RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 005508
(693 letters)
>1vhn_A Putative flavin oxidoreducatase; structural genomics, unknown
function; HET: FMN; 1.59A {Thermotoga maritima} SCOP:
c.1.4.1
Length = 318
Score = 217 bits (556), Expect = 2e-65
Identities = 73/290 (25%), Positives = 120/290 (41%), Gaps = 37/290 (12%)
Query: 336 IDFREKLYLAPLTTVGNLPFRRVCKVLGADVTCGEMAMCTNLLQGQASEWALLRRHSSED 395
+ K+ LAP+ + FR + GAD EM L LL E
Sbjct: 1 MSLEVKVGLAPMAGYTDSAFRTLAFEWGADFAFSEMVSAKGFLMNSQKTEELLP-QPHER 59
Query: 396 LFGVQICGAYPDTLARTVELIDQQCTVDFIDINMGCPIDIVVNKGAGSCLLTKPMRMKGI 455
VQI G+ P+ L+ ++ ++ +ID+N GCP+ VV +GAG LL + I
Sbjct: 60 NVAVQIFGSEPNELSEAARILSEKY--KWIDLNAGCPVRKVVKEGAGGALLKDLRHFRYI 117
Query: 456 IEATSGTVDKPITIKVRTGYFEGKNRIDSLIADIG-TWGASAVTVHGRTRQQRYSKLADW 514
+ +V ++K R G +E + I I G V +H RT Q ++ A+W
Sbjct: 118 VRELRKSVSGKFSVKTRLG-WEKNEVEE--IYRILVEEGVDEVFIHTRTVVQSFTGRAEW 174
Query: 515 DYIYQCARKASDDLQVLGNGDIYSYLDWNKHKSDCPELAS-------C---MIARGALIK 564
+ + +GDI++ PE A C ++ARGA+ +
Sbjct: 175 KAL----SVLEKRIPTFVSGDIFT-----------PEDAKRALEESGCDGLLVARGAIGR 219
Query: 565 PWIFTEIKE----QRHWDITSGERLNIMKDFARFGLEHWGSDKKGVETTR 610
PWIF +IK+ ++ + + E L + ++ G ++K V R
Sbjct: 220 PWIFKQIKDFLRSGKYSEPSREEILRTFERHLELLIKTKG-ERKAVVEMR 268
>3b0p_A TRNA-dihydrouridine synthase; TIM barrel, oxidoreductase; HET: FMN;
1.70A {Thermus thermophilus} PDB: 3b0u_X* 3b0v_C*
Length = 350
Score = 69.2 bits (170), Expect = 1e-12
Identities = 56/253 (22%), Positives = 94/253 (37%), Gaps = 16/253 (6%)
Query: 370 EMAMCTNLLQGQASEWALLRRHSSEDLFGVQICGAYPDTLARTVELIDQQCTVDFIDINM 429
EM + +L+G LL E +Q+ G+ P +LA + + D I++N+
Sbjct: 35 EMTVDQAVLRGNRER--LLAFRPEEHPIALQLAGSDPKSLAEAARIG-EAFGYDEINLNL 91
Query: 430 GCPIDIVVNKGAGSCLLTKPMRMKGIIEATSGTVDKPITIKVRTGY--FEGKNRIDSLIA 487
GCP + G G+CLL R++ I++A V P+T+K+R G E + +
Sbjct: 92 GCPSEKAQEGGYGACLLLDLARVREILKAMGEAVRVPVTVKMRLGLEGKETYRGLAQSVE 151
Query: 488 DIGTWGASAVTVHGR-------TRQQRYSKLADWDYIYQCARKASDDLQVLGNGDIYSYL 540
+ G VH R T+ R D++++ L + NG I S
Sbjct: 152 AMAEAGVKVFVVHARSALLALSTKANREIPPLRHDWVHRLKGDFP-QLTFVTNGGIRSLE 210
Query: 541 DWNKHKSDCPELASCMIARGALIKPWIFTEIKEQRHWDITSGERLNIMKDFARFGLEHWG 600
+ H M+ R P++ E + RL + + + E
Sbjct: 211 EALFHLKRV---DGVMLGRAVYEDPFVLEEADRRVFGLPRRPSRLEVARRMRAYLEEEVL 267
Query: 601 SDKKGVETTRHFL 613
RH L
Sbjct: 268 KGTPPWAVLRHML 280
>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 = 63.7 bits (154), Expect = 1e-10
