RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2608
(321 letters)
>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo
sapiens}
Length = 367
Score = 148 bits (376), Expect = 3e-42
Identities = 53/171 (30%), Positives = 83/171 (48%), Gaps = 21/171 (12%)
Query: 134 EKVFEEHETCIASKREQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIY 193
+K + ++++ + L C+E FT E LGE++ +YCP CK HQ A+KK +++
Sbjct: 191 KKDRVMEGPMLQPQKKKKTTVALRDCIELFTTMETLGEHDPWYCPNCKKHQQATKKFDLW 250
Query: 194 RLPPVLIVL----RNTTVQSHRLTR----------------GHDPFDLKYSLYAIVCHSG 233
LP +L+V +L Y L A+ H G
Sbjct: 251 SLPKILVVHLKRFSYNRYWRDKLDTVVEFPIRGLNMSEFVCNLSARPYVYDLIAVSNHYG 310
Query: 234 ILGGGHYVSYALNP-NGKWYAYNDSSCRQVSSGEMDTSCAYMLFYERKDLD 283
+G GHY +YA N NGKWY ++DS+ S ++ T AY+LFY+R+D +
Sbjct: 311 AMGVGHYTAYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFYQRRDDE 361
>3nhe_A Ubiquitin carboxyl-terminal hydrolase 2; cysteine protease,
substrate ENZY complex, hydrolase-protein binding
complex; HET: CME; 1.26A {Homo sapiens} PDB: 2hd5_A
2ibi_A
Length = 348
Score = 147 bits (373), Expect = 6e-42
Identities = 49/143 (34%), Positives = 70/143 (48%), Gaps = 20/143 (13%)
Query: 159 CLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIVL--R-----------NT 205
C+ FTKE+ L +EK C +C+ + KK I R P +L++ R T
Sbjct: 201 CMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTT 260
Query: 206 TVQ------SHRLTRGHDPFDLKYSLYAIVCHSGILGGGHYVSYALNP-NGKWYAYNDSS 258
V R + Y+LYA+ HSG GGHY +Y +P G+W+ +NDSS
Sbjct: 261 FVNFPLRDLDLREFASENTNHAVYNLYAVSNHSGTTMGGHYTAYCRSPGTGEWHTFNDSS 320
Query: 259 CRQVSSGEMDTSCAYMLFYERKD 281
+SS ++ TS AY+LFYE
Sbjct: 321 VTPMSSSQVRTSDAYLLFYELAS 343
>3mhs_A Ubiquitin carboxyl-terminal hydrolase 8; multi-protein complex,
hydrolase-transcription regulator-Pro binding complex,
acetylation, cytoplasm; 1.89A {Saccharomyces cerevisiae}
PDB: 3mhh_A 3m99_A
Length = 476
Score = 140 bits (354), Expect = 3e-38
Identities = 43/158 (27%), Positives = 73/158 (46%), Gaps = 30/158 (18%)
Query: 155 NLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV------------- 201
L CL+SF K+E L ++ Y+C +C + Q A K+L I++LP VL++
Sbjct: 320 KLYECLDSFHKKEQL-KDFNYHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSN 378
Query: 202 --------------LRNTTVQSHRLTRGHD--PFDLKYSLYAIVCHSGILGGGHYVSYAL 245
++N + + D+ Y L IV H G + GHY+++
Sbjct: 379 RKLDDFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVNEGHYIAFCK 438
Query: 246 NPNGKWYAYNDSSCRQVSSGEMDTSCAYMLFYERKDLD 283
G+W+ +NDS +S E+ AY+LFY + ++
Sbjct: 439 ISGGQWFKFNDSMVSSISQEEVLKEQAYLLFYTIRQVN 476
>3i3t_A Ubiquitin carboxyl-terminal hydrolase 21; hydrolase, structural
genomics consortium, SGC, activator, alternative
