RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1343
(337 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 = 130 bits (329), Expect = 2e-35
Identities = 74/363 (20%), Positives = 131/363 (36%), Gaps = 76/363 (20%)
Query: 1 ALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQ 60
L + LRDY L+ Y R ++ LV+ F +L++ +W + VSP E
Sbjct: 27 CLSNTRELRDYCLQR-LYMRDLHHGSNAHTALVEEFAKLIQTIWT-SSPNDVVSPSEFKT 84
Query: 61 AVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIP 120
+ ++ +F Q D +FL + L+ LH +N + S +
Sbjct: 85 QIQRYA-PRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKS----------NPENLDHL 133
Query: 121 PVELEEKVRQRLLLTEEY---------------------KETETESPFLYLTCDLPPPPL 159
P + + + R L E + PF L+ +
Sbjct: 134 PDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIAKRGY 193
Query: 160 ------------FKDEVLENIIPQVNLYTILTKFNNESEKEYKTYKENFLKRFEITSLPP 207
K++VL+ K + ++ +K+F I P
Sbjct: 194 PEVTLMDCMRLFTKEDVLDGD----------EKPTCCRCRG----RKRCIKKFSIQRFPK 239
Query: 208 YLILYVKRFTKNTFFVEKNPTIVNFPVKNVDFGDILTPEVKAKYESTMYDLVKAKYESTM 267
L+L++KRF+++ K T VNFP++++D + + +
Sbjct: 240 ILVLHLKRFSESRIRTSKLTTFVNFPLRDLDLREFASENTN----------------HAV 283
Query: 268 YDLVANIVHDGEPSNGTYRVHLYHKGIGKWYEIQDLHVTDILPQMITLTEAYIQIYELRT 327
Y+L A H G G Y + G G+W+ D VT + + ++AY+ YEL +
Sbjct: 284 YNLYAVSNHSGTTMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELAS 343
Query: 328 TPS 330
PS
Sbjct: 344 PPS 346
>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 = 126 bits (317), Expect = 1e-33
Identities = 68/361 (18%), Positives = 128/361 (35%), Gaps = 60/361 (16%)
Query: 1 ALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQ 60
L PLRD+ LR R + P G + L + F +++ LW+P + ++ V+P
Sbjct: 21 CLSSTRPLRDFCLR--RDFRQEVPGGGRAQELTEAFADVIGALWHPDSCEA-VNPTRFRA 77
Query: 61 AVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKK------DSSIVYKTFLGSMKV 114
+ F Q D +FL + LH +N ++ + + G +
Sbjct: 78 VFQKYV-PSFSGYSQQDAQEFLKLLMERLHLEINRRGRRAPPILANGPVPSPPRRGGALL 136
Query: 115 KTRKIPPVELEEKVRQRLLLTEE--------------------YKETETESPFLYLTCDL 154
+ ++ + + +R L E+ + T F L+ L
Sbjct: 137 EEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQACGYRSTTFEVFCDLS--L 194
Query: 155 PPPPLFKDEVLENIIPQVNLYT---ILT---KFNNESEKEYKTYKENFLKRFEITSLPPY 208
P P ++ NL+T L + ++ K K+ + P
Sbjct: 195 PIPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCRQ----KTRSTKKLTVQRFPRI 250
Query: 209 LILYVKRFTKNTFFVEKNPTIVNFPVKNVDFGDILTPEVKAKYESTMYDLVKAKYESTMY 268
L+L++ RF+ + ++K+ V+FP++ + + D K S +Y
Sbjct: 251 LVLHLNRFSASRGSIKKSSVGVDFPLQRLS----------------LGDFASDKAGSPVY 294
Query: 269 DLVANIVHDGEPSNGTYRVHLYHKGIGKWYEIQDLHVTDILPQMITLTEAYIQIYELRTT 328
L A H G G Y + W+ D V+ + + +E Y+ Y+L
Sbjct: 295 QLYALCNHSGSVHYGHYTA--LCRCQTGWHVYNDSRVSPVSENQVASSEGYVLFYQLMQE 352
Query: 329 P 329
P
Sbjct: 353 P 353
>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo
sapiens}
Length = 367
Score = 126 bits (318), Expect = 1e-33
Identities = 84/361 (23%), Positives = 141/361 (39%), Gaps = 45/361 (12%)
Query: 1 ALCHVTPLRDYFLREINYARVKR-PPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEML 59
L + PL DYFL++ A + R P + + + EL++++W+ R+ +HV+P
Sbjct: 26 CLSNTAPLTDYFLKDEYEAEINRDNPLGMKGEIAEAYAELIKQMWSGRD--AHVAPRMFK 83
Query: 60 QAVVLWS-RKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRK 118
V QF +Q D + L++ L+ LH LN KKK + V ++
Sbjct: 84 TQV--GRFAPQFSGYQQQDSQELLAFLLDGLHEDLNRVKKKPYLELKDANGRPDAVVAKE 141
Query: 119 IPPVELEE-----------KVRQRLLLTEEYKETETESPFLYLTCDLPPPPLFKDEV--- 164
+ L+ E K + T PF YLT LP E
Sbjct: 142 AWENHRLRNDSVIVDTFHGLFKSTLVCPECAKVSVTFDPFCYLTLPLPLKKDRVMEGPML 201
Query: 165 --LENIIPQVNLYTILTKFNNESE-KEYKTY-------KENFLKRFEITSLPPYLILYVK 214
+ V L + F E+ + + K+F++ SLP L++++K
Sbjct: 202 QPQKKKKTTVALRDCIELFTTMETLGEHDPWYCPNCKKHQQATKKFDLWSLPKILVVHLK 261
Query: 215 RFTKNTFFVEKNPTIVNFPVKNVDFGDILTPEVKAKYESTMYDLVKAKYESTMYDLVANI 274
RF+ N ++ +K T+V FP++ ++ + + +YDL+A
Sbjct: 262 RFSYNRYWRDKLDTVVEFPIRGLNMSEFVCNL---------------SARPYVYDLIAVS 306
Query: 275 VHDGEPSNGTYRVHLYHKGIGKWYEIQDLHVTDILPQMITLTEAYIQIYELRTTPSPTAM 334
H G G Y + +K GKWY D +V+ I AY+ Y+ R
Sbjct: 307 NHYGAMGVGHYTAYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFYQRRDDEFYKTP 366
Query: 335 S 335
S
Sbjct: 367 S 367