Identities = 89/611 (14%), Positives = 170/611 (27%), Gaps = 197/611 (32%)
Query: 154 YG-LACRFSGTHRDVVDVAGSTNTLRKSSEVNGLNKDVQKLLWKNKMKFPKADAKLKSLG 212
Y L R S T + + L D Q K + L
Sbjct: 91 YKFLMSPIKTEQRQ-----PSMMTRMYIEQRDRLYNDNQVF---AKYNVSRLQ-PYLKL- 140
Query: 213 LLGPAKSKMKVMEDKEQEGVVDSNNSHATNGNGCMKGTGDSVDESECSPCVPEENNIVND 272
+ ++E + + V+ +G + G+G + + +
Sbjct: 141 -------RQALLELRPAKNVL-------IDG---VLGSGKTWVALD----------VCLS 173
Query: 273 RPLKKAKSENV-----ENCCSVEGDNGVSVLEE-DTRNNTADTQPAAKIDDILPETDGSL 326
++ + +NC S E +VLE D ++ D ++ L
Sbjct: 174 YKVQCKMDFKIFWLNLKNCNSPE-----TVLEMLQKLLYQIDPNWTSRSD---HSSNIKL 225
Query: 327 KTHSREKKLID-FREKLY---LAPLTTVGNL----PFRRVCKVLGADVTCGEMAMCTNLL 378
+ HS + +L + K Y L L V N F CK+L +T + L
Sbjct: 226 RIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKIL---LTTRFKQVTDFLS 282
Query: 379 QGQASEWAL------LRRHSSEDLFGVQICGAYPDTLARTVELIDQQCTVDFIDINMGCP 432
+ +L L + L + P L R + T +
Sbjct: 283 AATTTHISLDHHSMTLTPDEVKSLLL-KYLDCRPQDLPR------EVLTTN--------- 326
Query: 433 IDIVVNKGAGSCLLTKPMRMKGIIEATSGTVDKPITIKVRTGYFE--GKNRIDSLIADIG 490
P R+ I E+ D T ++ +++ ++I
Sbjct: 327 ----------------PRRLSIIAESIR---DGLATWD----NWKHVNCDKLTTIIE--- 360
Query: 491 TWGASAVTVHGRTRQQRYSKLADWDYIYQCARKASDD----LQVLGNGDIYSYLDWNKHK 546
+S + ++ + +L+ ++ +L + W
Sbjct: 361 ---SSLNVLEPAEYRKMFDRLS----VFP------PSAHIPTILLS---LI----WFDVI 400
Query: 547 SDCPELASCMIARGALIKPW----------IFTEIKEQR------HWDITSGERLNIMKD 590
+ + + +L++ I+ E+K + H I + NI K
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV--DHYNIPKT 458
Query: 591 FARFGL----------EHWG-------SDKKGVETTRHFL-LEWLSYTCRY------IPV 626
F L H G ++ FL +L R+
Sbjct: 459 FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASG 518
Query: 627 GLLDVIPQRLNWRP------PAYSGR-DDL-------ETLMASDSAADWIRISEMLLGKV 672
+L+ + Q ++P P Y + + E + D +RI+ M
Sbjct: 519 SILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALM----A 574
Query: 673 PDGFTFAPKHK 683
D F HK
Sbjct: 575 EDEAIFEEAHK 585
>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding protein;
NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A
Length = 77
Score = 53.8 bits (129), Expect = 2e-09
Identities = 20/61 (32%), Positives = 26/61 (42%), Gaps = 5/61 (8%)
Query: 103 LCPEVAKSGDVSSCPYKDKCRFSHDLDG--FKAQKPDDLEGECPFLSSEGPCPYGLACRF 160
LC ++SG C Y KC+F+H L + P C +G CPYG C F
Sbjct: 14 LCRTYSESG---RCRYGAKCQFAHGLGELRQANRHPKYKTELCHKFKLQGRCPYGSRCHF 70
Query: 161 S 161
Sbjct: 71 I 71