splicing, chromatin regulator, nucleus, polymorphism,
protease; 2.59A {Homo sapiens} PDB: 2y5b_A 3mtn_A
Length = 355
Score = 137 bits (345), Expect = 8e-38
Identities = 44/157 (28%), Positives = 65/157 (41%), Gaps = 20/157 (12%)
Query: 144 IASKREQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIVL- 202
I K ++L C FTKEE L C +C+ ++KKL + R P +L++
Sbjct: 196 IPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRSTKKLTVQRFPRILVLHL 255
Query: 203 ------------RNTTVQ--SHRLTRG----HDPFDLKYSLYAIVCHSGILGGGHYVSYA 244
+ V RL+ G Y LYA+ HSG + GHY +
Sbjct: 256 NRFSASRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPVYQLYALCNHSGSVHYGHYTALC 315
Query: 245 LNPNGKWYAYNDSSCRQVSSGEMDTSCAYMLFYERKD 281
W+ YNDS VS ++ +S Y+LFY+
Sbjct: 316 RC-QTGWHVYNDSRVSPVSENQVASSEGYVLFYQLMQ 351
>2gfo_A Ubiquitin carboxyl-terminal hydrolase 8; protease, thiol protease,
UBL conjugation pathway deubiquitinating enzyme, DUB,
zinc ribbon; 2.00A {Homo sapiens} SCOP: d.3.1.9 PDB:
3n3k_A
Length = 396
Score = 137 bits (346), Expect = 1e-37
Identities = 47/153 (30%), Positives = 74/153 (48%), Gaps = 23/153 (15%)
Query: 149 EQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIVL------ 202
T L CL F+KEE L +N ++YC C+ + + KK+EI++LPPVL+V
Sbjct: 243 ASTSKCTLQDCLRLFSKEEKLTDNNRFYCSHCRARRDSLKKIEIWKLPPVLLVHLKRFSY 302
Query: 203 -------RNTTVQ--------SHRLTRGHDPFDLKYSLYAIVCHSGILGGGHYVSYALNP 247
T+V S + + KY+L+++ H G L GGHY +Y N
Sbjct: 303 DGRWKQKLQTSVDFPLENLDLSQYVIGPKNNL-KKYNLFSVSNHYGGLDGGHYTAYCKNA 361
Query: 248 -NGKWYAYNDSSCRQVSSGEMDTSCAYMLFYER 279
+W+ ++D +S + +S AY+LFY
Sbjct: 362 ARQRWFKFDDHEVSDISVSSVKSSAAYILFYTS 394
>1nb8_A Ubiquitin carboxyl-terminal hydrolase 7; UBP, deubiquitination,
hausp, P53 binding; 2.30A {Homo sapiens} SCOP: d.3.1.9
PDB: 1nbf_A
Length = 353
Score = 100 bits (251), Expect = 2e-24
Identities = 43/199 (21%), Positives = 71/199 (35%), Gaps = 42/199 (21%)
Query: 155 NLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV--LR--------- 203
N+ + E L + KY + + A K ++ LPPVL + +R
Sbjct: 152 NIFESFVDYVAVEQLDGDNKYDAGEHGLQE-AEKGVKFLTLPPVLHLQLMRFMYDPQTDQ 210
Query: 204 ----NTTVQ-------SHRLTRGHDPFDLKYSLYAIVCHSGILGGGHYVSYALNP-NGKW 251
N + L + Y L+A++ HSG GGHYV Y +GKW
Sbjct: 211 NIKINDRFEFPEQLPLDEFLQKTDPKDPANYILHAVLVHSGDNHGGHYVVYLNPKGDGKW 270
Query: 252 YAYNDSSCRQVSSGEMDTSC---------------AYMLFYERKDLDLGAYLPDVSEREM 296
++D + + E AYML Y R+ L L V++ ++
Sbjct: 271 CKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRES-KLSEVLQAVTDHDI 329
Query: 297 TD--TKEIDEDYDENEMKK 313
+ + E+ K+
Sbjct: 330 PQQLVERLQEEKRIEAQKR 348
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 100 bits (249), Expect = 1e-23
