RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2130
(470 letters)
>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 (353), Expect = 1e-36
Identities = 40/134 (29%), Positives = 60/134 (44%), Gaps = 15/134 (11%)
Query: 71 SDEFDNYMQQDAHEFLNFLINHINEVILSERPQSNAKSKLSAPDGGGGDNHSSSGFEEPT 130
+ Y QQDAHEF F+IN I++ + + P + S+ ++ +
Sbjct: 232 NQNLAGYSQQDAHEFWQFIINQIHQSYVLDLPNAKEVSR-------------ANNKQCEC 278
Query: 131 WVHEIFQGILTSETKCLNCETVSSKD-EDFFDLQVDIKQNTSITQCLRGFSSTETLCSDN 189
VH +F+G L S C C+ S + F DL +DIK + +CL F E L D
Sbjct: 279 IVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIKDKKKLYECLDSFHKKEQLK-DF 337
Query: 190 KFKCDNCASYQEAQ 203
+ C C S Q+A
Sbjct: 338 NYHCGECNSTQDAI 351
Score = 126 bits (318), Expect = 6e-32
Identities = 41/138 (29%), Positives = 62/138 (44%), Gaps = 24/138 (17%)
Query: 326 EKCMKVKKLPMILALHLKRFKYMDKMNRHVKVSHRVVFPLELRLF---------HLSDDA 376
K + + KLP +L L LKRF+++ + K+ + FP L + S++
Sbjct: 351 IKQLGIHKLPSVLVLQLKRFEHLLN-GSNRKLDDFIEFPTYLNMKNYCSTKEKDKHSENG 409
Query: 377 VNPDRMYNLVAVVIHCGSGPNRGHYISIVK-SHDFWLLFDDDVVDKIDQSTIEDFFGLTS 435
PD +Y L+ +V H G+ N GHYI+ K S W F+D +V I Q +
Sbjct: 410 KVPDIIYELIGIVSHKGT-VNEGHYIAFCKISGGQWFKFNDSMVSSISQEEV-------- 460
Query: 436 DHQKSSETGYILFYQSRD 453
E Y+LFY R
Sbjct: 461 ----LKEQAYLLFYTIRQ 474
Score = 100 bits (249), Expect = 7e-23
Identities = 35/202 (17%), Positives = 59/202 (29%), Gaps = 17/202 (8%)
Query: 146 CLNCETVSSKDEDFFDLQVDIKQNTSITQCLRGFSSTETLCSDNKFKCDNCASYQEAQGP 205
CL C + F + G + +
Sbjct: 65 CLQCGFCGCWNHSHFLSHSKQIGHIFGINSNNGLLFC---FKCEDYIGNIDLINDAILAK 121
Query: 206 NISALEKEIGPDRFPPNERYFGLVNFGNTCYSNSVLQALYFCKPFRDRVLEYKAKNKKNK 265
+ + + GL+N G+TC+ +S+LQ L F + N
Sbjct: 122 YWDDVCTKTMVPSMERRDGLSGLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKV 181
Query: 266 ETLLSCLA--------DLFHNIATHKKKVGS------IAPKKFITRLRKEKDEFDNYMQQ 311
+ C + +L+ + T + S +T K Y QQ
Sbjct: 182 RSPDKCFSCALDKIVHELYGALNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQ 241
Query: 312 DAHEFLNFLINHINEKCMKVKK 333
DAHEF F+IN I++ +
Sbjct: 242 DAHEFWQFIINQIHQSYVLDLP 263
>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 = 133 bits (337), Expect = 2e-35
Identities = 39/140 (27%), Positives = 65/140 (46%), Gaps = 7/140 (5%)
Query: 71 SDEFDNYMQQDAHEFLNFLINHINEVIL--SERPQSNAKSKLSAPDGGGGDNHSSSGFE- 127
+ F Y QQDA EFL FL++ ++ + + RP+SN ++ PD G E
Sbjct: 90 APRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPENLDHLPDDEKGRQMWRKYLER 149
Query: 128 EPTWVHEIFQGILTSETKCLNCETVSSKDEDFFDLQVDIKQNT----SITQCLRGFSSTE 183
E + + ++F G L S C +C S+ + F+DL + I + ++ C+R F+ +
Sbjct: 150 EDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIAKRGYPEVTLMDCMRLFTKED 209
Query: 184 TLCSDNKFKCDNCASYQEAQ 203