Score = 31.1 bits (70), Expect = 0.16
Identities = 11/43 (25%), Positives = 17/43 (39%), Gaps = 3/43 (6%)
Query: 87 RQLKRERQQEKKSASHLCPEVAKSGDVSSCPYKDKCRFSHDLD 129
R+ + K + LC + G CPY +C F H+
Sbjct: 36 LGELRQANRHPKYKTELCHKFKLQG---RCPYGSRCHFIHNPT 75
>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 = 55.1 bits (132), Expect = 7e-08
Identities = 93/610 (15%), Positives = 163/610 (26%), Gaps = 253/610 (41%)
Query: 5 ATELSES--RVLPADSPPP----QPNSTGVPVHNLTPEELVAK---------------AI 43
A++L E ++LP + +P + P ELV K
Sbjct: 30 ASQLQEQFNKILPEPTEGFAADDEPTT---------PAELVGKFLGYVSSLVEPSKVGQF 80
Query: 44 APVKK--------QFLR--------------PPPTRANQNDTVK-Y------TNERSSQQ 74
V +L T + +K Y ++
Sbjct: 81 DQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKK 140
Query: 75 HSSTL---VKEKKSK---------------RQLKRERQQE---------KKSASHLCPEV 107
+S L V E ++ +L R+ Q K SA L +
Sbjct: 141 SNSALFRAVGEGNAQLVAIFGGQGNTDDYFEEL-RDLYQTYHVLVGDLIKFSAETLSELI 199
Query: 108 AKSGDVSSCPYKDKCRFSHDLDGFK-----AQKPDDLEGECPFLSSEGP--CP------- 153
+ D F+ L+ + + PD +L S P CP
Sbjct: 200 RTTLDAEKV-------FTQGLNILEWLENPSNTPDK-----DYLLS-IPISCPLIGVIQL 246
Query: 154 --YGLACRFSG-THRDVVD-VAGSTNTLRKSSEVNGLNKDVQKLL-------WKNKMKFP 202
Y + + G T ++ + G+T G ++ + + W++ F
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGAT----------GHSQGLVTAVAIAETDSWES---FF 293
Query: 203 KADAK-LKSLGLLG-------PAKSKMKVMEDKEQEGVVDSNNSHATNGNG---CM---K 248
+ K + L +G P S + DS N G M
Sbjct: 294 VSVRKAITVLFFIGVRCYEAYPNTS-------LPPSILEDS----LENNEGVPSPMLSIS 342
Query: 249 G-TGDSVDE--SECSPCVPEENNI----VNDR--------PLKKAKSENVENCCSVEGDN 293
T + V + ++ + +P + VN P S+ G
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQ------------SLYG-- 388
Query: 294 GVSVLEEDTRNNTADTQPAAKIDDILPETDGSLKTHSREKKLIDFREKLYLAPLTTVGNL 353
L R A D S S K R +L P+ +
Sbjct: 389 ----LNLTLRKAKAP-----------SGLDQSRIPFSERKLKFSNR---FL-PVAS---- 425
Query: 354 PF-----RRVCKVLGADVTCGEMAMCTNLLQGQASEWAL-LRRHSSEDLFGVQICGAYPD 407
PF ++ D+ + A + + + + + D G +
Sbjct: 426 PFHSHLLVPASDLINKDLVKNN-------VSFNAKDIQIPV--YDTFD--GSDLR-VLSG 473
Query: 408 TLARTVELIDQQCT--VDFIDINMGCPIDIVV-----NKGAGSCLLTKPMRMK-----GI 455
+++ ++D V + I+ G G LT R K +
Sbjct: 474 SISE--RIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGV--LTH--RNKDGTGVRV 527
Query: 456 IEATSGTVDK 465
I A GT+D
Sbjct: 528 IVA--GTLDI 535
Score = 54.7 bits (131), Expect = 1e-07
Identities = 83/490 (16%), Positives = 142/490 (28%), Gaps = 168/490 (34%)