Identities = 43/199 (21%), Positives = 71/199 (35%), Gaps = 42/199 (21%)
Query: 155 NLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV--LR--------- 203
N+ + E L + KY + + A K ++ LPPVL + +R
Sbjct: 321 NIFESFVDYVAVEQLDGDNKYDAGEHGLQE-AEKGVKFLTLPPVLHLQLMRFMYDPQTDQ 379
Query: 204 ----NTTVQ-------SHRLTRGHDPFDLKYSLYAIVCHSGILGGGHYVSYALNP-NGKW 251
N + L + Y L+A++ HSG GGHYV Y +GKW
Sbjct: 380 NIKINDRFEFPEQLPLDEFLQKTDPKDPANYILHAVLVHSGDNHGGHYVVYLNPKGDGKW 439
Query: 252 YAYNDSSCRQVSSGEMDTSC---------------AYMLFYERKDLDLGAYLPDVSEREM 296
++D + + E AYML Y R+ L L V++ ++
Sbjct: 440 CKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRES-KLSEVLQAVTDHDI 498
Query: 297 TD--TKEIDEDYDENEMKK 313
+ + E+ K+
Sbjct: 499 PQQLVERLQEEKRIEAQKR 517
>2ayn_A Ubiquitin carboxyl-terminal hydrolase 14; deubiquitinating enzymes,
DUB, USP14, proteasome, enzyme mechanism; 3.20A {Homo
sapiens} SCOP: d.3.1.9 PDB: 2ayo_A
Length = 404
Score = 80.8 bits (199), Expect = 3e-17
Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 8/71 (11%)
Query: 222 KYSLYAIVCHSG-ILGGGHYVSYALNPNGKWYAYNDSSCRQVS-------SGEMDTSCAY 273
Y L A++ H G GHYVS+ +W ++D V+ SG D AY
Sbjct: 327 YYDLQAVLTHQGRSSSSGHYVSWVKRKQDEWIKFDDDKVSIVTPEDILRLSGGGDWHIAY 386
Query: 274 MLFYERKDLDL 284
+L Y + +++
Sbjct: 387 VLLYGPRRVEI 397
Score = 49.6 bits (118), Expect = 6e-07
Identities = 12/46 (26%), Positives = 18/46 (39%), Gaps = 5/46 (10%)
Query: 156 LAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV 201
L L+ +EE P + + L K +I RLP L +
Sbjct: 196 LFTGLKLRLQEEIT-----KQSPTLQRNALYIKSSKISRLPAYLTI 236
>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol
protease, UBL conjugation pathway, metal-binding,
zinc-finger,structural genomics; 2.80A {Homo sapiens}
Length = 854
Score = 62.6 bits (151), Expect = 5e-11
Identities = 21/77 (27%), Positives = 33/77 (42%), Gaps = 4/77 (5%)
Query: 204 NTTVQSHRLTRGHDPFDLKYSLYAIVCHSGI-LGGGHYVSYALNPNGKWYAYNDSSCRQV 262
++ +S + KY L+A + H G GHYV + G+W YND
Sbjct: 778 DSISESVPVGPKVRDGPGKYQLFAFISHMGTSTMCGHYVCHIKK-EGRWVIYNDQKV--C 834
Query: 263 SSGEMDTSCAYMLFYER 279
+S + Y+ FY+R
Sbjct: 835 ASEKPPKDLGYIYFYQR 851
Score = 58.4 bits (140), Expect = 1e-09
Identities = 12/68 (17%), Positives = 26/68 (38%), Gaps = 3/68 (4%)
Query: 134 EKVFEEHETCIASKREQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIY 193
EK + E +A + + CLE++ E + + ++ + +A K
Sbjct: 526 EKKRQAEEEKMALPELVRAQVPFSSCLEAYGAPEQV---DDFWSTALQAKSVAVKTTRFA 582
Query: 194 RLPPVLIV 201
P L++
Sbjct: 583 SFPDYLVI 590
>1vjv_A Ubiquitin carboxyl-terminal hydrolase 6; YFR010W, structural
genomics, JCSG, PSI, protein structure initiative; HET:
MSE; 1.74A {Saccharomyces cerevisiae} SCOP: d.3.1.9