>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 = 128 bits (322), Expect = 5e-33
Identities = 43/322 (13%), Positives = 94/322 (29%), Gaps = 43/322 (13%)
Query: 1 ALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLW---------------- 44
L + + ++ ++ P + Q +L L
Sbjct: 362 VLFSIPDFQRKYVDKLEKIFQNAPTDPTQDFSTQ-VAKLGHGLLSGEYSKPVPESGDGER 420
Query: 45 --NPRNFKSHVSPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSS 102
+ + ++P M +A++ +F Q D +F +N + R ++ +
Sbjct: 421 VPEQKEVQDGIAPR-MFKALIGKGHPEFSTNRQQDAQEFFLHLINMVERNCRSSENPNEV 479
Query: 103 IVYKTFLGSMKVKTRKIPPVELEEKVRQRLLLTEEYKETETESPFLYLTCDLPPPPLFKD 162
+ + T K+ + + + Q L + L K
Sbjct: 480 FRFLVEEKIKCLATEKVKYTQRVDYIMQ---LPVPMDAALNKEELLEYEEKKRQAEEEKM 536
Query: 163 EVLENIIPQVNLYTILTKFNNESEKEYKT-----YKENFLKRFEITSLPPYLILYVKRFT 217
+ E + QV + L + + + K +K S P YL++ +K+FT
Sbjct: 537 ALPELVRAQVPFSSCLEAYGAPEQVDDFWSTALQAKSVAVKTTRFASFPDYLVIQIKKFT 596
Query: 218 KNTFFV-EKNPTIVNFPVKNVDFGDILTPEVKAKYESTMYDLVKAKYESTMYDLVANIVH 276
+V +K + P + DI E + D+ +V
Sbjct: 597 FGLDWVPKKLDVSIEMP----EELDISQLRGTG----------LQPGEEELPDIAPPLVT 642
Query: 277 DGEPSNGTYRVHLYHKGIGKWY 298
EP + + + +
Sbjct: 643 PDEPKAPMLDESVIIQLVEMGF 664
Score = 34.5 bits (78), Expect = 0.053
Identities = 16/61 (26%), Positives = 21/61 (34%), Gaps = 5/61 (8%)
Query: 265 STMYDLVANIVHDG-EPSNGTYRVHLYHKGIGKWYEIQDLHVTDILPQMITLTEAYIQIY 323
Y L A I H G G Y H+ + G+W D V + YI Y
Sbjct: 794 PGKYQLFAFISHMGTSTMCGHYVCHIKKE--GRWVIYNDQKVCAS--EKPPKDLGYIYFY 849
Query: 324 E 324
+
Sbjct: 850 Q 850
>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 = 117 bits (295), Expect = 3e-30
Identities = 71/348 (20%), Positives = 127/348 (36%), Gaps = 54/348 (15%)
Query: 1 ALCHVTPLRDYFLREINYARVKRP-PGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEML 59
LC+ L DYF R + R + + FG +M+ LW + ++SP +
Sbjct: 80 CLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGIIMKALWTGQY--RYISPKDFK 137
Query: 60 QAVVLWS-RKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRK 118
+ QF Q D + L + ++ LH LN + +
Sbjct: 138 ITI--GKINDQFAGYSQQDSQELLLFLMDGLHEDLNKADNRKRYK---------EENNDH 186
Query: 119 IPPVELEEKVRQRLLLTEEY--------------------KETETESPFLYLTCDLPPPP 158
+ + E Q+ E K++ T F+YL+ L
Sbjct: 187 LDDFKAAEHAWQKHKQLNESIIVALFQGQFKSTVQCLTCHKKSRTFEAFMYLSLPLASTS 246
Query: 159 LFKDEVLENIIPQVNLYTILTKFNNESEKEYKTYKENFLKRFEITSLPPYLILYVKRFTK 218
+ + + T +F + + + LK+ EI LPP L++++KRF+
Sbjct: 247 KCTLQDCLRLFSKEEKLTDNNRFYCSHCRA----RRDSLKKIEIWKLPPVLLVHLKRFSY 302
Query: 219 NTFFVEKNPTIVNFPVKNVDFGDILTPEVKAKYESTMYDLVKAKYESTMYDLVANIVHDG 278
+ + +K T V+FP++N+D L+ V + K Y+L + H G
Sbjct: 303 DGRWKQKLQTSVDFPLENLD----LSQYV-----------IGPKNNLKKYNLFSVSNHYG 347
Query: 279 EPSNGTYRVHLYHKGIGKWYEIQDLHVTDILPQMITLTEAYIQIYELR 326
G Y + + +W++ D V+DI + + AYI Y
Sbjct: 348 GLDGGHYTAYCKNAARQRWFKFDDHEVSDISVSSVKSSAAYILFYTSL 395
>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 = 103 bits (257), Expect = 5e-25
Identities = 64/405 (15%), Positives = 113/405 (27%), Gaps = 102/405 (25%)
Query: 1 ALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQ 60
+ V L+D R R + ++ +L + S + P +LQ
Sbjct: 32 CIRSVPELKDALKRYAGALRASGEMASAQYITAA-LRDLFDSMDKTS---SSIPPIILLQ 87
Query: 61 AVVLWSRKQFQFT------EQSDPIDFLSWFLNTLHRALNGTKKK--------------- 99
+ + QF Q D + + L + L +
Sbjct: 88 FLHMAF-PQFAEKGEQGQYLQQDANECWIQMMRVLQQKLEAIEDDSVKETDSSSASAATP 146
Query: 100 --DSSIVYKTFLGSMKVKTRKIPPVELEEKVRQRLLLTEEYKETETESPFLYLTCDLPPP 157
S++ + F + + TE +E T+ L
Sbjct: 147 SKKKSLIDQFFGVEFETTMK----------------CTESEEEEVTKGKENQLQLSCFIN 190
Query: 158 PLFKDEVLENIIPQVNLYTILTKFNNESEKEYKTYK----ENFLKRFEITSLPPYLILYV 213
K L+T L E E ++ ++K +I+ LP YL + +
Sbjct: 191 QEVKY-----------LFTGLKLRLQE-EITKQSPTLQRNALYIKSSKISRLPAYLTIQM 238
Query: 214 KRFT--KNTFFVEKNPTIVNFPV---------------------------------KNVD 238
RF + K V FP+ +
Sbjct: 239 VRFFYKEKESVNAKVLKDVKFPLMLDMYELCTPELQEKMVSFRSKFKDLEDKKVNQQPNT 298
Query: 239 FGDILTPEVKAKYESTMYDLVKAKYESTMYDLVANIVHDGEPSNGTYRVHLYHKGIGKWY 298
+P+ + KYE + YDL A + H G S+ + V + +W
Sbjct: 299 SDKKSSPQKEVKYEPFSFADDIGSNNCGYYDLQAVLTHQGRSSSSGHYVSWVKRKQDEWI 358
Query: 299 EIQDLHVTDILPQMITLTE-------AYIQIYELRTTPSPTAMSE 336
+ D V+ + P+ I AY+ +Y R SE
Sbjct: 359 KFDDDKVSIVTPEDILRLSGGGDWHIAYVLLYGPRRVEIMEEESE 403
>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 = 95.8 bits (238), Expect = 4e-22
