Sbjct: 242 NKR 244
>3hkx_A Amidase; alpha-beta-BETA-alpha:alpha-beta-BETA-alpha dimeric
sandwich hydrolase; 1.66A {Nesterenkonia SP}
Length = 283
Score = 42.6 bits (101), Expect = 2e-04
Identities = 20/110 (18%), Positives = 37/110 (33%), Gaps = 22/110 (20%)
Query: 187 LALNGVEV------FMNASGSHHQLRKLDYRIRAFISATHSRGGVYM-YSNHQGCDGGRL 239
A G ++ S + RA + G+ + Y+NH G +GG +
Sbjct: 177 AAARGAQLVLVPTALAGDETSVPGILL---PARAVEN------GITLAYANHCGPEGGLV 227
Query: 240 YFDGCSCVVV-NGDMIAQGSQFSLKDVEIVVAQVDLDAVAGFRGSISSFQ 288
+ G S VV G + + + ++V + + S Q
Sbjct: 228 FD-GGSVVVGPAGQPLGELGV----EPGLLVVDLPDQSQDAGSDSADYLQ 272
Score = 39.1 bits (92), Expect = 0.002
Identities = 17/56 (30%), Positives = 25/56 (44%)
Query: 4 LKVATCNLNNWALDFDCNLKNIKESIGRAKEAGAVIRLGPELEITGYGCEDHFLEL 59
+++A LD NL I ++ RA E GA + L PEL GY ++
Sbjct: 21 MRIALMQHTARPLDPQHNLDLIDDAAARASEQGAQLLLTPELFGFGYVPSQICAQV 76
>1uf5_A N-carbamyl-D-amino acid amidohydrolase; HET: CDT; 1.60A
{Agrobacterium SP} SCOP: d.160.1.2 PDB: 1uf4_A* 1uf7_A*
1uf8_A* 1erz_A 1fo6_A 2ggl_A 2ggk_A
Length = 303
Score = 42.4 bits (100), Expect = 3e-04
Identities = 53/320 (16%), Positives = 103/320 (32%), Gaps = 67/320 (20%)
Query: 2 RLLKVATCNLNN--WALDFDCNLKNIKESIGRAKEAGAVIRLGPELEITGYGCEDHFLEL 59
R + +A A + + + + + +A GA + PEL +T + HF +
Sbjct: 2 RQMILAVGQQGPIARAETREQVVVRLLDMLTKAASRGANFIVFPELALTTFFPRWHFTDE 61
Query: 60 DTVTHAWECLKDLLLGDWTD---------GILCSFGM----PVIKGSERYNCQVLCLNRK 106
+ +E G GI + G R+N +L
Sbjct: 62 AELDSFYETEMP---GPVVRPLFEKAAELGIGFNLGYAELVVEGGVKRRFNTSIL----- 113
Query: 107 IIMIRPKLWLANDGN----YRELRWFTAWKQKDQLEDFQLPNEISVALKQKSVPFGYGFI 162
+ G YR++ ++++ K+ P GF
Sbjct: 114 ---------VDKSGKIVGKYRKIHLP-------GHKEYEAYRPFQHLEKRYFEPGDLGFP 157
Query: 163 QFLDTA---VAAEICEEL-FTPIPPHA--DLALNGVEVFMN--ASGSHHQLRKLDYRIRA 214
+ D + I + + P A + L G E+ + +H+ + +
Sbjct: 158 VY-DVDAAKMGMFIANDRRW----PEAWRVMGLRGAEIICGGYNTPTHNPPVPQHDHLTS 212
Query: 215 FISATHSRG-----GVYM-YSNHQGCDGGRLYFDGCSCVVV-NGDMIAQGSQFSLKDVEI 267
F + G + + G + + G SC+V G+++A + + E+
Sbjct: 213 FHHLLSMQAGSYQNGAWSAAAGKAGMEENCMLL-GHSCIVAPTGEIVALTTT---LEDEV 268
Query: 268 VVAQVDLDAVAGFRGSISSF 287
+ A VDLD R I +F
Sbjct: 269 ITAAVDLDRCRELREHIFNF 288
>2uxy_A Aliphatic amidase; nitrilase superfamily, hydrolase, acyl transfer,
thiol enzymes, hydroxamic acid; HET: C3Y; 1.25A
{Pseudomonas aeruginosa} PDB: 2plq_A
Length = 341
Score = 40.2 bits (94), Expect = 0.001
Identities = 45/316 (14%), Positives = 91/316 (28%), Gaps = 85/316 (26%)
Query: 4 LKVATCNLNNWAL----DFDCNLKNIKESIGRAKEA--GAVIRLGPELEITGYGCE-DHF 56
+ VA N L + N + I E I K+ G + + PE + G +
Sbjct: 13 VGVAVVNYKMPRLHTAAEVLDNARKIAEMIVGMKQGLPGMDLVVFPEYSLQGIMYDPAEM 72
Query: 57 LEL-DTV----THAWECL-KDLLLGDWTDGILCSFGMPVIKGSER-----YNCQVLCLNR 105
+E + T + + + F + + E YN VL +
