RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15062
(375 letters)
>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 = 298 bits (765), Expect = e-99
Identities = 122/384 (31%), Positives = 184/384 (47%), Gaps = 57/384 (14%)
Query: 2 SPGLNGIANAGNTCYINSVLQCLSNTPAFRNVLLNED--IPIHPDSKSQGQLVDALVNFM 59
+ GL G+ N GNTC++NS+LQCLSNT R+ L +H S + LV+ +
Sbjct: 6 AQGLAGLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLI 65
Query: 60 KMMWSSG-NLVLNTKAILLALRSYTKKFDGNQQQDAQEFLLYLLAALNEE-AKVVPDQYN 117
+ +W+S N V++ ++ Y +F G QQDAQEFL +LL L+ E +V +
Sbjct: 66 QTIWTSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKS 125
Query: 118 GSTYSNTSSKQVGSFRALHYWEKFQTTEASVFSDIFVGQLRSSVRCSNCKRTSTVYEIFW 177
+ + W K+ E S D+FVGQL+SS+ C++C STV++ FW
Sbjct: 126 NPENLDHLPDDEKGRQM---WRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFW 182
Query: 178 ELSLPVPPGGGTLYECQLRSSVRCSNCKRTSTVYEIFWELSLPVPPGGGTLYECLNKFFN 237
+LSLP+ TL +C+ F
Sbjct: 183 DLSLPIAKR-----------------------------------GYPEVTLMDCMRLFTK 207
Query: 238 GETLHN----TCQYCKKQSDLVKLYEIQRLPPVLILWFKRFS--SNFTQKVTSPIKFPRE 291
+ L TC C+ + +K + IQR P +L+L KRFS T K+T+ + FP
Sbjct: 208 EDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTTFVNFPLR 267
Query: 292 GLDMEYYISASGRRVESRYTYDLCAVSNHIGKTALYGHYTAYCRREGTGRWYLYDDTVVS 351
LD+ + S + Y+L AVSNH G T GHYTAYCR GTG W+ ++D+ V+
Sbjct: 268 DLDLREFASENTNH----AVYNLYAVSNHSGTTM-GGHYTAYCRSPGTGEWHTFNDSSVT 322
Query: 352 PVDAQTVESAEAEHGAYILVYQRR 375
P+ + V +++ AY+L Y+
Sbjct: 323 PMSSSQVRTSD----AYLLFYELA 342
>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo
sapiens}
Length = 367
Score = 288 bits (739), Expect = 1e-95
Identities = 115/386 (29%), Positives = 175/386 (45%), Gaps = 42/386 (10%)
Query: 1 MSPGLNGIANAGNTCYINSVLQCLSNTPAFRNVLLNE----DIPIHPDSKSQGQLVDALV 56
+ PGL G+ N GNTC++NS LQCLSNT + L + +I +G++ +A
Sbjct: 4 IQPGLCGLGNLGNTCFMNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGEIAEAYA 63
Query: 57 NFMKMMWSSGNLVLNTKAILLALRSYTKKFDGNQQQDAQEFLLYLLAALNEE-AKVVPDQ 115
+K MWS + + + + + +F G QQQD+QE L +LL L+E+ +V
Sbjct: 64 ELIKQMWSGRDAHVAPRMFKTQVGRFAPQFSGYQQQDSQELLAFLLDGLHEDLNRVKKKP 123
Query: 116 YNGSTYSNTSSKQVGSFRALHYWEKFQTTEASVFSDIFVGQLRSSVRCSNCKRTSTVYEI 175
Y +N V + A WE + SV D F G +S++ C C + S ++
Sbjct: 124 YLELKDANGRPDAVVAKEA---WENHRLRNDSVIVDTFHGLFKSTLVCPECAKVSVTFDP 180
Query: 176 FWELSLPVPPGGGTLYECQLRSSVRCSNCKRTSTVYEIFWELSLPVPPGGGTLYECLNKF 235
F L+LP+P + + L +C+ F
Sbjct: 181 FCYLTLPLPL----------------KKDRVMEGPMLQPQKKKKTTV----ALRDCIELF 220
Query: 236 FNGETLHN----TCQYCKKQSDLVKLYEIQRLPPVLILWFKRFSSN--FTQKVTSPIKFP 289
ETL C CKK K +++ LP +L++ KRFS N + K+ + ++FP
Sbjct: 221 TTMETLGEHDPWYCPNCKKHQQATKKFDLWSLPKILVVHLKRFSYNRYWRDKLDTVVEFP 280
Query: 290 REGLDMEYYISASGRRVESRYTYDLCAVSNHIGKTALYGHYTAYCRREGTGRWYLYDDTV 349
GL+M ++ Y YDL AVSNH G GHYTAY + + G+WY +DD+
Sbjct: 281 IRGLNMSEFVC---NLSARPYVYDLIAVSNHYGAMG-VGHYTAYAKNKLNGKWYYFDDSN 336
Query: 350 VSPVDAQTVESAEAEHGAYILVYQRR 375
VS + + AY+L YQRR
Sbjct: 337 VSLASEDQIVTKA----AYVLFYQRR 358
>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 = 278 bits (713), Expect = 3e-91