L D K C C +
Sbjct: 210 VLDGDEKPTCCRCRGRKRCI 229
Score = 115 bits (290), Expect = 7e-29
Identities = 36/114 (31%), Positives = 56/114 (49%), Gaps = 6/114 (5%)
Query: 227 GLVNFGNTCYSNSVLQALYFCKPFRDRVLEYKAKNKKNKET-----LLSCLADLFHNIAT 281
GL N GNTC+ NS+LQ L + RD L+ + + L+ A L I T
Sbjct: 11 GLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIWT 70
Query: 282 HKKKVGSIAPKKFITRLRKEKDEFDNYMQQDAHEFLNFLINHINEKCMKVKKLP 335
++P +F T++++ F Y QQDA EFL FL++ ++ + +V P
Sbjct: 71 SSPN-DVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRP 123
Score = 109 bits (273), Expect = 2e-26
Identities = 38/135 (28%), Positives = 54/135 (40%), Gaps = 18/135 (13%)
Query: 326 EKCMKVKKLPMILALHLKRFKYMDKMNRHVKVSHRVVFPLELRLFHLSDDAVNPDRMYNL 385
K +++ P IL LHLKRF R K++ V FPL +YNL
Sbjct: 229 IKKFSIQRFPKILVLHLKRFSES--RIRTSKLTTFVNFPLRDLDLREFASENTNHAVYNL 286
Query: 386 VAVVIHCGSGPNRGHYISIVKSH--DFWLLFDDDVVDKIDQSTIEDFFGLTSDHQKSSET 443
AV H G+ GHY + +S W F+D V + S + +
Sbjct: 287 YAVSNHSGT-TMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVR------------TSD 333
Query: 444 GYILFYQSRDSTDAR 458
Y+LFY+ S +R
Sbjct: 334 AYLLFYE-LASPPSR 347
>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 = 131 bits (331), Expect = 3e-34
Identities = 34/142 (23%), Positives = 64/142 (45%), Gaps = 13/142 (9%)
Query: 71 SDEFDNYMQQDAHEFLNFLINHINEVILSERPQSNAKSKLSAPDGGGGDNHSSSGFE--- 127
+D+F Y QQD+ E L FL++ ++E + + + + D+ ++
Sbjct: 144 NDQFAGYSQQDSQELLLFLMDGLHEDLNKADN----RKRYKEENNDHLDDFKAAEHAWQK 199
Query: 128 ----EPTWVHEIFQGILTSETKCLNCETVSSKDEDFFDLQVDIKQNT--SITQCLRGFSS 181
+ + +FQG S +CL C S E F L + + + ++ CLR FS
Sbjct: 200 HKQLNESIIVALFQGQFKSTVQCLTCHKKSRTFEAFMYLSLPLASTSKCTLQDCLRLFSK 259
Query: 182 TETLCSDNKFKCDNCASYQEAQ 203
E L +N+F C +C + +++
Sbjct: 260 EEKLTDNNRFYCSHCRARRDSL 281
Score = 118 bits (297), Expect = 2e-29
Identities = 36/141 (25%), Positives = 56/141 (39%), Gaps = 5/141 (3%)
Query: 200 QEAQGPNISALEKEIGPDRFPPNERYFGLVNFGNTCYSNSVLQALYFCKPFRDRVLEYKA 259
+ ++ + + P GL N GNTCY NS+LQ L D
Sbjct: 37 KAEISRLSASQIRNLNPVFGGSGPALTGLRNLGNTCYMNSILQCLCNAPHLADYFNRNCY 96
Query: 260 KNKKNKETLLSCLADLFHNIATHKKKV-----GSIAPKKFITRLRKEKDEFDNYMQQDAH 314
++ N+ LL ++ K + I+PK F + K D+F Y QQD+
Sbjct: 97 QDDINRSNLLGHKGEVAEEFGIIMKALWTGQYRYISPKDFKITIGKINDQFAGYSQQDSQ 156
Query: 315 EFLNFLINHINEKCMKVKKLP 335
E L FL++ ++E K
Sbjct: 157 ELLLFLMDGLHEDLNKADNRK 177
Score = 103 bits (258), Expect = 2e-24
Identities = 45/129 (34%), Positives = 61/129 (47%), Gaps = 18/129 (13%)
Query: 327 KCMKVKKLPMILALHLKRFKYMDKMNRHVKVSHRVVFPLE-LRLFHLSDDAVNPDRMYNL 385
K +++ KLP +L +HLKRF Y + + K+ V FPLE L L N + YNL
Sbjct: 282 KKIEIWKLPPVLLVHLKRFSYDGRWKQ--KLQTSVDFPLENLDLSQYVIGPKNNLKKYNL 339
Query: 386 VAVVIHCGSGPNRGHYISIVK--SHDFWLLFDDDVVDKIDQSTIEDFFGLTSDHQKSSET 443