Sbjct: 73 METAVAIPGEETEIFSRACRKA-------NVWGVFSLTGERHEEHPRKAPYNTLVLI-DN 124
Query: 106 --KIIMIRPKLWLANDGNYR-------ELRWFTAWKQKDQLEDFQLPNEISVALKQKSVP 156
+I+ YR W+
Sbjct: 125 NGEIV-----------QKYRKIIPWCPIEGWYPG-------------------------- 147
Query: 157 FGYGFIQFLDTA---VAAEICEELFTPIPPHADLALNGVEVFMNASGSHHQLRKLDYRIR 213
G ++ ++ I ++ P D A+ G E+ + G + + +
Sbjct: 148 -GQTYVSE-GPKGMKISLIIXDDGNYP-EIWRDCAMKGAELIVRCQGYMYPAKD---QQV 201
Query: 214 AFISATHSRGGVYMYSNHQGCDGGRLYFDGCSCVV-VNGDMIAQGSQFSLKDVEIVVAQV 272
A Y+ + G + G S ++ +G + + + +++ I AQ+
Sbjct: 202 MMAKAMAWANNCYVAVANAAGFDGVYSYFGHSAIIGFDGRTLGECGE---EEMGIQYAQL 258
Query: 273 DLDAVAGFRGSISSFQ 288
L + R + S
Sbjct: 259 SLSQIRDARANDQSQN 274
>2dyu_A Formamidase; AMIF, CEK, catalytic triad, helicobacter pylori
aliphatic amidase, hydrolase; 1.75A {Helicobacter
pylori} PDB: 2dyv_A 2e2l_A 2e2k_A
Length = 334
Score = 39.3 bits (92), Expect = 0.003
Identities = 19/103 (18%), Positives = 30/103 (29%), Gaps = 21/103 (20%)
Query: 187 LALNGVEV------FMNASGSHHQLRKLDYRIRAFISATHSRGGVYM-YSNHQGCDGGRL 239
A G V + L R A+ + +Y N G D
Sbjct: 178 AAYKGCNVYIRISGYSTQVNDQWIL---TNRSNAWHN------LMYTVSVNLAGYDNV-F 227
Query: 240 YFDGCSCVV-VNGDMIAQGSQFSLKDVEIVVAQVDLDAVAGFR 281
Y+ G + +G + QG + EIV ++ R
Sbjct: 228 YYFGEGQICNFDGTTLVQGHR---NPWEIVTGEIYPKMADNAR 267
Score = 33.2 bits (76), Expect = 0.19
Identities = 13/64 (20%), Positives = 23/64 (35%), Gaps = 6/64 (9%)
Query: 1 MRLLKVA----TCNLNNWALDFDCNLKNIKESIG--RAKEAGAVIRLGPELEITGYGCED 54
+ VA + N D D N+++I ++ +A G + + PE G
Sbjct: 11 IEGFLVAAIQFPVPIVNSRKDIDHNIESIIRTLHATKAGYPGVELIIFPEYSTQGLNTAK 70
Query: 55 HFLE 58
E
Sbjct: 71 WLSE 74
>2e11_A Hydrolase; dimethylarsenic inhibi complex, cacodylate; 1.73A
{Xanthomonas campestris PV}
Length = 266
Score = 38.0 bits (89), Expect = 0.005
Identities = 40/316 (12%), Positives = 85/316 (26%), Gaps = 87/316 (27%)
Query: 1 MRLLKVATCNLNNWALDFDCNLKNIKESIGRAKEAGAVIRLGPELEITGYGCEDHFL--E 58
M L+++ + D N + ++ L PE +G+ E +
Sbjct: 1 MHDLRISLVQGSTRWHDPAGNRDYYGALLEPLAGQSDLVIL-PETFTSGFSNEAIDKAED 59
Query: 59 LDTVTHAWECLKDLLLGDW--TDGILCSFGMPVIKGSERYNCQVLCLN-------RKIIM 109
+D T AW + G + + + +N + K +
Sbjct: 60 MDGPTVAW-------IRTQAARLGAAITGSVQLRTEHGVFNRLLWATPDGALQYYDKRHL 112
Query: 110 IRPKLWLANDGNYRELRWFTAWKQKDQLEDFQLPNEISVALKQKSVPFGYGFIQFLDTAV 169
R E + A ++ + + + +
Sbjct: 113 FRF---------GNEHLRYAA--------------------GRERLCVEWKGWR-----I 138
Query: 170 AAEIC-----EELFTPIPPHADLALNGVEV------FMNASGSHHQLRKLDYRIRA---- 214
++C ++ + +A + L R RA
Sbjct: 139 NPQVCYDLRFPVFCRNRFDVERPGQLDFDLQLFVANWPSARAYAWKT--L-LRARAIENL 195
Query: 215 -FISATHSRGGVYMYSNHQGCDGGRLYFDGCSCVV-VNGDMIAQGSQFSLKDVEIVVAQV 272
F++A N G DG +L++ G S V+ G + + ++V +
Sbjct: 196 CFVAA----------VNRVGVDGNQLHYAGDSAVIDFLGQPQVEIRE----QEQVVTTTI 241