Identities = 62/354 (17%), Positives = 116/354 (32%), Gaps = 65/354 (18%)
Query: 1 ALCHVTPLRDYFLREINYARVK-RPPGDSSFLLVQR-FGELMRKLWNPRNFKSHVSPHEM 58
L H + + +I+ K R P + + EL L + S S +
Sbjct: 159 CLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGALNTKQASSSSTSTNRQ 218
Query: 59 LQAVVLWSR-----KQFQFTEQSDPIDFLSWFLNTLHRALNG-----------TKKKDSS 102
+ L + + Q D +F + +N +H++ K+
Sbjct: 219 TGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQSYVLDLPNAKEVSRANNKQCEC 278
Query: 103 IVYKTFLGSMKVKTRKIPPVELEEKVRQRLLLTEEYKETETESPFLYLTCDLPPPP---- 158
IV+ F GS++ + T PFL L+ D+
Sbjct: 279 IVHTVFEGSLESSIV---------------CPGCQNNSKTTIDPFLDLSLDIKDKKKLYE 323
Query: 159 ----LFKDEVLENIIPQVNLYTILTKFNNESEKEYKTYKENFLKRFEITSLPPYLILYVK 214
K E L++ ++ ++ +K+ I LP L+L +K
Sbjct: 324 CLDSFHKKEQLKD-----------FNYHCGECNS----TQDAIKQLGIHKLPSVLVLQLK 368
Query: 215 RFT-KNTFFVEKNPTIVNFPVKNVDFGDILTPEVKAKYESTMYDLVKAKYESTMYDLVAN 273
RF K + FP ++ + K + + K +Y+L+
Sbjct: 369 RFEHLLNGSNRKLDDFIEFP-TYLN----MKNYCSTKEKDKHSE--NGKVPDIIYELIGI 421
Query: 274 IVHDGEPSNGTYRVHLYHKGIGKWYEIQDLHVTDILPQMITLTEAYIQIYELRT 327
+ H G + G Y G G+W++ D V+ I + + +AY+ Y +R
Sbjct: 422 VSHKGTVNEGHYIAFCKISG-GQWFKFNDSMVSSISQEEVLKEQAYLLFYTIRQ 474
>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 = 76.8 bits (189), Expect = 6e-16
Identities = 54/318 (16%), Positives = 92/318 (28%), Gaps = 70/318 (22%)
Query: 1 ALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQR-FGELMRKLWNPRNFKSHVSPHEML 59
L LR S L +QR F EL V ++
Sbjct: 24 TLFFTNQLRKAV---YMMPTEGDDSSKSVPLALQRVFYELQHS-------DKPVGTKKLT 73
Query: 60 QAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKI 119
++ + + Q D + L+ + + GT + + K F G M +
Sbjct: 74 KS---FGWETLDSFMQHDVQELCRVLLDNVENKMKGTCVEG--TIPKLFRGKMVSYIQ-- 126
Query: 120 PPVELEEKVRQRLLLTEEYKETETESPFLYLTCDLPPPPLFKDEVLENIIPQVNLYTILT 179
E ++ + + I + N++
Sbjct: 127 --------------CKEVDYRSDRREDYYDIQLS--------------IKGKKNIFESFV 158
Query: 180 KFNN----ESEKEYKTY---KENFLKRFEITSLPPYLILYVKRFT--KNTFFVEKNPTIV 230
+ + + +Y + K + +LPP L L + RF T K
Sbjct: 159 DYVAVEQLDGDNKYDAGEHGLQEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRF 218
Query: 231 NFPVKNVDFGDILTPEVKAKYESTMYDLVKAKYESTMYDLVANIVHDGEPSNGTYRVHLY 290
FP + + + L + Y L A +VH G+ G Y V+L
Sbjct: 219 EFP-EQLPLDEFLQKTDPK--------------DPANYILHAVLVHSGDNHGGHYVVYLN 263
Query: 291 HKGIGKWYEIQDLHVTDI 308
KG GKW + D V+
Sbjct: 264 PKGDGKWCKFDDDVVSRC 281
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 77.3 bits (190), Expect = 7e-16
Identities = 51/322 (15%), Positives = 94/322 (29%), Gaps = 68/322 (21%)
Query: 1 ALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQ 60
L LR + + S L L R + ++ V ++ +
Sbjct: 193 TLFFTNQLRKA----VYMMPTEGDDSSKSVPL-----ALQRVFYELQHSDKPVGTKKLTK 243
Query: 61 AVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIP 120
+ + + Q D + L+ + + GT + + K F G M +
Sbjct: 244 S---FGWETLDSFMQHDVQELCRVLLDNVENKMKGTCVEG--TIPKLFRGKMVSYIQ--- 295
Query: 121 PVELEEKVRQRLLLTEEYKETETESPFLYLTCDLPPPPLFKDEVLENIIPQVNLYTILTK 180
E ++ + + I + N++
Sbjct: 296 -------------CKEVDYRSDRREDYYDIQLS--------------IKGKKNIFESFVD 328
Query: 181 FNN----ESEKEYKTY---KENFLKRFEITSLPPYLILYVKRFT--KNTFFVEKNPTIVN 231
+ + + +Y + K + +LPP L L + RF T K
Sbjct: 329 YVAVEQLDGDNKYDAGEHGLQEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFE 388
Query: 232 FPVKNVDFGDILTPEVKAKYESTMYDLVKAKYESTMYDLVANIVHDGEPSNGTYRVHLYH 291
FP + + + L + Y L A +VH G+ G Y V+L
Sbjct: 389 FPEQ-LPLDEFLQKT--------------DPKDPANYILHAVLVHSGDNHGGHYVVYLNP 433
Query: 292 KGIGKWYEIQDLHVTDILPQMI 313
KG GKW + D V+ +
Sbjct: 434 KGDGKWCKFDDDVVSRCTKEEA 455
>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 = 49.5 bits (117), Expect = 7e-07
Identities = 42/261 (16%), Positives = 73/261 (27%), Gaps = 45/261 (17%)
Query: 1 ALCHVTPLRDYFLR---EINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHE 57
AL V LRD L + + +V L N V P
Sbjct: 42 ALYRVNDLRDMILNYNPSQGVSNSGAQDEEIHKQIVIEMKRCFENLQNKS--FKSVLPVV 99
Query: 58 MLQAV------VLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGS 111
+L + Q F +Q D + + +++ +D F
Sbjct: 100 LLNTLRKCYPQFAERDSQGGFYKQQDAEELFTQLFHSMSIVFGDKFSED-------FRIQ 152
Query: 112 MKVKTRKIPPVELEEKVRQRLLLTEEYKETETESPFLYLTCDLPPPPLFKDEVLENIIPQ 171