Identities = 112/385 (29%), Positives = 171/385 (44%), Gaps = 59/385 (15%)
Query: 2 SPGLNGIANAGNTCYINSVLQCLSNTPAFRNVLLNE----DIPIHPDSKSQGQLVDALVN 57
P L G+ N GNTCY+NS+LQCL N P + DI +G++ +
Sbjct: 59 GPALTGLRNLGNTCYMNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGI 118
Query: 58 FMKMMWSSGNLVLNTKAILLALRSYTKKFDGNQQQDAQEFLLYLLAALNEE-AKVVPDQY 116
MK +W+ ++ K + + +F G QQD+QE LL+L+ L+E+ K +
Sbjct: 119 IMKALWTGQYRYISPKDFKITIGKINDQFAGYSQQDSQELLLFLMDGLHEDLNKADNRKR 178
Query: 117 NGSTYSNTSSKQVGSFRALHYWEKFQTTEASVFSDIFVGQLRSSVRCSNCKRTSTVYEIF 176
++ + A W+K + S+ +F GQ +S+V+C C + S +E F
Sbjct: 179 YKEENNDHLDDFKAAEHA---WQKHKQLNESIIVALFQGQFKSTVQCLTCHKKSRTFEAF 235
Query: 177 WELSLPVPPGGGTLYECQLRSSVRCSNCKRTSTVYEIFWELSLPVPPGGGTLYECLNKFF 236
LSLP+ TL +CL F
Sbjct: 236 MYLSLPLASTSKC-------------------------------------TLQDCLRLFS 258
Query: 237 NGETLHN----TCQYCKKQSDLVKLYEIQRLPPVLILWFKRFS--SNFTQKVTSPIKFPR 290
E L + C +C+ + D +K EI +LPPVL++ KRFS + QK+ + + FP
Sbjct: 259 KEEKLTDNNRFYCSHCRARRDSLKKIEIWKLPPVLLVHLKRFSYDGRWKQKLQTSVDFPL 318
Query: 291 EGLDMEYYISASGRRVESRYTYDLCAVSNHIGKTALYGHYTAYCRREGTGRWYLYDDTVV 350
E LD+ Y+ + Y+L +VSNH G GHYTAYC+ RW+ +DD V
Sbjct: 319 ENLDLSQYVI---GPKNNLKKYNLFSVSNHYG-GLDGGHYTAYCKNAARQRWFKFDDHEV 374
Query: 351 SPVDAQTVESAEAEHGAYILVYQRR 375
S + +V+S+ AYIL Y
Sbjct: 375 SDISVSSVKSSA----AYILFYTSL 395
>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 = 261 bits (668), Expect = 4e-85
Identities = 113/398 (28%), Positives = 168/398 (42%), Gaps = 75/398 (18%)
Query: 4 GLNGIANAGNTCYINSVLQCLSNTPAFRN-VLLNEDIPIHPDSKSQGQLVDALVNFMKMM 62
G G+ N GNTC++N+VLQCLS+T R+ L + P +L +A + + +
Sbjct: 2 GHVGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQELTEAFADVIGAL 61
Query: 63 WSSGNL-VLNTKAILLALRSYTKKFDGNQQQDAQEFLLYLLAALNEE-----AKVVPDQY 116
W + +N + Y F G QQDAQEFL L+ L+ E + P
Sbjct: 62 WHPDSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLLMERLHLEINRRGRRAPPILA 121
Query: 117 NGSTYSNTSSKQVGSFR--------ALHYWEKFQTTEASVFSDIFVGQLRSSVRCSNCKR 168
NG S A W+++ E S D+FVGQL+S +
Sbjct: 122 NGPVPSPPRRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCL------- 174
Query: 169 TSTVYEIFWELSLPVPPGGGTLYECQLRSSVRCSNCKRTSTVYEIFWELSLPVPP----- 223
+C C ST +E+F +LSLP+P
Sbjct: 175 -------------------------------KCQACGYRSTTFEVFCDLSLPIPKKGFAG 203
Query: 224 GGGTLYECLNKFFNGETLHN----TCQYCKKQSDLVKLYEIQRLPPVLILWFKRFSS--N 277
G +L +C N F E L + C C++++ K +QR P +L+L RFS+
Sbjct: 204 GKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRSTKKLTVQRFPRILVLHLNRFSASRG 263
Query: 278 FTQKVTSPIKFPREGLDMEYYISASGRRVESRYTYDLCAVSNHIGKTALYGHYTAYCRRE 337
+K + + FP + L + + S Y L A+ NH G + YGHYTA CR +
Sbjct: 264 SIKKSSVGVDFPLQRLSLGDFASDK----AGSPVYQLYALCNHSG-SVHYGHYTALCRCQ 318
Query: 338 GTGRWYLYDDTVVSPVDAQTVESAEAEHGAYILVYQRR 375
W++Y+D+ VSPV V S+E Y+L YQ
Sbjct: 319 --TGWHVYNDSRVSPVSENQVASSE----GYVLFYQLM 350
>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 = 255 bits (653), Expect = 3e-81
Identities = 92/398 (23%), Positives = 151/398 (37%), Gaps = 88/398 (22%)
Query: 3 PGLNGIANAGNTCYINSVLQCLSNTPAFRNVLLNEDIPIHPDSK-SQGQLVDALVNFMKM 61