Query: 273 DLDAVAGFRGSISSFQ 288
A+A R +
Sbjct: 242 SAAALAEHRARFPAML 257
>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 = 36.6 bits (84), Expect = 0.025
Identities = 49/257 (19%), Positives = 81/257 (31%), Gaps = 93/257 (36%)
Query: 134 KDQLEDF------QLPNE--ISVALK---QKSVPFG-----YGFIQFLDTAVAAEICEEL 177
++Q++D+ LP + ++L + V G YG L A A ++
Sbjct: 346 QEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ- 404
Query: 178 FTPIPPHADLALNGVEVFMNASGSHHQLRKLDYRIRAF--ISAT-HSRGGVYMYSNHQGC 234
+ IP + RKL + R F +++ HS +
Sbjct: 405 -SRIP-------------------FSE-RKLKFSNR-FLPVASPFHSH---LLVPASD-- 437
Query: 235 DGGRLYFDGCSCVVVNGDMIAQGSQFSLKDVEIVVAQVDLDAVAGFRGSISSFQEQASCK 294
++N D++ F+ KD++I V D G S +
Sbjct: 438 -------------LINKDLVKNNVSFNAKDIQIPV----YDTFDG-----SDLRV---LS 472
Query: 295 TKIPSVAVPYNLCQPFNLKMSLS-SPLKINYHSPEEEIAFGPGCWLWDYLRRSGASGFLL 353
I V + P + + I + FGPG GASG L
Sbjct: 473 GSISERIVDCIIRLPVKWETTTQFKATHI--------LDFGPG----------GASG-LG 513
Query: 354 PLSGG-ADSSSVAAIVG 369
L+ D + V IV
Sbjct: 514 VLTHRNKDGTGVRVIVA 530
>3p8k_A Hydrolase, carbon-nitrogen family; HET: PGE; 1.70A {Staphylococcus
aureus subsp}
Length = 281
Score = 34.6 bits (80), Expect = 0.062
Identities = 17/60 (28%), Positives = 30/60 (50%), Gaps = 6/60 (10%)
Query: 230 NHQGCDGGRLYFDGCSCVV-VNGDMIAQGSQFSLKDVEIVVAQVDLDAVAGFRGSISSFQ 288
N G DG Y G S V+ NGD++ + ++ +I+ ++L+ V R +I F+
Sbjct: 219 NSTGFDGNTEYA-GHSIVINPNGDLVGELNE----SADILTVDLNLNEVEQQRENIPVFK 273
Score = 30.7 bits (70), Expect = 1.2
Identities = 14/52 (26%), Positives = 19/52 (36%), Gaps = 2/52 (3%)
Query: 4 LKVATCNLNNWALDFDCNLKNIKESIGRAKEAGA-VIRLGPELEITGYGCED 54
+KV L D N I + + A V+ L PE+ GY E
Sbjct: 21 MKVQIYQLPIVFGDSSKNETQITQWFEKNMNAEVDVVVL-PEMWNNGYDLEH 71
>2vhh_A CG3027-PA; hydrolase; 2.8A {Drosophila melanogaster} PDB: 2vhi_A
Length = 405
Score = 31.3 bits (71), Expect = 0.82
Identities = 10/58 (17%), Positives = 16/58 (27%), Gaps = 7/58 (12%)
Query: 1 MRLLKVATC-------NLNNWALDFDCNLKNIKESIGRAKEAGAVIRLGPELEITGYG 51
R+++V + +K I A EAG I E +
Sbjct: 70 RRIVRVGAIQNSIVIPTTAPIEKQREAIWNKVKTMIKAAAEAGCNIVCTQEAWTMPFA 127
Score = 29.0 bits (65), Expect = 4.4
Identities = 22/118 (18%), Positives = 36/118 (30%), Gaps = 20/118 (16%)
Query: 187 LALNGVEVFMN--ASGSHHQLR--KLDYRIRA-----FISATHSRGGVYMYSNHQGCDGG 237
LNG E+ N A+ ++ R A F +R G + N G
Sbjct: 246 FGLNGAEIVFNPSATIGRLSEPLWSIEARNAAIANSYFT-VPINRVGTEQFPNEYTSGDG 304
Query: 238 R------LYFDGCSCVVV-NGDMIAQGSQFSLKDVEIVVAQVDLDAVAGFRGSISSFQ 288
F G S V +G S+ ++V ++DL+ +
Sbjct: 305 NKAHKEFGPFYGSSYVAAPDGSRTPSLSR---DKDGLLVVELDLNLCRQVKDFWGFRM 359
>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; 2.00A {Homo sapiens} PDB:
2ek6_A
Length = 95
Score = 29.2 bits (66), Expect = 1.1
Identities = 10/49 (20%), Positives = 19/49 (38%), Gaps = 5/49 (10%)