Length = 415
Score = 54.1 bits (129), Expect = 2e-08
Identities = 35/212 (16%), Positives = 61/212 (28%), Gaps = 32/212 (15%)
Query: 103 CDDTEFNYSSTTHLAIDWDPTALHLRYQSSLEKVFEEHETCIASKREQTEPINLA-YCLE 161
D T N + I P L ++Y K ++ I K +++A
Sbjct: 204 SDLTGANSIYSVEKKISRLPKFLTVQYVRFFWKRSTNKKSKILRKVVFPFQLDVADMLTP 263
Query: 162 SFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVL---------------------I 200
+ E+ +E K K + K +
Sbjct: 264 EYAAEKVKVRDELRKVEKEKNEKEREIKRRKFDPSSSENVMTPREQYETQVALNESEKDQ 323
Query: 201 VLRNTTVQSHRLTRGHDPFDLKYSLYAIVCHSGI-LGGGHYVSYALNP--NGKWYAYNDS 257
L + Y+L ++ H G GHY ++ + KWY +ND
Sbjct: 324 WLEEYKKHFPPNLEKGENPSCVYNLIGVITHQGANSESGHYQAFIRDELDENKWYKFNDD 383
Query: 258 SCRQVS-------SGEMDTSCAYMLFYERKDL 282
V +G ++ A +L Y+ L
Sbjct: 384 KVSVVEKEKIESLAGGGESDSALILMYKGFGL 415
>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 = 52.4 bits (125), Expect = 1e-07
Identities = 55/369 (14%), Positives = 100/369 (27%), Gaps = 144/369 (39%)
Query: 7 YF--LSA--HKYRPILFGIPVIVPCSDT--------TTQQDLYQAV-----WLQVARLVT 49
YF L Y ++ +I ++T + ++ WL+
Sbjct: 169 YFEELRDLYQTYHVLV--GDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE-----N 221
Query: 50 PLPPLETSPPNHAMDCDDSLGYEYPFVLKAITPDGMQCSLCSWTKFCLGCK-LACDDTEF 108
P +P + P I + + + K L E
Sbjct: 222 P----SNTPDKDYLLS-------IPISCPLIG-------VIQLAHYVVTAKLLGFTPGEL 263
Query: 109 N---YSSTTH-------LAI----DWDPTALHLRYQSSLEKVF----EEHETCIASKREQ 150
+T H +AI W+ + + + ++ +F +E A
Sbjct: 264 RSYLKGATGHSQGLVTAVAIAETDSWE--SFFVSVRKAITVLFFIGVRCYE---AYPNTS 318
Query: 151 TEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQLA-----SKKLEIY------RLPP-- 197
P L LE+ E P + L+ ++++ Y LP
Sbjct: 319 LPPSILEDSLEN-------NEGV----P---SPMLSISNLTQEQVQDYVNKTNSHLPAGK 364
Query: 198 -VLIVLRNTTVQSHRLTRGHDPFDLKYSLYAIVCHSGILGGGHYVS-YALNPNGKWYAYN 255
V I L N G +V G S Y LN
Sbjct: 365 QVEISLVN----------GAKNL--------VVS-------GPPQSLYGLN--------- 390
Query: 256 DSSCRQVS-SGEMDTSCAYMLFYERKD------LDLGA-----YLPDVSEREMTDTKEID 303
+ R+ +D S F ERK L + + L S+ D + +
Sbjct: 391 -LTLRKAKAPSGLDQSRI--PFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNN 447
Query: 304 EDYDENEMK 312
++ +++
Sbjct: 448 VSFNAKDIQ 456
Score = 37.0 bits (85), Expect = 0.010
Identities = 38/255 (14%), Positives = 68/255 (26%), Gaps = 111/255 (43%)
Query: 120 WDPTALHLR--YQSSLEKVFEE-------HETCIASK--REQTEPINLAYCLESFTKEEH 168
W+ H + Y S+ + H K RE + ++ K E
Sbjct: 1646 WNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEK 1705
Query: 169 LGE--NEK-----YYCPKC---KTH--Q----LASKKLEIYRLPPVLIVLR-NTTVQSHR 211
+ + NE + K T Q L + L+ + +
Sbjct: 1706 IFKEINEHSTSYTFRSEKGLLSATQFTQPALTLME--KAAFE------DLKSKGLIPADA 1757