Query: 296 SVLEEDTRNNTADTQPAAK----------IDDILPETDGSLKTHSREKKLIDFREKLYL- 344
+L E T AD +P + ++ + L +F E YL
Sbjct: 39 KILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF-ENCYLE 97
Query: 345 --------APLTTVGNLPFRRVCKVLGADVTCGEMAMCTNLLQGQASEWALLRRHSSED- 395
A L + + +++ + + + S AL R +
Sbjct: 98 GNDIHALAAKLLQENDTTLVKTKELIKNYI---TARIMAKRPFDKKSNSALFRAVGEGNA 154
Query: 396 ----LFGVQICGAYPDTLARTVELIDQQCT-----VDFIDINMGCPIDIVVNKGAGSCLL 446
+FG Q G D EL D T D I + +++ +
Sbjct: 155 QLVAIFGGQ--GNTDDYFE---ELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF 209
Query: 447 TKPMRMKGIIEATSGTVDKP---------------------ITIKVRTGYFEGKNRIDSL 485
T+ + + +E S T DK +T K+ G+ G+ R L
Sbjct: 210 TQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKL-LGFTPGELR-SYL 267
Query: 486 IADIGTWGASAVTVHGRTRQQRYSKLA-----DWDYIYQCARKASDDLQVLGNGDIYSYL 540
T H Q + +A W+ + RKA + VL ++
Sbjct: 268 ---------KGATGHS---QGLVTAVAIAETDSWESFFVSVRKA---ITVL------FFI 306
Query: 541 DWNKHK------------SDCPE----LASCMIA-RGALIKPWIFTEIK-------EQRH 576
++ D E + S M++ L + + + +
Sbjct: 307 GVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISN-LTQEQVQDYVNKTNSHLPAGKQ 365
Query: 577 WDIT----------SG-----ERLNIM--KDFARFGLEHW---GSDKKGVETTRHFLLEW 616
+I+ SG LN+ K A GL+ S++K + R FL
Sbjct: 366 VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNR-FL--- 421
Query: 617 LSYTCRYIPVG------LL---------DVIPQRLNWRP-----PAYSGRD--DLETLMA 654
PV LL D++ +++ P Y D DL L
Sbjct: 422 --------PVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSG 473
Query: 655 S--DSAADWI 662
S + D I
Sbjct: 474 SISERIVDCI 483
Score = 52.7 bits (126), Expect = 4e-07
Identities = 45/316 (14%), Positives = 95/316 (30%), Gaps = 110/316 (34%)
Query: 177 LRKSSEVNGLNKDVQKLLWKNKMKFPKADAKLKS-LGLLGPAKSKMKVMEDKEQEGVVDS 235
L K+S + +W +AD K G S + ++ + +
Sbjct: 1635 LYKTS-------KAAQDVWN------RADNHFKDTYGF-----SILDIVINNPVNLTI-- 1674
Query: 236 NNSHATNGNGC------MKGTGDSVDESECSPCVPEENNIVNDRPLKKAKSENVENCCSV 289
H G +++ + + + K +E+ +
Sbjct: 1675 ---HFGGEKGKRIRENYSAMIFETIVDGKLKT-----------EKIFKEINEHSTSYT-F 1719
Query: 290 EGDNGVSVLEEDTRNNTADTQPA------AKIDDILPETDGSLKT------HSREKKLID 337
+ G+ L + T TQPA A +D+ ++ G + HS
Sbjct: 1720 RSEKGL--L-----SATQFTQPALTLMEKAAFEDL--KSKGLIPADATFAGHS------- 1763
Query: 338 FREKL--YLAPLTTVGN-LPFRRVCKVLGADVTCGEMAMCTNLLQGQASEWALLRRHSSE 394
L Y A L ++ + + + +V+ +G + A+ R
Sbjct: 1764 ----LGEYAA-LASLADVMSIESLVEVV--------------FYRGMTMQVAVPRDELGR 1804