Query: 134 KDQLEDF-----QLPNEISVALKQKSVPFGYGFIQFLDTAVAAEICEEL 177
D++ DF +P + + +K +P G + F A +L
Sbjct: 29 IDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDL 77
>2plj_A Lysine/ornithine decarboxylase; type IV decarboxylase, beta/alpha
barrel, beta barrel, lyase; HET: P3T; 1.70A {Vibrio
vulnificus} PDB: 2plk_A*
Length = 419
Score = 30.3 bits (69), Expect = 1.9
Identities = 13/78 (16%), Positives = 29/78 (37%), Gaps = 1/78 (1%)
Query: 394 GHYANGEFPTDSREFAKRIFYTVFMGSENS-SQETRMLAKKLADEIGSWHLDVSIDTVVS 452
H+++G P S + + + + S E L + ++ G+ L + D +
Sbjct: 8 HHHSSGLVPRGSHMAHSQSIFDIHSLTSPVLSAEEIHLIEASVEQFGAPLLLLDCDVIRQ 67
Query: 453 AFLSLFQTLTGKRPCYKV 470
+ +L L Y +
Sbjct: 68 QYRALKNALPNVTLHYAL 85
>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken
structural genomics/proteomics initiative, RSGI; NMR
{Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A
Length = 110
Score = 28.1 bits (63), Expect = 2.6
Identities = 7/24 (29%), Positives = 10/24 (41%)
Query: 154 SVPFGYGFIQFLDTAVAAEICEEL 177
SV GY F+Q+ + A
Sbjct: 59 SVHKGYAFVQYSNERHARAAVLGE 82
>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding
domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 98
Score = 28.0 bits (63), Expect = 2.8
Identities = 10/49 (20%), Positives = 19/49 (38%), Gaps = 5/49 (10%)
Query: 134 KDQLEDF-----QLPNEISVALKQKSVPFGYGFIQFLDTAVAAEICEEL 177
D++ DF +P + + +K +P G + F A +L
Sbjct: 29 IDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDL 77
>1sdi_A ORF-23, hypothetical protein YCFC; structural genomics,
paracytosis, peripheral membrane protein, PSI, protein
structure initiative; 1.65A {Escherichia coli} SCOP:
a.198.1.1 PDB: 1qz4_A
Length = 213
Score = 29.2 bits (65), Expect = 3.1
Identities = 14/62 (22%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 442 HLDVSIDTVVSAFLSLFQ-TLTGKRPCYKVDGGSNVENLGLQNIQARIRMVLAFMLASLL 500
H D+ +T++SA +++ ++ P +V G + L +QA++R L + + +
Sbjct: 122 HFDLQSETLMSAMAAIYVDVISPLGPRIQVTG--SPAVLQSPQVQAKVRATLLAGIRAAV 179
Query: 501 PW 502
W
Sbjct: 180 LW 181
>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA
splicing factor, RNA recognition motif, RNA binding
protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A
Length = 172
Score = 28.7 bits (65), Expect = 3.4
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 158 GYGFIQFLDTAVAAEICEEL 177
GY F +++D V + L
Sbjct: 137 GYAFCEYVDINVTDQAIAGL 156
>1jgt_A Beta-lactam synthetase; asparagine synthetase, clavulanic AC
AMPCPP, CEA, carboxyethylarginine, hydrolase; HET: APC
CMA; 1.95A {Streptomyces clavuligerus} SCOP: c.26.2.1
d.153.1.1 PDB: 1m1z_A 1mb9_A* 1mbz_A* 1mc1_A*
Length = 513
Score = 29.7 bits (67), Expect = 3.5
Identities = 10/13 (76%), Positives = 10/13 (76%)
Query: 355 LSGGADSSSVAAI 367