+V H G G + GHY + K + W FDD V I S+++ S
Sbjct: 340 FSVSNHYG-GLDGGHYTAYCKNAARQRWFKFDDHEVSDISVSSVK------------SSA 386
Query: 444 GYILFYQSR 452
YILFY S
Sbjct: 387 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 = 119 bits (299), Expect = 4e-30
Identities = 35/157 (22%), Positives = 52/157 (33%), Gaps = 24/157 (15%)
Query: 71 SDEFDNYMQQDAHEFLNFLINHINEVILSERPQSNAKSKLSAPDGGGGDNHSSSGFE--- 127
F Y QQDA EFL L+ ++ I ++ +
Sbjct: 83 VPSFSGYSQQDAQEFLKLLMERLHLEINRRGRRAPPILANGPVPSPPRRGGALLEEPELS 142
Query: 128 ---------------EPTWVHEIFQGILTSETKCLNCETVSSKDEDFFDLQVDIKQNT-- 170
E + + ++F G L S KC C S+ E F DL + I +
Sbjct: 143 DDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQACGYRSTTFEVFCDLSLPIPKKGFA 202
Query: 171 ----SITQCLRGFSSTETLCSDNKFKCDNCASYQEAQ 203
S+ C F+ E L S+N CD C +
Sbjct: 203 GGKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRST 239
Score = 113 bits (283), Expect = 6e-28
Identities = 35/130 (26%), Positives = 55/130 (42%), Gaps = 15/130 (11%)
Query: 326 EKCMKVKKLPMILALHLKRFKYMDKMNRHVKVSHRVVFPLELRLFHLSDDAVNPDRMYNL 385
K + V++ P IL LHL RF + K S V FPL+ +Y L
Sbjct: 239 TKKLTVQRFPRILVLHLNRFSASRGSIK--KSSVGVDFPLQRLSLGDFASDKAGSPVYQL 296
Query: 386 VAVVIHCGSGPNRGHYISIVKSHDFWLLFDDDVVDKIDQSTIEDFFGLTSDHQKSSETGY 445
A+ H GS + GHY ++ + W +++D V + ++ + +S GY
Sbjct: 297 YALCNHSGS-VHYGHYTALCRCQTGWHVYNDSRVSPVSENQV------------ASSEGY 343
Query: 446 ILFYQSRDST 455
+LFYQ
Sbjct: 344 VLFYQLMQEP 353
Score = 108 bits (272), Expect = 2e-26
Identities = 32/114 (28%), Positives = 51/114 (44%), Gaps = 3/114 (2%)
Query: 225 YFGLVNFGNTCYSNSVLQALYFCKPFRDRVLEYKAKNKKNKETLLSCLADLFHNIAT--- 281
+ GL N GNTC+ N+VLQ L +P RD L + + L + F ++
Sbjct: 3 HVGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQELTEAFADVIGALW 62
Query: 282 HKKKVGSIAPKKFITRLRKEKDEFDNYMQQDAHEFLNFLINHINEKCMKVKKLP 335
H ++ P +F +K F Y QQDA EFL L+ ++ + + +
Sbjct: 63 HPDSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLLMERLHLEINRRGRRA 116
>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 = 120 bits (301), Expect = 5e-30
Identities = 31/120 (25%), Positives = 52/120 (43%), Gaps = 14/120 (11%)
Query: 227 GLVNFGNTCYSNSVLQALYFCKPFRDRVLEYKAKNKKN-----KETLLSCLADLFHNIAT 281
GL N GNTCY N+ +Q + +D + Y + + + + + L DLF ++
Sbjct: 16 GLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQYITAALRDLFDSM-- 73
Query: 282 HKKKVGSIAPKKFITRLRK------EKDEFDNYMQQDAHEFLNFLINHINEKCMKVKKLP 335
K SI P + L EK E Y+QQDA+E ++ + +K ++
Sbjct: 74 -DKTSSSIPPIILLQFLHMAFPQFAEKGEQGQYLQQDANECWIQMMRVLQQKLEAIEDDS 132
Score = 109 bits (274), Expect = 2e-26
Identities = 45/178 (25%), Positives = 61/178 (34%), Gaps = 55/178 (30%)
Query: 326 EKCMKVKKLPMILALHLKRFKYMDKMNRHVKVSHRVVFPLELRLFHL------------- 372