Query: 395 DLFGVQICGAYPDTLARTVELIDQQCTVDFIDINMGCPIDIVVN---KG-----AGS--- 443
+G + P +A + Q V+ + G ++I VN + AG
Sbjct: 1805 SNYG--MIAINPGRVAASFSQEALQYVVERVGKRTGWLVEI-VNYNVENQQYVAAGDLRA 1861
Query: 444 ----CLLTKPMRMKGI 455
+ ++++ I
Sbjct: 1862 LDTVTNVLNFIKLQKI 1877
Score = 52.0 bits (124), Expect = 7e-07
Identities = 111/613 (18%), Positives = 173/613 (28%), Gaps = 218/613 (35%)
Query: 129 DGFKAQKPDDLEGECPFLSSEGP-CPYGLACRFSG--THRDVVDVAGSTNTLRKSS---- 181
+ F P+ EG F + + P P L +F G + G + +
Sbjct: 35 EQFNKILPEPTEG---FAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF 91
Query: 182 EVNGL-NKDV----QKLLWKNKMKFPKADAKLKS----LGLLGPAKSKMKVMEDKEQEGV 232
E L D+ KLL +N K +K+ + K
Sbjct: 92 ENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDK------------ 139
Query: 233 VDSNNS----HATNGN-------GCMKGTGDSVDESECSPCVPEENNIVND-RPLKKAKS 280
+NS GN G G G++ D E ++ L
Sbjct: 140 --KSNSALFRAVGEGNAQLVAIFG---GQGNTDD------YFEELRDLYQTYHVL----- 183
Query: 281 ENVENCCSVEGDNGVSVLEEDTRNNTADTQPAAKIDDIL-----PETDGSLKTHSREKKL 335
V + + L E R + + +IL P T ++
Sbjct: 184 --VGDLIKFSAE----TLSELIRTTLDAEKVFTQGLNILEWLENPSN-----TPDKD--- 229
Query: 336 IDFREKLYLA------PLTTVGNLP-FRRVCKVLGADVTCGEMAMCTNLLQG-------- 380
YL PL V L + K+LG T GE+ + L+G
Sbjct: 230 -------YLLSIPISCPLIGVIQLAHYVVTAKLLG--FTPGELR---SYLKGATGHSQGL 277
Query: 381 -------QASEWALLRRHSS---EDLF--GVQICGAYPDTLARTVELIDQQCTVDFIDIN 428
+ W LF GV+ AYP+T ++ + D ++ N
Sbjct: 278 VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNT---SLPPSILE---DSLENN 331
Query: 429 MGCPIDIVVNKGAGSCLLTKPM-RMKGI--------IEATSGTV--DKPITIKVRTGYFE 477
G P S PM + + + T+ + K + I + G
Sbjct: 332 EGVP----------S-----PMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGA-- 374
Query: 478 GKNRI-----DSLIADIGTW--GASAVTVHGRTRQ---QRYSKLA-DW-----------D 515
KN + SL + A A + ++R +R KL
Sbjct: 375 -KNLVVSGPPQSLYG-LNLTLRKAKAPSGLDQSRIPFSER--KLKFSNRFLPVASPFHSH 430
Query: 516 YIYQCARKASDDLQ---VLGNGD-----IYSYLDWNKHKSDCPELASCMIARGALIKPWI 567
+ + + DL V N +Y D SD L+ + R I I
Sbjct: 431 LLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDG----SDLRVLSGSISER---IVDCI 483
Query: 568 FTEIKEQRHWD-ITSGERLNIMKDFARFGLEHWGS------DKKGVETTRHFLLEWLSYT 620
W+ T + +I+ DF G G D GV
Sbjct: 484 IR---LPVKWETTTQFKATHIL-DFGPGGASGLGVLTHRNKDGTGV-------------- 525
Query: 621 CRYIPVGLLDVIP 633
R I G LD+ P
Sbjct: 526 -RVIVAGTLDINP 537
>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1
Length = 98
Score = 39.3 bits (91), Expect = 4e-04