Query: 212 LTRGHDPFDLKYSL--Y-AIVCHSGIL-------------------------GGGHYVSY 243
GH SL Y A+ + ++ G +Y
Sbjct: 1758 TFAGH-------SLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMI 1810
Query: 244 ALNP------------------------------NGKWYAYNDSSCRQ-VSSGEM---DT 269
A+NP N YN +Q V++G++ DT
Sbjct: 1811 AINPGRVAASFSQEALQYVVERVGKRTGWLVEIVN-----YN-VENQQYVAAGDLRALDT 1864
Query: 270 SCAYMLFYERKDLDL 284
+ F + + +D+
Sbjct: 1865 VTNVLNFIKLQKIDI 1879
>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 = 37.1 bits (85), Expect = 0.007
Identities = 38/273 (13%), Positives = 83/273 (30%), Gaps = 85/273 (31%)
Query: 12 HKYRPILFGIPVIVP-------CSDTTTQQDLYQAVW---------------LQVARLVT 49
++Y+ IL V C D QD+ +++ RL
Sbjct: 16 YQYKDIL---SVFEDAFVDNFDCKDV---QDMPKSILSKEEIDHIIMSKDAVSGTLRLFW 69
Query: 50 PLPPLETSPPNHAMD-CDDSLGYEYPFVLKAITPDGMQCSLCSWTKFCLGCKLACDDTEF 108
L + ++ L Y F++ I + Q S+ + + D +
Sbjct: 70 TL---LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM-MTRMY-----IEQRDRLY 120
Query: 109 NYSSTTHLAIDWDPT--ALHLRYQSSLEKVFEE-----H------------ETCIASKRE 149
N + ++ + +L+ + +L ++ + C++ K +
Sbjct: 121 N---DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177
Query: 150 QTEP-----INLAYC------------LESFTKEEHLGENEKYYCPKCKTHQLASKKLEI 192
+NL C L ++ K + H + ++ +
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL 237
Query: 193 YRLPP---VLIVLRNTTVQSHRLTRGHDPFDLK 222
+ P L+VL N VQ+ + + F+L
Sbjct: 238 LKSKPYENCLLVLLN--VQNAKAW---NAFNLS 265
Score = 35.2 bits (80), Expect = 0.026
Identities = 44/342 (12%), Positives = 90/342 (26%), Gaps = 111/342 (32%)
Query: 3 RQTAYFLSAHKYRPILFGIPVIVPCSDTTTQQDLYQ--AVWLQVARLVTPLPP--LETSP 58
+Q FLSA I + S T T ++ +L LP L T+P
Sbjct: 275 KQVTDFLSAATTTHI-----SLDHHSMTLTPDEVKSLLLKYLDCR--PQDLPREVLTTNP 327
Query: 59 PNHAM------------------DCDD-------SLGYEYPFVLK------AITPDGMQC 87
++ +CD SL P + ++ P
Sbjct: 328 RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI 387
Query: 88 S---LCS-W------------TKFCLGCKLACDDTEFNYSSTTHLAIDWDPTALHLRYQS 131
L W K + E S +++L +
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS--IP--------SIYLELKV 437
Query: 132 SLEKVFEEHETCIASKREQTEPINLAYCLESFTKE-------EHLGENEKYYCPKCKTHQ 184
LE + H + + I + + H+G ++ + +
Sbjct: 438 KLENEYALHRSIVDHYN-----IPKTFDSDDLIPPYLDQYFYSHIG----HHLKNIEHPE 488
Query: 185 LAS-------------KKLEIYRLPPVLIVLRNTTVQSHRLTRGH----DPFDLKYSLYA 227
+ +K+ T+Q + + + DP + + A
Sbjct: 489 RMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERL-VNA 547
Query: 228 IV-----CHSGILGGGH--YVSYALNPNGKWYAYNDSSCRQV 262
I+ ++ + + AL + + ++ +QV
Sbjct: 548 ILDFLPKIEENLICSKYTDLLRIALMAEDEAI-FEEAH-KQV 587
>2vhf_A Ubiquitin carboxyl-terminal hydrolase CYLD; cytokine signalling,