GL+G+ N G+TC+++S+LQCL + P F +++ + + AL +
Sbjct: 139 DGLSGLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHE 198
Query: 62 MWS------------SGNLVLNTKAILLALRSYTKKFDGNQQQDAQEFLLYLLAALNEEA 109
++ S N +L + G QQDA EF +++ +++
Sbjct: 199 LYGALNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQSY 258
Query: 110 KVVPDQYNGSTYSNTSSKQVGSFRALHYWEKFQTTEASVFSDIFVGQLRSSVRCSNCKRT 169
+ A + +F G L SS+ C C+
Sbjct: 259 VL------------------DLPNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQNN 300
Query: 170 STVYEIFWELSLPVPPGGGTLYECQLRSSVRCSNCKRTSTVYEIFWELSLPVPPGGGTLY 229
S T + F +LSL + LY
Sbjct: 301 S-------------------------------------KTTIDPFLDLSLDIK-DKKKLY 322
Query: 230 ECLNKFFNGETLHN---TCQYCKKQSDLVKLYEIQRLPPVLILWFKRFS---SNFTQKVT 283
ECL+ F E L + C C D +K I +LP VL+L KRF + +K+
Sbjct: 323 ECLDSFHKKEQLKDFNYHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRKLD 382
Query: 284 SPIKFPREGLDMEYYISASGRRVESR------YTYDLCAVSNHIGKTALYGHYTAYCRRE 337
I+FP L+M+ Y S + S Y+L + +H G T GHY A+C+
Sbjct: 383 DFIEFPTY-LNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKG-TVNEGHYIAFCKIS 440
Query: 338 GTGRWYLYDDTVVSPVDAQTVESAEAEHGAYILVYQRR 375
G G+W+ ++D++VS + + V + AY+L Y R
Sbjct: 441 G-GQWFKFNDSMVSSISQEEVLKEQ----AYLLFYTIR 473
>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 = 248 bits (633), Expect = 4e-79
Identities = 75/430 (17%), Positives = 136/430 (31%), Gaps = 113/430 (26%)
Query: 7 GIANAGNTCYINSVLQCLSNTPAFRNVLLNEDIPIHPDSK--SQGQLVDALVNFMKMMWS 64
G+ N GNTCY+N+ +QC+ + P ++ L + + S + AL + M
Sbjct: 16 GLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQYITAALRDLFDSMDK 75
Query: 65 SGNLVLNTKAILLALRSYTKKF------DGNQQQDAQEFLLYLLAALNEEAKVVPDQYNG 118
+ + + +L L +F QQDA E + ++ L ++ + + D
Sbjct: 76 TSS-SIPPIILLQFLHMAFPQFAEKGEQGQYLQQDANECWIQMMRVLQQKLEAIEDDSVK 134
Query: 119 STYSNTSSKQVGSFRALHYWEKFQTTEASVFSDIFVGQLRSSVRCSNCKRTSTVYEIFWE 178
T S+++ + + S+ F + ++++C+ + +
Sbjct: 135 ETDSSSA------------SAATPSKKKSLIDQFFGVEFETTMKCTESEEEEVTKGKENQ 182
Query: 179 LSLPVPPGGGTLYECQLRSSVRCSNCKRTSTVYEIFWELSLPVPPGGGTLYECLNKFFNG 238
L L L+ L
Sbjct: 183 LQLSCFINQEV------------------------------------KYLFTGLKLRLQE 206
Query: 239 ETLHNTCQYCKKQSDLVKLYEIQRLPPVLILWFKRFS----SNFTQKVTSPIKFPREGLD 294
E ++ + +K +I RLP L + RF + KV +KFP LD
Sbjct: 207 EITKQ-SPTLQRNALYIKSSKISRLPAYLTIQMVRFFYKEKESVNAKVLKDVKFPLM-LD 264
Query: 295 MEYYISASGRRVESR--------------------------------------------- 309
M + +
Sbjct: 265 MYELCTPELQEKMVSFRSKFKDLEDKKVNQQPNTSDKKSSPQKEVKYEPFSFADDIGSNN 324
Query: 310 -YTYDLCAVSNHIGKTALYGHYTAYCRREGTGRWYLYDDTVVSPVDAQTVESAEAE---H 365
YDL AV H G+++ GHY ++ +R+ W +DD VS V + + H
Sbjct: 325 CGYYDLQAVLTHQGRSSSSGHYVSWVKRKQ-DEWIKFDDDKVSIVTPEDILRLSGGGDWH 383
Query: 366 GAYILVYQRR 375
AY+L+Y R
Sbjct: 384 IAYVLLYGPR 393
>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 = 202 bits (516), Expect = 2e-62
Identities = 78/392 (19%), Positives = 119/392 (30%), Gaps = 102/392 (26%)
Query: 4 GLNGIANAGNTCYINSVLQCLSNTPAFRNVLLNEDIPIHPDSKSQGQLVDALVNFMKMMW 63
G G+ N G TCY+NS+LQ L T R + S + AL +