Identities = 10/47 (21%), Positives = 13/47 (27%), Gaps = 12/47 (25%)
Query: 115 SCPYKDKCRFSHDLDGFKAQKPDDLEGECPFLSSEGPCPYGLACRFS 161
C + C + H C + G C G C FS
Sbjct: 23 FCARAENCPYMHGDF------------PCKLYHTTGNCINGDDCMFS 57
Score = 28.5 bits (63), Expect = 2.1
Identities = 7/13 (53%), Positives = 8/13 (61%)
Query: 115 SCPYKDKCRFSHD 127
+C D C FSHD
Sbjct: 47 NCINGDDCMFSHD 59
>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit;
CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 77
Score = 32.9 bits (75), Expect = 0.042
Identities = 15/47 (31%), Positives = 17/47 (36%), Gaps = 8/47 (17%)
Query: 115 SCPYKDKCRFSHDLDGFKAQKPDDLEGECPFLSSEGPCPYGLACRFS 161
C D+C F H+ D K EC F S G C C F
Sbjct: 20 LCKKGDQCEFLHEYDMTKMP-------ECYFYSKFGEC-SNKECPFL 58
>1ep3_A Dihydroorotate dehydrogenase B (PYRD subunit); heterotetramer,
alpha-beta barrel, beta sandwich, FAD domain alpha/beta
NADP domain; HET: FMN FAD; 2.10A {Lactococcus lactis}
SCOP: c.1.4.1 PDB: 1ep2_A* 1ep1_A*
Length = 311
Score = 35.6 bits (83), Expect = 0.045
Identities = 17/84 (20%), Positives = 28/84 (33%), Gaps = 6/84 (7%)
Query: 388 LRRHSSEDLFGVQICGAYPDTLARTVELIDQQCTVDFIDINMGCPIDIVVN-KGAGSCLL 446
L + E + G+ I V I++N+ CP N K G
Sbjct: 92 LNENFPELPIIANVAGSEEADYVAVCAKIGDAANVKAIELNISCP-----NVKHGGQAFG 146
Query: 447 TKPMRMKGIIEATSGTVDKPITIK 470
T P +++A P+ +K
Sbjct: 147 TDPEVAAALVKACKAVSKVPLYVK 170
>2rhk_C Cleavage and polyadenylation specificity factor subunit 4;
influenza A, nonstructural protein, viral protein: HOST
complex, Zn finger; 1.95A {Homo sapiens}
Length = 72
Score = 31.7 bits (72), Expect = 0.087
Identities = 15/47 (31%), Positives = 17/47 (36%), Gaps = 8/47 (17%)
Query: 115 SCPYKDKCRFSHDLDGFKAQKPDDLEGECPFLSSEGPCPYGLACRFS 161
C D+C F H+ D K EC F S G C C F
Sbjct: 26 LCKKGDQCEFLHEYDMTKMS-------ECYFYSKFGECS-NKECPFL 64
>1jub_A Dihydroorotate dehydrogenase A; homodimer, alpha-beta barrel,
flavoprotein, mutant enzyme, oxidoreductase; HET: FMN;
1.40A {Lactococcus lactis} SCOP: c.1.4.1 PDB: 1ovd_A*
1jue_A* 1dor_A* 2bsl_A* 2bx7_A* 2dor_A* 1jqv_A* 1jrb_A*
1jrc_A* 1jqx_A*
Length = 311
Score = 34.1 bits (79), Expect = 0.14
Identities = 12/88 (13%), Positives = 28/88 (31%), Gaps = 5/88 (5%)
Query: 384 EWALLRRHSSEDLFGVQICGAYPDTLARTVELIDQQCTVDFIDINMGCPIDIVVNKGAGS 443
+ ++ E I G ++ I + ++N+ CP N
Sbjct: 83 VLKNQKENAQEGPIFFSIAGMSAAENIAMLKKIQESDFSGITELNLSCP-----NVPGEP 137
Query: 444 CLLTKPMRMKGIIEATSGTVDKPITIKV 471
L + +++ KP+ +K+