K K+ +LP L + + RF Y +K + + KV V FPL L ++ L
Sbjct: 222 IKSSKISRLPAYLTIQMVRFFYKEKESVNAKVLKDVKFPLMLDMYELCTPELQEKMVSFR 281
Query: 373 ------------------------------------SDDAVNPDRMYNLVAVVIHCGSGP 396
D N Y+L AV+ H G
Sbjct: 282 SKFKDLEDKKVNQQPNTSDKKSSPQKEVKYEPFSFADDIGSNNCGYYDLQAVLTHQGRSS 341
Query: 397 NRGHYISIVK-SHDFWLLFDDDVVDKIDQSTIEDFFGLTSDHQKSSETGYILFYQSRD 453
+ GHY+S VK D W+ FDDD V + I G H Y+L Y R
Sbjct: 342 SSGHYVSWVKRKQDEWIKFDDDKVSIVTPEDILRLSGGGDWH-----IAYVLLYGPRR 394
Score = 95.5 bits (237), Expect = 1e-21
Identities = 18/131 (13%), Positives = 40/131 (30%), Gaps = 10/131 (7%)
Query: 71 SDEFDNYMQQDAHEFLNFLINHINEVILSERPQSNAKSKLSAPDGGGGDNHSSSGFEEPT 130
E Y+QQDA+E ++ + + + A S + +++ ++ +
Sbjct: 99 KGEQGQYLQQDANECWIQMMRVLQQKL-------EAIEDDSVKETDSSSASAATPSKKKS 151
Query: 131 WVHEIFQGILTSETKCLNCETVSSKDEDFFDLQVDIKQNTSIT---QCLRGFSSTETLCS 187
+ + F + KC E LQ+ N + L+ E
Sbjct: 152 LIDQFFGVEFETTMKCTESEEEEVTKGKENQLQLSCFINQEVKYLFTGLKLRLQEEITKQ 211
Query: 188 DNKFKCDNCAS 198
+ +
Sbjct: 212 SPTLQRNALYI 222
>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 = 114 bits (286), Expect = 2e-28
Identities = 41/137 (29%), Positives = 61/137 (44%), Gaps = 7/137 (5%)
Query: 326 EKCMKVKKLPMILALHLKRFKYMDKMNRHVKVSHRVVFPLELRLFH-LSDDAVNPDRMYN 384
EK +K LP +L L L RF Y + ++++K++ R FP +L L L Y
Sbjct: 183 EKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDEFLQKTDPKDPANYI 242
Query: 385 LVAVVIHCGSGPNRGHYISIVK--SHDFWLLFDDDVVDKIDQST-IEDFFGLTSD--HQK 439
L AV++H G + GHY+ + W FDDDVV + + IE +G D +
Sbjct: 243 LHAVLVHSGD-NHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVR 301
Query: 440 SSETGYILFYQSRDSTD 456
Y+L Y
Sbjct: 302 HCTNAYMLVYIRESKLS 318
Score = 108 bits (272), Expect = 2e-26
Identities = 27/132 (20%), Positives = 52/132 (39%), Gaps = 27/132 (20%)
Query: 72 DEFDNYMQQDAHEFLNFLINHINEVILSERPQSNAKSKLSAPDGGGGDNHSSSGFEEPTW 131
+ D++MQ D E L++++ G
Sbjct: 79 ETLDSFMQHDVQELCRVLLDNVEN--------------------------KMKGTCVEGT 112
Query: 132 VHEIFQGILTSETKCLNCETVSSKDEDFFDLQVDIKQNTSITQCLRGFSSTETLCSDNKF 191
+ ++F+G + S +C + S + ED++D+Q+ IK +I + + + E L DNK+
Sbjct: 113 IPKLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDGDNKY 172
Query: 192 KCDNCASYQEAQ 203
QEA+
Sbjct: 173 DAGEH-GLQEAE 183
Score = 95.7 bits (238), Expect = 7e-22
Identities = 31/104 (29%), Positives = 47/104 (45%), Gaps = 5/104 (4%)
Query: 225 YFGLVNFGNTCYSNSVLQALYFCKPFRDRVLEYKAKNKKNKETLLSCLADLFHNIATHKK 284
Y GL N G TCY NS+LQ L+F R V + + +++ L +F+ + K
Sbjct: 6 YVGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPTEGDDSSKSVPLALQRVFYELQHSDK 65
Query: 285 KVGSIAPKKFITRLRKEKDEFDNYMQQDAHEFLNFLINHINEKC 328
VG KK E D++MQ D E L++++ K
Sbjct: 66 PVG---TKKLTKSFGWET--LDSFMQHDVQELCRVLLDNVENKM 104