Sbjct: 5 GYVGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMP---TEGDDSSKSVPLALQRVFYELQ 61
Query: 64 SSGNLVLNTKAILLALRSYTKK-FDGNQQQDAQEFLLYLLAALNEEAKVVPDQYNGSTYS 122
S V +S+ + D Q D QE LL + + K
Sbjct: 62 HSDKPV----GTKKLTKSFGWETLDSFMQHDVQELCRVLLDNVENKMK------------ 105
Query: 123 NTSSKQVGSFRALHYWEKFQTTEASVFSDIFVGQLRSSVRCSNCKRTSTVYEIFWELSLP 182
T +F G++ S ++C S E ++++ L
Sbjct: 106 -------------------GTCVEGTIPKLFRGKMVSYIQCKEVDYRSDRREDYYDIQLS 146
Query: 183 VPPGGGTLYECQLRSSVRCSNCKRTSTVYEIFWELSLPVPPGGGTLYECLNKFFNGETLH 242
+ G ++E + E L
Sbjct: 147 IK---------------------------------------GKKNIFESFVDYVAVEQLD 167
Query: 243 N----TCQYCKKQSDLVKLYEIQRLPPVLILWFKRFSSNFT----QKVTSPIKFPREGLD 294
Q + K + LPPVL L RF + K+ +FP + L
Sbjct: 168 GDNKYDAGEHGLQ-EAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQ-LP 225
Query: 295 MEYYISASGRRVESRYTYDLCAVSNHIGKTALYGHYTAYCRREGTGRWYLYDDTVVSPVD 354
++ ++ + + Y L AV H G GHY Y +G G+W +DD VVS
Sbjct: 226 LDEFLQKTDP--KDPANYILHAVLVHSG-DNHGGHYVVYLNPKGDGKWCKFDDDVVSRCT 282
Query: 355 AQTVESA-----------EAEHGAYILVYQRR 375
+ AY+LVY R
Sbjct: 283 KEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRE 314
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 199 bits (506), Expect = 3e-59
Identities = 80/391 (20%), Positives = 121/391 (30%), Gaps = 100/391 (25%)
Query: 4 GLNGIANAGNTCYINSVLQCLSNTPAFRNVLLNEDIPIHPDSKSQGQLVDALVNFMKMMW 63
G G+ N G TCY+NS+LQ L T R + S + AL +
Sbjct: 174 GYVGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMP---TEGDDSSKSVPLALQRVFYELQ 230
Query: 64 SSGNLVLNTKAILLALRSYTKKFDGNQQQDAQEFLLYLLAALNEEAKVVPDQYNGSTYSN 123
S V TK + + + D Q D QE LL + + K
Sbjct: 231 HSDKPV-GTKKLTKSFGW--ETLDSFMQHDVQELCRVLLDNVENKMK------------- 274
Query: 124 TSSKQVGSFRALHYWEKFQTTEASVFSDIFVGQLRSSVRCSNCKRTSTVYEIFWELSLPV 183
T +F G++ S ++C S E ++++ L +
Sbjct: 275 ------------------GTCVEGTIPKLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSI 316
Query: 184 PPGGGTLYECQLRSSVRCSNCKRTSTVYEIFWELSLPVPPGGGTLYECLNKFFNGETLHN 243
G ++E + E L
Sbjct: 317 K---------------------------------------GKKNIFESFVDYVAVEQLDG 337
Query: 244 ----TCQYCKKQSDLVKLYEIQRLPPVLILWFKRFSSNFT----QKVTSPIKFPREGLDM 295
Q + K + LPPVL L RF + K+ +FP + L +
Sbjct: 338 DNKYDAGEHGLQ-EAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQ-LPL 395
Query: 296 EYYISASGRRVESRYTYDLCAVSNHIGKTALYGHYTAYCRREGTGRWYLYDDTVVSPVDA 355
+ ++ + + Y L AV H G GHY Y +G G+W +DD VVS
Sbjct: 396 DEFLQKTDPK--DPANYILHAVLVHSG-DNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTK 452
Query: 356 QTVE-----------SAEAEHGAYILVYQRR 375
+ S AY+LVY R
Sbjct: 453 EEAIEHNYGGHDDDLSVRHCTNAYMLVYIRE 483
>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 = 158 bits (401), Expect = 4e-43
Identities = 51/325 (15%), Positives = 100/325 (30%), Gaps = 67/325 (20%)
Query: 3 PGLNGIANAGNTCYINSVLQCLSNTPAFRNVLLN--EDIPIHPDSKSQGQLVDALVNFMK 60
PG GI N GN+CY+NSV+Q L + P F+ ++ E I + + +
Sbjct: 342 PGYTGIRNLGNSCYLNSVVQVLFSIPDFQRKYVDKLEKIFQNAPTDPTQDFSTQVAKLGH 401
Query: 61 MMWS--------------------SGNLVLNTKAILLALRSYTKKFDGNQQQDAQEFLLY 100
+ S + + + +F N+QQDAQEF L+