Sbjct: 138 QLAYDFEATEKLLKEVFTFFTKPLGVKL 165
>1xdi_A RV3303C-LPDA; reductase, FAD, NAD, NADP, unkno function; HET: FAD;
2.81A {Mycobacterium tuberculosis} SCOP: c.3.1.5
d.87.1.1
Length = 499
Score = 34.1 bits (79), Expect = 0.16
Identities = 7/60 (11%), Positives = 19/60 (31%), Gaps = 1/60 (1%)
Query: 178 RKSSEVNGLNKDVQKLLWKNKMKFPKADAKLKSLGLLGPAKSKMKVMEDKEQEGVVDSNN 237
R + + D+ L ++ +L G A+ ++K +++
Sbjct: 89 RVKTLAAAQSADITAQLLSMGVQVIAGRGELIDST-PGLARHRIKATAADGSTSEHEADV 147
>3oix_A Putative dihydroorotate dehydrogenase; dihydrooro oxidase; TIM
barrel, oxidoreductase; HET: MLY FMN; 2.40A
{Streptococcus mutans}
Length = 345
Score = 33.7 bits (77), Expect = 0.18
Identities = 17/173 (9%), Positives = 49/173 (28%), Gaps = 24/173 (13%)
Query: 388 LRRHSSEDLFGVQICGAYPDTLARTVELIDQQCTVDFIDINMGCPIDIVVNKGAGSCLLT 447
L++ + + G P+ + +++ +++N+ CP N +
Sbjct: 122 LQKQPDSKNHFLSLVGMSPEETHTILXMVEASKYQGLVELNLSCP-----NVPGXPQIAY 176
Query: 448 KPMRMKGIIEATSGTVDKPITIKV----------RTGYFEGKNRIDSLIADIGTWGASAV 497
I+ KP+ IK+ + + + +
Sbjct: 177 DFETTDQILSEVFTYFTKPLGIKLPPYFDIVHFDQAAAIFNXYPLTFVNCINSIGNGLVI 236
Query: 498 TVHGRTRQQRYS---------KLADWDYIYQCARKASDDLQVLGNGDIYSYLD 541
+ K ++ ++ + +Q++G G + + D
Sbjct: 237 EDETVVIXPKNGFGGIGGDYVKPTALANVHAFYKRLNPSIQIIGTGGVXTGRD 289
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 29.2 bits (65), Expect = 3.0
Identities = 12/53 (22%), Positives = 16/53 (30%), Gaps = 10/53 (18%)
Query: 252 DSVDESECSPCVPEENNIVNDRPLKKAKSENV-ENCCSVEGDNGVSVLEEDTR 303
+ C C IV ++ + V C V D V DTR
Sbjct: 17 NLNIVLTCPECKVYPPKIVER----FSEGDVVCALCGLVLSDKLV-----DTR 60
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.4 bits (62), Expect = 4.4
Identities = 7/29 (24%), Positives = 10/29 (34%), Gaps = 11/29 (37%)
Query: 92 ERQQEKKSASHL---CPEVAKSGDVSSCP 117
E+Q KK + L + S P
Sbjct: 18 EKQALKKLQASLKLYADD--------SAP 38
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 29.1 bits (66), Expect = 5.2
Identities = 11/51 (21%), Positives = 18/51 (35%), Gaps = 17/51 (33%)
Query: 544 KHKSDCPELASCMIARG---ALIKPWIFTEIKEQRHWDITSGERLNIMKDF 591
K ++ E+A M A G A + ++ +R IM F
Sbjct: 367 KDTAE--EIARRMTADGHTVACL------------TGNLEGAQRDAIMDSF 403
>3c8j_A Natural killer cell receptor LY49C; MHC, virus, immune system;
2.60A {Mus musculus} SCOP: d.169.1.1 PDB: 3c8k_D 1p4l_D
1ja3_A 1p1z_D
Length = 203
Score = 28.3 bits (63), Expect = 5.8
Identities = 13/74 (17%), Positives = 19/74 (25%), Gaps = 10/74 (13%)