LSGG DSS VAA
Sbjct: 248 LSGGIDSSGVAAC 260
>2div_A TRNA selenocysteine associated protein; structural genomics, RRM
domain, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 99
Score = 27.7 bits (62), Expect = 4.1
Identities = 10/33 (30%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 151 KQKSVPFGYGFIQFLDTAVAAEICEEL-FTPIP 182
+ +P GY F++F D A A + ++ P+P
Sbjct: 46 RLTGIPAGYCFVEFADLATAEKCLHKINGKPLP 78
>2vha_A Periplasmic binding transport protein; periplasmic binding protein,
ligand binding, ultrahigh resolution; HET: GLU; 1.00A
{Shigella flexneri} PDB: 2ia4_A*
Length = 287
Score = 28.9 bits (65), Expect = 4.2
Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 8/56 (14%)
Query: 133 QKDQLEDFQLPNEISVALKQKSVPFGY--------GFIQFLDTAVAAEICEELFTP 180
L+ I V ++ SVPF Y G+ Q A+ + ++L P
Sbjct: 6 AGSTLDKIAKNGVIVVGHRESSVPFSYYDNQQKVVGYSQDYSNAIVEAVKKKLNKP 61
>1q15_A CARA; CMPR, (2S,5S)-5-carboxymethylproline, B-LS, B-lactam
synthetase, AS-B, class B asparagine synthetase,
AMP-CPP; 2.30A {Pectobacterium carotovorum} SCOP:
c.26.2.1 d.153.1.1 PDB: 1q19_A*
Length = 503
Score = 29.3 bits (66), Expect = 4.5
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 355 LSGGADSSSVAAI 367
LSGG DSS V A+
Sbjct: 245 LSGGLDSSLVTAL 257
>1qu6_A Protein kinase PKR; dsRNA-binding domain, solution structure,
transferase; NMR {Homo sapiens} SCOP: d.50.1.1 d.50.1.1
Length = 179
Score = 28.3 bits (63), Expect = 5.7
Identities = 12/87 (13%), Positives = 32/87 (36%)
Query: 247 VVVNGDMIAQGSQFSLKDVEIVVAQVDLDAVAGFRGSISSFQEQASCKTKIPSVAVPYNL 306
V+++G +G S K+ + A++ ++ + + ++S + ++ S+ L
Sbjct: 50 VIIDGREFPEGEGRSKKEAKNAAAKLAVEILNKEKKAVSPLLLTTTNSSEGLSMGNYIGL 109
Query: 307 CQPFNLKMSLSSPLKINYHSPEEEIAF 333
K L+ + F
Sbjct: 110 INRIAQKKRLTVNYEQCASGVHGPEGF 136
>2ywb_A GMP synthase [glutamine-hydrolyzing]; GMP synthetase, XMP binding,
ATP binding, purine nucleotide biosynthetic pathway,
structural genomics; 2.10A {Thermus thermophilus} PDB:
2ywc_A*
Length = 503
Score = 28.6 bits (65), Expect = 7.2
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 352 LLPLSGGADSSSVAAIV 368
LL +SGG DSS++A ++
Sbjct: 213 LLAVSGGVDSSTLALLL 229
>2etd_A LEMA protein; bromodomain-like fold, structural genomics, joint
center for structural genomics, JCSG, protein structure
initiative; 2.28A {Thermotoga maritima} SCOP: a.29.9.1
Length = 171
Score = 27.8 bits (62), Expect = 7.5
Identities = 10/43 (23%), Positives = 16/43 (37%), Gaps = 1/43 (2%)
Query: 94 ERYNCQVLCLNRKIIMIRPKLWLANDGNYRELRWFTAWKQKDQ 136
YN V N I P + A + E ++F A ++
Sbjct: 124 RDYNEAVXXYNTAIXXF-PGVIFAXMFGFEEXQYFEAXPGAEE 165
>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing,
transcription, RNA binding protein, mRNA processing; NMR
{Homo sapiens} PDB: 2yh1_A
Length = 198