Sbjct: 402 GLLSGEYSKPVPESGDGERVPEQKEVQDGIAPRMFKALIGKGHPEFSTNRQQDAQEFFLH 461
Query: 101 LLAALNEEAKVVPDQYNGSTYSNTSSKQVGSFRALHYWEKFQTTEASVFSDIFVGQLRSS 160
L+ + + + +++F +
Sbjct: 462 LINMVERNCRSSENP----------------------------------NEVFRFLVEEK 487
Query: 161 VRCSNCKRTSTVYEIFWELSLPVPPGGGTLYECQLRSSVRCSNCKRTSTVYEIFWELSLP 220
++C ++ + + + LPVP + + E
Sbjct: 488 IKCLATEKVKYTQRVDYIMQLPVPMDAAL-------NKEELLEYEEKKRQAEEEKMALPE 540
Query: 221 VPPGGGTLYECLNKFFNGETLHN-TCQYCKKQSDLVKLYEIQRLPPVLILWFKRFS---S 276
+ CL + E + + + +S VK P L++ K+F+
Sbjct: 541 LVRAQVPFSSCLEAYGAPEQVDDFWSTALQAKSVAVKTTRFASFPDYLVIQIKKFTFGLD 600
Query: 277 NFTQKVTSPIKFPREGLDMEYYISA 301
+K+ I+ P E + +
Sbjct: 601 WVPKKLDVSIEMPEELDISQLRGTG 625
Score = 71.5 bits (174), Expect = 1e-13
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 310 YTYDLCAVSNHIGKTALYGHYTAYCRREGTGRWYLYDDTVVSPVDAQTVESAEAEHGAYI 369
Y L A +H+G + + GHY + ++E GRW +Y+D V + + YI
Sbjct: 795 GKYQLFAFISHMGTSTMCGHYVCHIKKE--GRWVIYNDQKVCASEKPPKDL------GYI 846
Query: 370 LVYQR 374
YQR
Sbjct: 847 YFYQR 851
>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 = 148 bits (373), Expect = 6e-41
Identities = 68/400 (17%), Positives = 138/400 (34%), Gaps = 45/400 (11%)
Query: 7 GIANAGNTCYINSVLQCLSNTPAFRNVLLNEDIPIHP------DSKSQGQLVDALVNFMK 60
G N GNTCY+N+ LQ L R+++LN + D + Q+V + +
Sbjct: 26 GFKNMGNTCYLNATLQALYRVNDLRDMILNYNPSQGVSNSGAQDEEIHKQIVIEMKRCFE 85
Query: 61 MMWSSGNLVLNTKAILLALRSYTKKF-------DGNQQQDAQEFLLYLLAALNEEAKVVP 113
+ + + +L LR +F +QQDA+E L +++
Sbjct: 86 NLQNKSFKSVLPVVLLNTLRKCYPQFAERDSQGGFYKQQDAEELFTQLFHSMSIVFGDKF 145
Query: 114 DQYNGSTYSNTSSKQVGSFRALHYWEKFQTTEASVFSDIFVGQLRSSVRCSNCKRTSTVY 173
+ + T + E+ + + +R + +
Sbjct: 146 SEDFRIQFKTTIKDTA-----NDNDITVKENESDSKLQCHISGTTNFMRNGLLEGLNEKI 200
Query: 174 EIFWELSLPVPPGGGTLYECQLRSS----------VRCSNCKRTSTVYEIFWELSLPVPP 223
E +L+ G ++Y + + S VR + T+ +I ++ P
Sbjct: 201 EKRSDLT-----GANSIYSVEKKISRLPKFLTVQYVRFFWKRSTNKKSKILRKVVFPFQL 255
Query: 224 GGGTLYECLNKFFNGETLH---NTCQYCKKQSDLVKLYEIQRLPPVLI--LWFKRFSSNF 278
+ + L + E + + K++++ + + ++ P + R
Sbjct: 256 ---DVADMLTPEYAAEKVKVRDELRKVEKEKNEKEREIKRRKFDPSSSENVMTPREQYET 312
Query: 279 TQKVTSPIKFPREGLDMEYYISASGRRVESRYTYDLCAVSNHIGKTALYGHYTAYCR-RE 337
+ K +++ + Y+L V H G + GHY A+ R
Sbjct: 313 QVALNESEKDQWLEEYKKHFPPNLEKGENPSCVYNLIGVITHQGANSESGHYQAFIRDEL 372
Query: 338 GTGRWYLYDDTVVSPVDAQTVESAE---AEHGAYILVYQR 374
+WY ++D VS V+ + +ES A IL+Y+
Sbjct: 373 DENKWYKFNDDKVSVVEKEKIESLAGGGESDSALILMYKG 412
>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 = 70.8 bits (173), Expect = 2e-13
Identities = 46/336 (13%), Positives = 100/336 (29%), Gaps = 87/336 (25%)
Query: 63 WSSGNLVLN----TKAILLALRSYTKKFDGNQQQDAQEFLLYLLA-----ALNEEAKVVP 113
+S+ L L+ +L+ S+ F +Q Q+ +F L A ++E
Sbjct: 4 YSTRPLTLSHGSLEHVLLVPTASF---FIASQLQE--QFNKILPEPTEGFAADDEPTTPA 58
Query: 114 D---QYNGSTYSNTSSKQVGSFRAL--HYWEKFQTTEASVF---SDI--FVGQLRSSVRC 163
+ ++ G S +VG F + +F+ + +DI +L
Sbjct: 59 ELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENC----YLEGNDIHALAAKLLQENDT 114
Query: 164 SNCKRTSTV---YEIFWELSLPVPPGGGTLYECQLRSSVRCSNCKRTSTVYEIFWELSLP 220