K + + + L C + + + ++
Sbjct: 153 FKTTIKDTA--------------NDNDITVKENESDSKLQCHIS---GTTNFMRNGLLEG 195
Query: 172 VNLYTILTKFNNESEKEYKTYKENFLKRFEITSLPPYLILYVKRFTKN--TFFVEKNPTI 229
+N E + + +I+ LP +L + RF T K
Sbjct: 196 LNEK-------IEKRSDLTGANSIYSVEKKISRLPKFLTVQYVRFFWKRSTNKKSKILRK 248
Query: 230 VNFPVKNVDFGDILTPEVKAK 250
V FP + +D D+LTPE A+
Sbjct: 249 VVFPFQ-LDVADMLTPEYAAE 268
>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 = 42.7 bits (100), Expect = 2e-04
Identities = 31/190 (16%), Positives = 52/190 (27%), Gaps = 47/190 (24%)
Query: 52 HVSPHEMLQAVVLWSRKQFQFT------------EQSDPIDFLSWFLNTLHRALNGTKKK 99
V A L ++QF E + P + + FL + + +K
Sbjct: 21 LVPTASFFIASQL--QEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVG 78
Query: 100 DSSIVYK--------TFLGSMKVKT--RKIPPVELEEKVRQRLLLTEEYK-ETETESPFL 148
V +L + K+ V+ + L+ + PF
Sbjct: 79 QFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFD 138
Query: 149 YLTCDLPPPPLFKDEVLENIIPQVNLYTILTKF----NNES---E-KE-YKTYKENFLKR 199
LF+ V E L I F N + E ++ Y+TY +
Sbjct: 139 ----KKSNSALFR-AVGEG---NAQLVAI---FGGQGNTDDYFEELRDLYQTYHV-LVGD 186
Query: 200 FEITSLPPYL 209
I L
Sbjct: 187 L-IKFSAETL 195
Score = 38.9 bits (90), Expect = 0.002
Identities = 62/419 (14%), Positives = 115/419 (27%), Gaps = 169/419 (40%)
Query: 8 LRDYFLREINYARV--KRP---PGDSSFL---------LVQRFG----------ELMRKL 43
+++Y AR+ KRP +S+ LV FG EL R L
Sbjct: 123 IKNYI-----TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEEL-RDL 176
Query: 44 WNPRNFKSHVSP-----HEMLQAVVLWSRKQFQFTEQSDPIDFLSW-----------FLN 87
+ + V E L ++ + + Q ++ L W +L
Sbjct: 177 YQT--YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQG--LNILEWLENPSNTPDKDYLL 232
Query: 88 T-----------------------------LHRALNGTKKKDSSIV----------YKTF 108
+ L L G +V +++F
Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESF 292
Query: 109 LGSMKVKTRKI------------PPVELEEKVRQRLLLTEEYKETETESPFLYLTCDLPP 156
S++ K + P L + + + E E SP L ++ +L
Sbjct: 293 FVSVR-KAITVLFFIGVRCYEAYPNTSLPPSILED---SLENNEG-VPSPMLSIS-NLT- 345
Query: 157 PPLFKDEVLENIIPQVNLYTILTK------FNNESEKEYKTYKENFLKRFEITSLPPYLI 210
E +++ + + N + K N +N + ++ P L
Sbjct: 346 -----QEQVQDYVNKTNSHLPAGKQVEISLVNG---------AKNLV----VSGPPQSLY 387
Query: 211 LYVKRFTK----------NTFFVEKNPTIVN-F-PVKNVDF-GDILTPEVKAKYESTMYD 257
K F E+ N F PV F +L P + D
Sbjct: 388 GLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPV-ASPFHSHLLVPAS----DLINKD 442
Query: 258 LVKAKYESTMYDLVANIVHDGEPSNGTYRVHLYHKGIGKWYEIQDLH--VTDILPQMIT 314
LVK D+ ++ +Y +++ L +++ + I
Sbjct: 443 LVKNNVSFNAKDI---------------QIPVYD--TFDGSDLRVLSGSISERIVDCII 484
Score = 28.1 bits (62), Expect = 5.9
Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 23/53 (43%)
Query: 86 LNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPPVELE-----EKVRQRLL 133
L+T+ LN +K +KI +EL+ E+V L
Sbjct: 1862 LDTVTNVLN------------------FIKLQKIDIIELQKSLSLEEVEGHLF 1896
>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 = 42.5 bits (99), Expect = 2e-04
Identities = 53/308 (17%), Positives = 99/308 (32%), Gaps = 68/308 (22%)
Query: 31 LLVQRFGELMRK---LWNPRNFKSHVSPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLN 87
+ E +R W+ N+K HV+ + L ++ S + E D LS F
Sbjct: 328 RRLSIIAESIRDGLATWD--NWK-HVN-CDKLTTIIESSLNVLEPAEYRKMFDRLSVF-- 381
Query: 88 TLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPPVELEEKVRQRLLLTEEYKETETESPF 147
+ I L + K + + K+ + L+ ++ KE+ P
Sbjct: 382 ----------PPSAHIPTIL-LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS 430
Query: 148 LYLTCDLPPPPLFKDEVLENIIPQVNLYTILTKF--NNESEKEYKTYKENFL-------K 198
+YL +L + L I V+ Y I F ++ Y + + +
Sbjct: 431 IYL--ELKVKLE-NEYALHRSI--VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE 485
Query: 199 RFEITSLPP--YLILYVKRFTKNTFFVEKNPTIVNFPVKNVDFGDILTPEVKAKYESTMY 256
E +L +L RF + + + + N + Y+ +
Sbjct: 486 HPERMTLFRMVFLDF---RFLEQKIRHDSTAWNASGSILN-TLQQL------KFYKPYIC 535
Query: 257 DLVKAKYESTMYDLVANIVHDGEPSNGTYRVHLYHKGIGKWYEIQDLHVTDILPQMITLT 316
D KYE + ++ + E +L K+ TD+L + I L
Sbjct: 536 D-NDPKYERLVNAILDFLPKIEE--------NLIC---SKY--------TDLL-R-IALM 573
Query: 317 EAYIQIYE 324
I+E
Sbjct: 574 AEDEAIFE 581
>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase,
rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus
musculus} SCOP: c.37.1.8 PDB: 1yvd_A*