Score = 27.7 bits (62), Expect = 7.5
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 158 GYGFIQFLDTAVAAEICEEL 177
GY F +++D V + L
Sbjct: 157 GYAFCEYVDINVTDQAIAGL 176
>2dpl_A GMP synthetase, GMP synthase [glutamine-hydrolyzing] subunit B;
pyrococcus horikoshii OT3, structural genomics, NPPSFA;
1.43A {Pyrococcus horikoshii} PDB: 2z0c_A 3a4i_A
Length = 308
Score = 28.2 bits (64), Expect = 7.7
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 352 LLPLSGGADSSSVAAIV 368
++ LSGG DSS+ A +
Sbjct: 24 IIALSGGVDSSTAAVLA 40
>3tqi_A GMP synthase [glutamine-hydrolyzing]; ligase; 2.84A {Coxiella
burnetii}
Length = 527
Score = 28.2 bits (64), Expect = 8.1
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 352 LLPLSGGADSSSVAAIV 368
++ LSGG DS+ A +V
Sbjct: 234 IVGLSGGVDSAVTATLV 250
>3knw_A Putative transcriptional regulator (TETR/ACRR FAM; TETR-like
protein, MCSG, PSI, structural genomics, protein S
initiative; 2.45A {Acinetobacter SP}
Length = 212
Score = 27.7 bits (62), Expect = 8.5
Identities = 16/98 (16%), Positives = 36/98 (36%), Gaps = 28/98 (28%)
Query: 369 GCMCQLVVKEISNGDEQVK--------------ADAIRIGHYANGEFP--TDSREFAKRI 412
C+ + E+++ E ++ AD IRIG G A ++
Sbjct: 111 SCLIVKMAAEVADLSEDMRLIMNDGVKRLIARMADLIRIGQ-QEGSIQTSVVPDVLA-QV 168
Query: 413 FYTVFMGSENSSQETRMLAKKLADEIGSWHLDVSIDTV 450
Y +++G+ +L+K + L ++++
Sbjct: 169 IYQMYLGA-------ALLSKLYKHK---APLFQALEST 196
>1gpm_A GMP synthetase, XMP aminase; class I glutamine amidotransferase,
N-type ATP pyrophosphata transferase (glutamine
amidotransferase); HET: AMP CIT; 2.20A {Escherichia
coli} SCOP: c.23.16.1 c.26.2.1 d.52.2.1
Length = 525
Score = 28.2 bits (64), Expect = 9.3
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 352 LLPLSGGADSSSVAAIV 368
+L LSGG DSS A ++
Sbjct: 231 ILGLSGGVDSSVTAMLL 247
>2vxo_A GMP synthase [glutamine-hydrolyzing]; proto-oncogene,
phosphoprotein, GMP synthetase, guanine monophosphate
synthetase, chromosomal rearrangement; HET: XMP; 2.5A
{Homo sapiens}
Length = 697
Score = 28.4 bits (64), Expect = 9.4
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 352 LLPLSGGADSSSVAAIV 368
L+ LSGG DS+ A++
Sbjct: 244 LVLLSGGVDSTVCTALL 260
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
0.321 0.137 0.425
Gapped
Lambda K H
0.267 0.0648 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,367,756
Number of extensions: 576635
Number of successful extensions: 1340
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1291
Number of HSP's successfully gapped: 63
Length of query: 591
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 492
Effective length of database: 3,937,614
Effective search space: 1937306088
Effective search space used: 1937306088
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 60 (27.1 bits)