+ K + P + L +V + + + IF
Sbjct: 115 TLVKTKELIKNYITARIMAKRPFDKKSNSA----LFRAVG----EGNAQLVAIF------ 160
Query: 221 VPPGG-GTLYECLNKFFNGETLHNTCQYCKKQSDLVKLYEIQRLPPVLILWFKRFSSNFT 279
GG G + +L LY+ ++ K + +
Sbjct: 161 ---GGQGNTDDYF-------------------EELRDLYQTY--HVLVGDLIKFSAETLS 196
Query: 280 QKVTSPIKFPR---EGLDMEYYISASGRRVESRYTYDLCAVS-NHIGKTALYGHYTAYCR 335
+ + + + + +GL++ ++ + Y +S IG L HY +
Sbjct: 197 ELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL-LSIPISCPLIGVIQL-AHYVVTAK 254
Query: 336 REGTGRWYLYDDTVVSPVDAQTVESAEAEHGAYILV 371
G +P + ++ H ++
Sbjct: 255 LLG-----------FTPGELRSYLKGATGHSQGLVT 279
Score = 37.0 bits (85), Expect = 0.010
Identities = 70/423 (16%), Positives = 113/423 (26%), Gaps = 180/423 (42%)
Query: 19 SVLQCLSNTPAFRNVLLNEDIPI-----HPDSK-SQGQLVDALVNFMKMMWSSGNLVLNT 72
L L T + + + I +P + + L+ + S L+
Sbjct: 193 ETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI--------SCPLIG-- 242
Query: 73 KAILLALRSY--TKKFDGNQQQDAQEFLLYLLAALNEEAKVVPDQYNGSTYSNTSSKQVG 130
++ L Y T K G E YL A +V + T S
Sbjct: 243 ---VIQLAHYVVTAKLLG---FTPGELRSYLKGATGHSQGLVT----AVAIAETDS---- 288
Query: 131 SFRALHYWEKFQTTEASVFSDIF-VGQLRSSVRCSNCKRTSTVYEIFWELSLP------- 182
WE F + + +F +G VRC YE + SLP
Sbjct: 289 -------WESFFVSVRKAITVLFFIG-----VRC---------YEAYPNTSLPPSILEDS 327
Query: 183 VPPGGGT---------LYECQLRSSVRCSNCK--RTSTVYEIFWELSLPVPPGGGTLYEC 231
+ G L + Q++ V +N V +SL
Sbjct: 328 LENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVE-----ISL------------ 370
Query: 232 LNKFFNG----------ETLHNTCQYCKK--------QSDLVKLYEI---QRLPPVLILW 270
NG ++L+ +K QS I +R
Sbjct: 371 ----VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQS------RIPFSERKL------ 414
Query: 271 FKRFSSNFTQKVTSP---------------------IKFPREGLDMEYYISASGRRVESR 309
+FS+ F V SP + F + + + Y + G
Sbjct: 415 --KFSNRFL-PVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGS----- 466
Query: 310 YTYDLCAVSNHIGKTALYGHYTAYCRREGTGRWYLYDDTVVSPVDAQTVESAEAEHGAYI 369
DL +S I + + D + PV +T +A H I
Sbjct: 467 ---DLRVLSGSISER-------------------IVDCIIRLPVKWETTTQFKATH---I 501
Query: 370 LVY 372
L +
Sbjct: 502 LDF 504
>2vhf_A Ubiquitin carboxyl-terminal hydrolase CYLD; cytokine signalling,
linkage specificity, deubiquitinating enzyme, Lys63-
linked, anti-oncogene; 2.8A {Homo sapiens}
Length = 374
Score = 43.6 bits (102), Expect = 6e-05
Identities = 27/107 (25%), Positives = 47/107 (43%), Gaps = 14/107 (13%)
Query: 7 GIANAGNTCYINSVLQCL-SNTPAFRNVLL--NEDIPIHPDSKSQGQLVDALVNFMKMMW 63
GI N+CY++S L CL + + VLL E + S++Q L +VN ++
Sbjct: 11 GIQGHYNSCYLDSTLFCLFAFSSVLDTVLLRPKEKNDVEYYSETQELLRTEIVNPLR--- 67
Query: 64 SSGNLVLNTKAILLALRSYTKKFDGN-----QQQDAQEFLLYLLAAL 105
V ++ LR +K + +++D +EFL L +
Sbjct: 68 -IYGYV--CATKIMKLRKILEKVEAASGFTSEEKDPEEFLNILFHHI 111
>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 = 41.0 bits (95), Expect = 6e-04
Identities = 54/420 (12%), Positives = 111/420 (26%), Gaps = 123/420 (29%)
Query: 16 YINSVLQCLSNTPA--------FRNVLLNEDIPIHPDSKSQGQLVDALVNFMKMMWSSGN 67
++ S ++ P+ R+ L N++ + S+ Q L + + + N