Length = 170
Score = 29.8 bits (68), Expect = 0.88
Identities = 10/30 (33%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
+ RF +++F NPTI +F K V + +
Sbjct: 23 MWRFVEDSFDPNINPTIGASFMTKTVQYQN 52
>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP
hydrolysis, YPT/RAB protein, endocytosis, hydrolase;
HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP:
c.37.1.8
Length = 170
Score = 29.4 bits (66), Expect = 1.2
Identities = 11/30 (36%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
V RF N F K PTI F + V +
Sbjct: 20 VLRFVSNDFAENKEPTIGAAFLTQRVTINE 49
>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide,
transport protein; HET: GNH; 2.08A {Arabidopsis
thaliana} PDB: 2efd_B 2efc_B* 2efh_B*
Length = 181
Score = 29.0 bits (66), Expect = 1.3
Identities = 9/30 (30%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
V RF K+ F + TI F + + D
Sbjct: 29 VLRFVKDQFVEFQESTIGAAFFSQTLAVND 58
>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein
transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8
PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A*
1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A*
2hei_A* 1z07_A*
Length = 170
Score = 29.0 bits (66), Expect = 1.5
Identities = 10/30 (33%), Positives = 12/30 (40%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
V RF K F + TI F + V D
Sbjct: 23 VLRFVKGQFHEFQESTIGAAFLTQTVCLDD 52
>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue,
structural genomics, structural genomics consortium,
SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens}
SCOP: c.37.1.8
Length = 192
Score = 29.1 bits (66), Expect = 1.6
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
V RF ++ F +PTI +F K V G+
Sbjct: 40 VCRFVQDHFDHNISPTIGASFMTKTVPCGN 69
>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular
trafficking, protein transport; HET: GDP; 2.15A {Homo
sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*
Length = 179
Score = 28.7 bits (65), Expect = 1.7
Identities = 7/30 (23%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
+ +FT+ F + TI V F + ++
Sbjct: 32 LHQFTEKKFMADCPHTIGVEFGTRIIEVSG 61
>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics,
structural genomics consortium, SGC, protein transport;
HET: GDP; 2.20A {Homo sapiens}
Length = 200
Score = 28.7 bits (65), Expect = 1.8
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
+ +F +N F + N TI V F + V+ G
Sbjct: 42 LHQFIENKFKQDSNHTIGVEFGSRVVNVGG 71
>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking,
protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP:
c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*
Length = 170
Score = 28.2 bits (64), Expect = 2.2
Identities = 8/30 (26%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
V R+ +N F + T+ +F K ++ G
Sbjct: 23 VLRYCENKFNDKHITTLGASFLTKKLNIGG 52
>1oix_A RAS-related protein RAB-11A; small G protein, intracellular
trafficking, GTP-binding, lipoprotein, prenylation,
protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP:
c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*
Length = 191
Score = 28.3 bits (64), Expect = 2.6
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
+ RFT+N F +E TI V F +++
Sbjct: 46 LSRFTRNEFNLESKSTIGVEFATRSIQVDG 75
>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular
transport, acetylation, golgi apparatus, lipoprotein,
membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}
Length = 223
Score = 28.5 bits (64), Expect = 2.7
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
+ RFTKN F ++ TI V F + ++
Sbjct: 30 LSRFTKNEFNMDSKSTIGVEFATRTLEIEG 59
>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB
GTPase, ARL GTPase, golgin, RAB effector, clAsp protein;
HET: GTP; 3.00A {Homo sapiens}
Length = 211
Score = 28.4 bits (64), Expect = 3.0
Identities = 8/30 (26%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
+ RF ++F TI ++F K + D
Sbjct: 33 ITRFMYDSFDNTYQATIGIDFLSKTMYLED 62
>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular
transport, endocytosis, prenylation, protein transport,
transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8
PDB: 2bmd_A* 1yu9_A* 1z0k_A*
Length = 186
Score = 28.3 bits (64), Expect = 3.0
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