linkage specificity, deubiquitinating enzyme, Lys63-
linked, anti-oncogene; 2.8A {Homo sapiens}
Length = 374
Score = 34.0 bits (77), Expect = 0.053
Identities = 19/106 (17%), Positives = 36/106 (33%), Gaps = 10/106 (9%)
Query: 158 YCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIVLRNTTVQSHRLTRGHD 217
C E + + K +C C T K ++ PV + + G
Sbjct: 216 ECRECYDDPDISAGKIKQFCKTCNTQVHLHPKRLNHKYNPVSL---PKDLPDWDWRHGCI 272
Query: 218 PFDLKYSLYAIVCHSGILGGGHYVSY--ALNPNGKWYAYNDSSCRQ 261
P L+A++C + HYV++ + W ++ + R
Sbjct: 273 PCQ-NMELFAVLC----IETSHYVAFVKYGKDDSAWLFFDSMADRD 313
>1q16_A Respiratory nitrate reductase 1 alpha chain; membrane protein,
electron-transfer, oxidoreductase; HET: FME MD1 HEM AGA
3PH; 1.90A {Escherichia coli} SCOP: b.52.2.2 c.81.1.1
PDB: 3ir7_A* 1y5i_A* 1siw_A* 1y4z_A* 1r27_A* 1y5l_A*
1y5n_A* 3ir6_A* 3ir5_A* 3egw_A*
Length = 1247
Score = 31.6 bits (71), Expect = 0.38
Identities = 13/72 (18%), Positives = 26/72 (36%), Gaps = 5/72 (6%)
Query: 14 YRPILFGIPVIVPCSDTTTQQDLY-QAVWLQVA--RLVTPLPPLETSPPNHAMDCDDSLG 70
Y + ++P + +Q LY W++ L+ PP++T + +
Sbjct: 1023 YNAGYTNVHELIPWRTLSGRQQLYQDHQWMRDFGESLLVYRPPIDTRSVKEVIGQKSNGN 1082
Query: 71 YEYPFVLKAITP 82
E +TP
Sbjct: 1083 QEKALNF--LTP 1092
>3f2v_A General stress protein 14; alpha-beta protein., structural
genomics, PSI-2, protein structure initiative; HET: FMN;
2.00A {Treponema denticola}
Length = 192
Score = 29.0 bits (65), Expect = 1.3
Identities = 11/60 (18%), Positives = 20/60 (33%)
Query: 2 LRQTAYFLSAHKYRPILFGIPVIVPCSDTTTQQDLYQAVWLQVARLVTPLPPLETSPPNH 61
TA + +A P F +Q++ ++ +A L LE +H
Sbjct: 133 FELTAKYCNADYRPPFTFHTIDSNAGYSEAARQEVERSARDYLAWLDALQQTLEHHHHHH 192
>2dgd_A 223AA long hypothetical arylmalonate decarboxylas; octamer,
alpha/beta structure, lyase; 2.90A {Sulfolobus tokodaii}
Length = 223
Score = 29.2 bits (64), Expect = 1.3
Identities = 17/148 (11%), Positives = 42/148 (28%), Gaps = 11/148 (7%)
Query: 23 VIVPCSDTTTQQDLYQAVWLQVARLVTPLPPLETSPPNHAMDCDDSLGYEYPFVLKAITP 82
VI+P ++ + DL++ V+ T + P + P + + + L +Y + L A
Sbjct: 10 VILPANNAGMEYDLWKMAPEGVSIHSTRMKPTKGCEPENVEEFEKEL--KYSYSLLAEVS 67
Query: 83 DGMQCSLCSWTKFCLGCKLACDDTEFNYSSTTHLAIDWDPTALHLRYQSSLEKV------ 136
D + ++ + + + + L + K
Sbjct: 68 DII-IYGRTYGTHKHAHVIKRVIKDVVIPEESVYELLKKLNVRKLWIGTPYIKERTLEEV 126
Query: 137 --FEEHETCIASKREQTEPINLAYCLES 162
+ I + +
Sbjct: 127 EWWRNKGFEIVGYDGLGKIRGIDISNTP 154
>1vq8_3 50S ribosomal protein L44E; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: g.41.8.3 PDB: 1jj2_2
1k73_4* 1k8a_4* 1k9m_4* 1kc8_4* 1kd1_4* 1kqs_2* 1m1k_4*
1m90_4* 1n8r_4* 1nji_4* 1q7y_4* 1q81_4* 1q82_4* 1q86_4*
1qvf_2 1qvg_2 1s72_3* 1vq4_3* 1vq5_3* ...