Sbjct: 93 FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152
Query: 68 LVLN-----TKAIL--LALRSY--TKKFD--------GNQQQDAQ--EFLLYLLAALNEE 108
++++ K + SY K D N E L LL ++
Sbjct: 153 VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPN 212
Query: 109 AKVVPDQYNGSTYSNTSSKQVGS--FRALHY---------------WEKFQ-------TT 144
D + S + ++ Y W F TT
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT 272
Query: 145 EASVFSDIFVGQLRSSVRCSNCKRTSTVYE---IF--WELSLPVPPGGGTLYECQLRSSV 199
+D + + + T T E + + L L V
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY-LDCRPQ---------DLPREV 322
Query: 200 RCSNCKRTSTVYEIFWELSLPVPPGGGTLYECLNKFF---NGETLHNTCQYCKKQ---SD 253
I E + + N + L + ++
Sbjct: 323 ----LTTNPRRLSIIAES-IRDGL-------ATWDNWKHVNCDKLTTIIESSLNVLEPAE 370
Query: 254 LVKLYE---I----QRLPP-VL-ILWFKRFSSNFTQKVTSPIKFPREGLDMEYYISASGR 304
K+++ + +P +L ++WF + V + K + L +
Sbjct: 371 YRKMFDRLSVFPPSAHIPTILLSLIWFDV-IKSDVMVVVN--KLHKYSL-------VEKQ 420
Query: 305 RVESRYT-YDL-----CAVSN----HIGKTALYGHYTAYCRREGTGRWYLYDDTVVSPVD 354
ES + + + N H ++ HY + + DD + +D
Sbjct: 421 PKESTISIPSIYLELKVKLENEYALH---RSIVDHYNIP-------KTFDSDDLIPPYLD 470
Score = 28.3 bits (62), Expect = 5.2
Identities = 30/195 (15%), Positives = 55/195 (28%), Gaps = 58/195 (29%)
Query: 17 INSVLQCLSNTPA-FRN-----VLLNEDIPIHPDSKSQGQLVDALVNFMKMMWSSGN--- 67
I S L L PA +R + I P + ++W
Sbjct: 359 IESSLNVLE--PAEYRKMFDRLSVFPPSAHI-P------------TILLSLIWFDVIKSD 403
Query: 68 --LVLNTKAILLALRSYTKKFDGNQQQDAQEFLLYL-------LAALNEEA---KVVPDQ 115
+V+N L S +K +E + + L E + + D
Sbjct: 404 VMVVVN----KLHKYSLVEK-------QPKESTISIPSIYLELKVKLENEYALHRSIVDH 452
Query: 116 YNG-STY-SNTSSKQVG-----SFRALHYWEKFQTTEASVFSDIFV--GQLRSSVR--CS 164
YN T+ S+ S H ++F +F+ L +R +
Sbjct: 453 YNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDST 512
Query: 165 NCKRTSTVYEIFWEL 179
+ ++ +L
Sbjct: 513 AWNASGSILNTLQQL 527
>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 = 29.9 bits (66), Expect = 0.87
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 9/28 (32%)
Query: 246 QYCKK-QSDLVKLYEIQRLP---PVLIL 269
Q KK Q+ +KLY P L +
Sbjct: 20 QALKKLQAS-LKLYA----DDSAPALAI 42
>1yix_A Deoxyribonuclease YCFH; TIM barrel, zinc ION, NEW YORK SGX center
for structural genomics, nysgxrc; 1.90A {Escherichia
coli} SCOP: c.1.9.12
Length = 265
Score = 28.6 bits (65), Expect = 3.3
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 283 TSPIKFPREGLDMEYYISASG 303
T + + LD+ +YIS SG
Sbjct: 158 TEDRETAGKLLDLGFYISFSG 178
>4ask_A Lysine-specific demethylase 6B; oxidoreductase, KDM6B, GSK-J1,
inhibitor, lysine specific HI demethylase; HET: K0I;
1.86A {Homo sapiens} PDB: 2xue_A*
Length = 510
Score = 28.7 bits (63), Expect = 3.7
Identities = 16/133 (12%), Positives = 34/133 (25%), Gaps = 9/133 (6%)
Query: 141 FQTTEASVFSDIFVGQLRSSVRCSNCKRTSTVYEIFWELSLPVPPGGGTLYECQLRSSVR 200
+ SD + ++ + K E + G E +
Sbjct: 380 WNVARTVKISDPDLFKMIKFCLLQSMKHCQVQRESLVRAGKKIAYQGRVKDE----PAYY 435
Query: 201 CSNCKRTSTVYEIFWELSLPVPPGGGTLYECLN--KFFNGETLHNTCQYCKKQSDLVKLY 258
C+ C V+ I + ++ L C + + + +L + Y
Sbjct: 436 CNECDVE--VFNILF-VTSENGSRNTYLVHCEGCARRRSAGLQGVVVLEQYRTEELAQAY 492