Query: 60 QNDTVKYTNERSSQQHSSTLVKEKKSKRQLKRERQQEKKSASHLCPEVAKSGDVSSCP-- 117
Q E S ++ +K E Q + S + S D
Sbjct: 28 QRA--FNLKEEMLTNKSIDCRPSNETLEYIKGE--QHDRWDSKTKTVLDSSRDTGRGVKY 83
Query: 118 ---YKDKC-RFSHD 127
Y KC F +
Sbjct: 84 WFCYSTKCYYFIMN 97
>3urh_A Dihydrolipoyl dehydrogenase; PSI-biology, structural genomics,
protein structure initiati YORK structural genomics
research consortium; HET: FAD; 1.90A {Sinorhizobium
meliloti}
Length = 491
Score = 29.0 bits (66), Expect = 6.2
Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 7/60 (11%)
Query: 178 RKSSEVNGLNKDVQKLLWKNKMKFPKADAKLKSLGLLGPAKSKMKVMEDKEQEGVVDSNN 237
K + V V L KNK+ + K+ + K+ V +K +E V+++ N
Sbjct: 109 HKDATVKSNVDGVSFLFKKNKIDGFQGTGKVLG-------QGKVSVTNEKGEEQVLEAKN 161
>1mv3_A MYC box dependent interacting protein 1; tumor suppressor,
endocytosis/exocytosis complex; NMR {Homo sapiens} SCOP:
b.34.2.1
Length = 213
Score = 28.5 bits (62), Expect = 6.7
Identities = 17/103 (16%), Positives = 32/103 (31%)
Query: 15 PADSPPPQPNSTGVPVHNLTPEELVAKAIAPVKKQFLRPPPTRANQNDTVKYTNERSSQQ 74
PA +P + N P TP + K+ + ++K PPP + + VK S +
Sbjct: 4 PAATPEIRVNHEPEPAGGATPGATLPKSPSQLRKGPPVPPPPKHTPSKEVKQEQILSLFE 63
Query: 75 HSSTLVKEKKSKRQLKRERQQEKKSASHLCPEVAKSGDVSSCP 117
+ + Q + + + S
Sbjct: 64 DTFVPEISVTTPSQPAEASEVAGGTQPAAGAQEPGETAASEAA 106
>1fxo_A Glucose-1-phosphate thymidylyltransferase; rhamnose,
nucleotidyltransferase, pyrophosphorylase, allostery;
HET: TMP; 1.66A {Pseudomonas aeruginosa} SCOP: c.68.1.6
PDB: 1fzw_A 1g0r_A* 1g1l_A* 1g23_A* 1g2v_A* 1g3l_A*
1h5r_A* 1h5s_C* 1h5t_A* 1h5s_D* 1h5s_A* 1h5r_B* 1h5s_B*
1h5t_B* 1iim_A* 1iin_A* 3pkp_A* 3pkq_A* 1mp5_A* 1mp3_A*
...
Length = 293
Score = 28.2 bits (64), Expect = 8.0
Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 450 MRMKGIIEAT-SGTVDKPITIKV 471
M+ KGII A SGT P T+ +
Sbjct: 1 MKRKGIILAGGSGTRLHPATLAI 23
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
0.315 0.132 0.401
Gapped
Lambda K H
0.267 0.0811 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 10,507,032
Number of extensions: 637369
Number of successful extensions: 1251
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1237
Number of HSP's successfully gapped: 36
Length of query: 693
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 593
Effective length of database: 3,909,693
Effective search space: 2318447949
Effective search space used: 2318447949
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 (21.6 bits)
S2: 61 (27.1 bits)