Length = 92
Score = 27.4 bits (61), Expect = 2.1
Identities = 8/21 (38%), Positives = 10/21 (47%), Gaps = 2/21 (9%)
Query: 174 KYYCPKCKTHQLASKKLEIYR 194
YCP C HQ ++E R
Sbjct: 8 NTYCPHCNEHQE--HEVEKVR 26
>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein
of testis, proliferation potential-related protein,
protein P2P-R; NMR {Homo sapiens}
Length = 74
Score = 27.0 bits (60), Expect = 2.3
Identities = 9/36 (25%), Positives = 18/36 (50%), Gaps = 3/36 (8%)
Query: 151 TEPINLAYCLESFTKE---EHLGENEKYYCPKCKTH 183
T+ + + C S+ E L E++++ CP C +
Sbjct: 26 TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 61
>4a18_C 60S ribosomal protein L36A; ribosome, eukaryotic initiation factor
6, EIF6, transla large ribosomal subunit, rRNA; 3.52A
{Tetrahymena thermophila} PDB: 4a19_C 4a1b_C 4a1d_C
Length = 109
Score = 27.6 bits (61), Expect = 2.6
Identities = 8/21 (38%), Positives = 11/21 (52%), Gaps = 2/21 (9%)
Query: 174 KYYCPKCKTHQLASKKLEIYR 194
K YC KC +H K+ Y+
Sbjct: 9 KTYCKKCNSHTN--HKVSQYK 27
>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing,
mRNA splicing; NMR {Homo sapiens}
Length = 92
Score = 26.6 bits (59), Expect = 3.8
Identities = 9/35 (25%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 151 TEPINLAYCLESFTKE---EHLGENEKYYCPKCKT 182
T+ + + C S+ E L E++++ CP C
Sbjct: 24 TDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 58
>1mhm_A Adometdc, samdc, S-adenosylmethionine decarboxylase; covalent
pyruvoyl group, lyase; 2.30A {Solanum tuberosum} SCOP:
d.156.1.1
Length = 288
Score = 27.3 bits (60), Expect = 7.4
Identities = 16/95 (16%), Positives = 34/95 (35%)
Query: 216 HDPFDLKYSLYAIVCHSGILGGGHYVSYALNPNGKWYAYNDSSCRQVSSGEMDTSCAYML 275
H F + ++ G + + + KW+ Y+ S+ S+ + T M
Sbjct: 58 HRHFSEEVAVLDGYFGKLAAGSKAVIMGSPDKTQKWHVYSASAGSVQSNDPVYTLEMCMT 117
Query: 276 FYERKDLDLGAYLPDVSEREMTDTKEIDEDYDENE 310
+R+ + + S MT I + ++E
Sbjct: 118 GLDREKASVFYKTEESSAAHMTVRSGIRKILPKSE 152
>2d8x_A Protein pinch; LIM domain, pinch protein, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 70
Score = 25.1 bits (55), Expect = 8.2
Identities = 6/32 (18%), Positives = 10/32 (31%)
Query: 157 AYCLESFTKEEHLGENEKYYCPKCKTHQLASK 188
C E + ++ C C + AS
Sbjct: 35 DLCQEVLADIGFVKNAGRHLCRPCHNREKASG 66
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
0.320 0.135 0.427
Gapped
Lambda K H
0.267 0.0577 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,948,820
Number of extensions: 279711
Number of successful extensions: 782
Number of sequences better than 10.0: 1
Number of HSP's gapped: 755
Number of HSP's successfully gapped: 45
Length of query: 321
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 227
Effective length of database: 4,077,219
Effective search space: 925528713
Effective search space used: 925528713
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 (21.8 bits)
S2: 57 (26.1 bits)