Query: 259 EIQRLPPVLILWF 271
+ L P
Sbjct: 493 DAFTLAPASTSRH 505
>3hx8_A MLR2180 protein, putative ketosteroid isomerase; structural
genomics, joint center for structural genomics, JCSG,
protein structure initiative; HET: MSE UNL PG4; 1.45A
{Mesorhizobium loti}
Length = 129
Score = 27.7 bits (61), Expect = 3.9
Identities = 12/50 (24%), Positives = 16/50 (32%)
Query: 299 ISASGRRVESRYTYDLCAVSNHIGKTALYGHYTAYCRREGTGRWYLYDDT 348
+ SG ++ L A G Y R+ G W LY D
Sbjct: 73 VQESGDFAFESGSFSLKAPGKDSKLVDAAGKYVVVWRKGQDGGWKLYRDI 122
>3q5y_A TCR N15 beta; IG, T cell receptor, antigen peptide/MHC, membrane,
immune S; HET: EPE; 1.90A {Mus musculus} PDB: 1nfd_B*
3q5t_A
Length = 240
Score = 27.6 bits (61), Expect = 6.2
Identities = 6/39 (15%), Positives = 17/39 (43%), Gaps = 2/39 (5%)
Query: 90 QQQDAQ--EFLLYLLAALNEEAKVVPDQYNGSTYSNTSS 126
QQ + +FL+ + + +P +++ + + S
Sbjct: 37 QQTLGKELKFLIQHYEKVERDKGFLPSRFSVQQFDDYHS 75
>2y1h_A Putative deoxyribonuclease tatdn3; hydrolase; 2.50A {Homo sapiens}
Length = 272
Score = 27.5 bits (62), Expect = 6.7
Identities = 4/21 (19%), Positives = 6/21 (28%)
Query: 283 TSPIKFPREGLDMEYYISASG 303
EG+ Y+ S
Sbjct: 171 DGRPSVAMEGVRAGYFFSIPP 191
>1zso_A Hypothetical protein; structural genomics, PSI, protein structure
initiative, STRU genomics of pathogenic protozoa
consortium, SGPP; 2.17A {Plasmodium falciparum} SCOP:
b.166.1.1
Length = 164
Score = 27.2 bits (60), Expect = 7.4
Identities = 9/50 (18%), Positives = 17/50 (34%), Gaps = 5/50 (10%)
Query: 161 VRCSNCKRTSTVYEIFWELSLPVPPGGGTLYECQLRSSVRCSNCKRTSTV 210
+R S T + L +P GT ++ + + ST+
Sbjct: 38 IRDSTSSLTRDNIQFRKTDILEIPNSRGTA-----NFMIKWTEYPKYSTI 82
>1kae_A HDH, histidinol dehydrogenase; L-histidinol dehydrogenase,
homodimer, rossman fold, 4 domai L-histidine
biosynthesis, NAD cofactor; HET: HSO NAD; 1.70A
{Escherichia coli} SCOP: c.82.1.2 PDB: 1k75_A* 1kah_A*
1kar_A
Length = 434
Score = 27.5 bits (62), Expect = 7.7
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 78 ALRSYTKKFDG 88
ALR Y+ KFD
Sbjct: 50 ALREYSAKFDK 60
>3okg_A Restriction endonuclease S subunits; coiled-coil, type I
methyltransferase, DNA binding, DNA BIND protein; 1.95A
{Thermoanaerobacter tengcongensis}
Length = 412
Score = 27.4 bits (61), Expect = 8.7
Identities = 8/57 (14%), Positives = 21/57 (36%), Gaps = 7/57 (12%)
Query: 76 LLALRSYTKKFDGNQQQDAQEFLLYLLAALNEEAKVVPDQYNGSTYSNTSSKQVGSF 132
+R+ + + EFL +L + ++ + G++Y + V +
Sbjct: 118 FCVIRANREFAE-------PEFLFHLCRSDFITNQLTASKMRGTSYPAVTDNDVYNT 167
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
0.319 0.134 0.411
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,670,927
Number of extensions: 328080
Number of successful extensions: 851
Number of sequences better than 10.0: 1
Number of HSP's gapped: 765
Number of HSP's successfully gapped: 38
Length of query: 375
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 280
Effective length of database: 4,049,298
Effective search space: 1133803440
Effective search space used: 1133803440
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: 58 (26.1 bits)