+ +F + F + N TI V F K ++ G
Sbjct: 27 LHQFIEKKFKDDSNHTIGVEFGSKIINVGG 56
>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle
transport, hydrolase; HET: GDP; 1.55A {Homo sapiens}
SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A*
2gzh_A* 2d7c_A* 3bfk_A*
Length = 199
Score = 28.0 bits (63), Expect = 3.1
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
+ RFT+N F +E TI V F +++
Sbjct: 22 LSRFTRNEFNLESKSTIGVEFATRSIQVDG 51
>2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-, struc
genomics, PSI-2, protein structure initiative, joint
center structural genomics; 2.55A {Bacillus halodurans}
Length = 233
Score = 28.5 bits (64), Expect = 3.1
Identities = 10/50 (20%), Positives = 17/50 (34%), Gaps = 5/50 (10%)
Query: 292 KGIGKW----YEIQDLHVTDILPQM-ITLTEAYIQIYELRTTPSPTAMSE 336
KGIG+W + + L D+L + L +Y +
Sbjct: 144 KGIGQWTAEMFMMFSLGRLDVLSVGDVGLQRGAKWLYGNGEGDGKKLLIY 193
>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural
genomics, structural genomics consortium, SGC, protein
transport; HET: GDP; 2.30A {Homo sapiens}
Length = 193
Score = 28.0 bits (63), Expect = 3.6
Identities = 11/28 (39%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
RFT+N F + TI V F + V G
Sbjct: 44 RFTRNEFSHDSRTTIGVEFSTRTVMLGT 71
>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics,
GTP-binding, nucleotide-binding, signaling protein; HET:
GDP; 1.89A {Plasmodium falciparum}
Length = 208
Score = 27.9 bits (62), Expect = 3.7
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
V R TK+TF N TI +F V+ D
Sbjct: 24 VLRLTKDTFHENTNTTIGASFCTYVVNLND 53
>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics,
structural genomics consortium, SGC, signaling protein;
HET: GDP; 2.05A {Homo sapiens}
Length = 201
Score = 28.0 bits (63), Expect = 3.8
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
RF F + TI V+F +K ++
Sbjct: 48 RFKTGAFSERQGSTIGVDFTMKTLEIQG 75
>2fhe_A GST, glutathione S-transferase; transferase-substrate complex; HET:
GSH; 2.30A {Fasciola hepatica} SCOP: a.45.1.1 c.47.1.5
PDB: 2wrt_A 1fhe_A*
Length = 216
Score = 27.9 bits (62), Expect = 4.1
Identities = 9/41 (21%), Positives = 17/41 (41%)
Query: 192 YKENFLKRFEITSLPPYLILYVKRFTKNTFFVEKNPTIVNF 232
K LK + LP + ++ KN + + + V+F
Sbjct: 112 PKFEQLKEGYLKDLPTTMKMWSDFLGKNPYLRGTSVSHVDF 152
>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: GNP; 1.32A {Homo sapiens}
SCOP: c.37.1.8
Length = 195
Score = 27.6 bits (62), Expect = 4.2
Identities = 12/28 (42%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
RFT +TF E TI V+F VK +
Sbjct: 34 RFTDDTFDPELAATIGVDFKVKTISVDG 61
>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP
binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB:
3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*
Length = 179
Score = 27.5 bits (62), Expect = 4.2
Identities = 8/30 (26%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
+ RF ++F TI ++F K + D
Sbjct: 31 ITRFMYDSFDNTYQATIGIDFLSKTMYLED 60
>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural
genomics, structural genomics consortium, SGC, protein
transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8
PDB: 1z0a_A*
Length = 191
Score = 27.6 bits (62), Expect = 4.4
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
+ +FT F + TI V F + V+
Sbjct: 38 LLQFTDKRFQPVHDLTIGVEFGARMVNIDG 67
>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon
cuniculi}
Length = 218
Score = 27.7 bits (62), Expect = 4.5
Identities = 10/39 (25%), Positives = 14/39 (35%), Gaps = 5/39 (12%)
Query: 213 VKRFTKNTFFVEKNPTI--VNFPVKNVDFGDILTPEVKA 249
+ R F N T+ VN PV +D +K
Sbjct: 28 INRVLDGRFEKNYNATVGAVNHPVTFLDDQG---NVIKF 63
>2cvd_A Glutathione-requiring prostaglandin D synthase;
glutathione-S-transferase, isomerase; HET: GSH HQL;
1.45A {Homo sapiens} SCOP: a.45.1.1 c.47.1.5 PDB:
1iyi_A* 1v40_A* 1iyh_A* 3vi5_A* 3vi7_A* 2vcq_A* 2vcw_A*
2vcx_A* 2vcz_A* 2vd0_A* 2vd1_A* 3kxo_A* 3ee2_A* 1pd2_1*
Length = 198
Score = 27.7 bits (62), Expect = 4.6
Identities = 5/44 (11%), Positives = 12/44 (27%)
Query: 189 YKTYKENFLKRFEITSLPPYLILYVKRFTKNTFFVEKNPTIVNF 232
+ KE + P + + + + T +F
Sbjct: 107 KQDVKEQMFNELLTYNAPHLMQDLDTYLGGREWLIGMSVTWADF 150
>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase,
geranylgeranylation, vesicular transport, protein
transport; HET: GDP GER; 1.48A {Saccharomyces
cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A*
3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*
Length = 206
Score = 27.7 bits (62), Expect = 5.2
Identities = 9/28 (32%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
RF+ +T+ + TI V+F +K V+
Sbjct: 27 RFSDDTYTNDYISTIGVDFKIKTVELDG 54
>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural
genomics, SGC, structural genomics consortium, signaling
protein; HET: GDP; 2.15A {Homo sapiens}
Length = 199
Score = 27.6 bits (62), Expect = 5.3
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
R KN F + T+ V+F +K +
Sbjct: 47 RLCKNEFRENISATLGVDFQMKTLIVDG 74
>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding,
guanine-nucleotide exchang GDI-displacement factor;
2.85A {Homo sapiens}
Length = 199
Score = 27.2 bits (61), Expect = 5.5
Identities = 7/28 (25%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
RF +T+ TI V+F ++ ++
Sbjct: 52 RFADDTYTESYISTIGVDFKIRTIELDG 79
>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular
trafficking, protein transport; HET: GNP; 1.81A {Mus
musculus} SCOP: c.37.1.8 PDB: 2g77_B*
Length = 189
Score = 27.2 bits (61), Expect = 5.7
Identities = 9/28 (32%), Positives = 11/28 (39%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
RF F TI V+F + VD
Sbjct: 39 RFCAGRFPDRTEATIGVDFRERAVDIDG 66
>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics,
structural genomics consortium, SGC, protein transport;
HET: GDP; 2.10A {Homo sapiens}
Length = 192
Score = 27.2 bits (61), Expect = 5.8
Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
RFT +TF T+ V+F +K V+
Sbjct: 45 RFTDDTFCEACKSTVGVDFKIKTVELRG 72
>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural
genomics, structural genomics consortium, SGC, signaling
protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8
Length = 201
Score = 27.2 bits (61), Expect = 5.9
Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
RFT+ F + TI V+F +K V+
Sbjct: 45 RFTQGLFPPGQGATIGVDFMIKTVEING 72
>3s6i_A DNA-3-methyladenine glycosylase 1; DNA glycosylase, DNA repair,
helix-hairpin-helix (HHH), ABAS tetrahydrofuran (THF);
HET: 3DR; 2.28A {Schizosaccharomyces pombe}
Length = 228
Score = 27.4 bits (61), Expect = 6.2
Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 292 KGIGKW----YEIQDLHVTDILPQM-ITLTEAYIQIYELRTTPSPTAMSE 336
KGIG+W I L+ D++P +++ Y ++ L P+ + +
Sbjct: 145 KGIGRWTVEMLLIFSLNRDDVMPADDLSIRNGYRYLHRLPKIPTKMYVLK 194
>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET:
G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*
Length = 178
Score = 27.1 bits (61), Expect = 6.2
Identities = 8/38 (21%), Positives = 15/38 (39%), Gaps = 3/38 (7%)
Query: 213 VKRFTKNTFFVEKNPTI-VNFPVKNVDFGDILTPEVKA 249
F + TF + TI ++F ++ + L V
Sbjct: 23 TTCFAQETFGKQYKQTIGLDFFLRRITLPGNLN--VTL 58
>3pu6_A Uncharacterized protein; structural genomics, PSI-2, protein
structure initiative, NE SGX research center for
structural genomics; 2.60A {Wolinella succinogenes}
Length = 157
Score = 27.1 bits (60), Expect = 6.3
Identities = 8/42 (19%), Positives = 14/42 (33%), Gaps = 4/42 (9%)
Query: 208 YLILYVKRFTKNTFFVEKNPTIVNFPVKNVDFGDILTPEVKA 249
LI Y++ T F+ I + F + L+
Sbjct: 95 ILISYLRGICSKTIFL----GISVLLENVLHFSEGLSQGASD 132
>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics,
structural genomics consortium, SGC, signaling protein;
HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB:
2iez_A*
Length = 217
Score = 27.3 bits (61), Expect = 6.7
Identities = 8/28 (28%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
R+T N F + T+ ++F K V +
Sbjct: 44 RYTDNKFNPKFITTVGIDFREKRVVYNA 71
>1r1u_A CZRA, repressor protein; zinc, DNA binding, transcriptional
regulation, winged HTH protein, transcription repressor;
2.00A {Staphylococcus aureus} SCOP: a.4.5.5 PDB: 1r1v_A
2kjb_A 2kjc_A
Length = 106
Score = 26.1 bits (58), Expect = 7.0
Identities = 8/21 (38%), Positives = 12/21 (57%), Gaps = 2/21 (9%)
Query: 295 GKW--YEIQDLHVTDILPQMI 313
G+ Y + D+HV +L Q I
Sbjct: 75 GQSMIYSLDDIHVATMLKQAI 95
>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics,
structural genomics consortium, SGC, protein transport;
HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*
Length = 189
Score = 26.8 bits (60), Expect = 7.2
Identities = 8/28 (28%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
R+ ++F T+ ++F VK V D
Sbjct: 41 RYADDSFTPAFVSTVGIDFKVKTVYRHD 68
>2gsq_A Squid GST, glutathione S-transferase; squid digestive gland, sigma
class; HET: GBI; 2.20A {Ommastrephes sloani} SCOP:
a.45.1.1 c.47.1.5 PDB: 1gsq_A*
Length = 202
Score = 26.9 bits (60), Expect = 7.3
Identities = 14/71 (19%), Positives = 25/71 (35%), Gaps = 4/71 (5%)
Query: 162 DEVLENIIPQVNLYTILTKFNNESEKEYKTYKENFLKRFEITSLPPYLILYVKRFTKNTF 221
DE+ E + N + +++ + E KR P L V + F
Sbjct: 88 DEITETLQDIFNDVVKIKFAPEAAKEAVQQNYEKSCKRL----APFLEGLLVSNGGGDGF 143
Query: 222 FVEKNPTIVNF 232
FV + T+ +
Sbjct: 144 FVGNSMTLADL 154
>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein,
endocytosis/exocytosis complex; HET: GDP; 1.80A
{Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A*
2ocy_C 2eqb_A
Length = 170
Score = 26.7 bits (60), Expect = 7.4
Identities = 9/28 (32%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
RF ++ F TI ++F +K VD
Sbjct: 22 RFVEDKFNPSFITTIGIDFKIKTVDING 49
>1tu7_A Glutathione S-transferase 2; HET: GSH; 1.50A {Onchocerca volvulus}
SCOP: a.45.1.1 c.47.1.5 PDB: 1tu8_A*
Length = 208
Score = 26.9 bits (60), Expect = 7.9
Identities = 7/56 (12%), Positives = 14/56 (25%), Gaps = 4/56 (7%)
Query: 177 ILTKFNNESEKEYKTYKENFLKRFEITSLPPYLILYVKRFTKNTFFVEKNPTIVNF 232
E E Y ++ L L + L R + + ++
Sbjct: 101 YTRMIYMAYETEKDPYIKSILPGE----LAKFEKLLATRGNGRNLILGDKISYADY 152
>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein
transport-protein binding compl; HET: GTP; 2.18A {Homo
sapiens}
Length = 196
Score = 26.8 bits (60), Expect = 8.1
Identities = 7/28 (25%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
RF +T+ TI V+F ++ ++
Sbjct: 35 RFADDTYTESYISTIGVDFKIRTIELDG 62
>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase
nucleotide free complex; 2.00A {Mus musculus} SCOP:
c.37.1.8 PDB: 3qbt_A* 3tnf_A*
Length = 183
Score = 26.8 bits (60), Expect = 8.4
Identities = 6/28 (21%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
RF+++ F TI ++F ++ ++
Sbjct: 27 RFSEDAFNSTFISTIGIDFKIRTIELDG 54
>3c22_A C-type lectin domain family 4 member K; coiled coil, glycoprotein,
membrane, signal-anchor, transmembrane, immune system,
sugar binding protein; 1.50A {Homo sapiens} PDB: 3p5g_A*
3p5d_A* 3p5f_A* 3p5e_A* 3p5h_A* 3p5i_A* 3p7g_A* 3p7f_A*
3p7h_A* 3bc7_A* 3bbs_A* 3bc6_A*
Length = 156
Score = 26.6 bits (59), Expect = 8.9
Identities = 5/25 (20%), Positives = 9/25 (36%), Gaps = 3/25 (12%)
Query: 276 HDGEPSNGTYR---VHLYHKGIGKW 297
GEP+N ++ + W
Sbjct: 110 IPGEPNNAGNNEHCGNIKAPSLQAW 134
>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine
exchange factor; 2.10A {Homo sapiens}
Length = 181
Score = 26.4 bits (59), Expect = 9.6
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 215 RFTKNTFFVEKNPTI-VNFPVKNVDFGD 241
RF NTF TI V+F ++ V+
Sbjct: 28 RFADNTFSGSYITTIGVDFKIRTVEING 55
>2a2r_A Glutathione S-transferase P; detoxification, nitric oxide carrier,
S- nitrosoglutathione; HET: MES GSN; 1.40A {Homo
sapiens} SCOP: a.45.1.1 c.47.1.5 PDB: 11gs_A* 12gs_A*
14gs_A* 16gs_A* 18gs_A* 21gs_A* 13gs_A* 2a2s_A* 3dd3_A*
3dgq_A* 3n9j_A* 3pgt_A* 1pgt_A* 2pgt_A* 4pgt_A* 22gs_A*
17gs_A* 3gus_A* 10gs_A* 1aqv_A* ...
Length = 210
Score = 26.6 bits (59), Expect = 9.9
Identities = 11/79 (13%), Positives = 24/79 (30%), Gaps = 5/79 (6%)
Query: 174 LYTILTKFNNESEKEYKTYKENFLKRFEITSLPPYLILYVKRFTKNTFFVEKNPTIVNFP 233
L + + K L L P+ L + TF V + ++
Sbjct: 100 LRCKYISLIYTNYEAGKDDYVKALPGQ----LKPFETLLSQNQGGKTFIVGDQISFADYN 155
Query: 234 VKNV-DFGDILTPEVKAKY 251
+ ++ ++L P +
Sbjct: 156 LLDLLLIHEVLAPGCLDAF 174
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 0.137 0.408
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,210,809
Number of extensions: 304062
Number of successful extensions: 741
Number of sequences better than 10.0: 1
Number of HSP's gapped: 709
Number of HSP's successfully gapped: 79
Length of query: 337
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 243
Effective length of database: 4,077,219
Effective search space: 990764217
Effective search space used: 990764217
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 (25.7 bits)