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 114 bits (286), Expect = 2e-27
Identities = 41/137 (29%), Positives = 61/137 (44%), Gaps = 7/137 (5%)
Query: 326 EKCMKVKKLPMILALHLKRFKYMDKMNRHVKVSHRVVFPLELRLFH-LSDDAVNPDRMYN 384
EK +K LP +L L L RF Y + ++++K++ R FP +L L L Y
Sbjct: 352 EKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDEFLQKTDPKDPANYI 411
Query: 385 LVAVVIHCGSGPNRGHYISIVK--SHDFWLLFDDDVVDKIDQST-IEDFFGLTSD--HQK 439
L AV++H G + GHY+ + W FDDDVV + + IE +G D +
Sbjct: 412 LHAVLVHSGD-NHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVR 470
Query: 440 SSETGYILFYQSRDSTD 456
Y+L Y
Sbjct: 471 HCTNAYMLVYIRESKLS 487
Score = 108 bits (270), Expect = 2e-25
Identities = 31/150 (20%), Positives = 57/150 (38%), Gaps = 35/150 (23%)
Query: 72 DEFDNYMQQDAHEFLNFLINHINEVILSERPQSNAKSKLSAPDGGGGDNHSSSGFEEPTW 131
+ D++MQ D E L++++ + G
Sbjct: 248 ETLDSFMQHDVQELCRVLLDNVENKM--------------------------KGTCVEGT 281
Query: 132 VHEIFQGILTSETKCLNCETVSSKDEDFFDLQVDIKQNTSITQCLRGFSSTETLCSDNKF 191
+ ++F+G + S +C + S + ED++D+Q+ IK +I + + + E L DNK+
Sbjct: 282 IPKLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDGDNKY 341
Query: 192 KCDNCASYQEAQGPNISALEKEIGPDRFPP 221
QEA EK + PP
Sbjct: 342 DAGEH-GLQEA--------EKGVKFLTLPP 362
Score = 95.8 bits (238), Expect = 2e-21
Identities = 31/104 (29%), Positives = 47/104 (45%), Gaps = 5/104 (4%)
Query: 225 YFGLVNFGNTCYSNSVLQALYFCKPFRDRVLEYKAKNKKNKETLLSCLADLFHNIATHKK 284
Y GL N G TCY NS+LQ L+F R V + + +++ L +F+ + K
Sbjct: 175 YVGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPTEGDDSSKSVPLALQRVFYELQHSDK 234
Query: 285 KVGSIAPKKFITRLRKEKDEFDNYMQQDAHEFLNFLINHINEKC 328
VG KK E D++MQ D E L++++ K
Sbjct: 235 PVG---TKKLTKSFGWET--LDSFMQHDVQELCRVLLDNVENKM 273
>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 = 114 bits (287), Expect = 2e-27
Identities = 53/243 (21%), Positives = 90/243 (37%), Gaps = 34/243 (13%)
Query: 114 DGGGGDNHSSSGFEEPTWVHEIFQGILTSETKCLNCETVSSKDEDFFDLQVDIKQNTSIT 173
DG GG+NH+ + E + + G +T + + +D+ D + +
Sbjct: 244 DGSGGNNHAVEHYRETGYPLAVKLGTITPDGADVYS---YDEDDMVLDPSLAEHLSHFGI 300
Query: 174 QCLRGFSSTETLCSDNKFKCDNCASYQEAQGPNISALEKEIGPDRFPPNERYFGLVNFGN 233
L+ + +T+ + E + L+ GP Y G+ N GN
Sbjct: 301 DMLKMQKTDKTMTELEIDMNQRIGEW-ELIQESGVPLKPLFGP-------GYTGIRNLGN 352
Query: 234 TCYSNSVLQALYFCKPFRDRVLEYKAKNKKN-----KETLLSCLADLFH----------- 277
+CY NSV+Q L+ F+ + ++ K +N + + +A L H
Sbjct: 353 SCYLNSVVQVLFSIPDFQRKYVDKLEKIFQNAPTDPTQDFSTQVAKLGHGLLSGEYSKPV 412
Query: 278 -------NIATHKKKVGSIAPKKFITRLRKEKDEFDNYMQQDAHEFLNFLINHINEKCMK 330
+ K+ IAP+ F + K EF QQDA EF LIN + C
Sbjct: 413 PESGDGERVPEQKEVQDGIAPRMFKALIGKGHPEFSTNRQQDAQEFFLHLINMVERNCRS 472
Query: 331 VKK 333
+
Sbjct: 473 SEN 475
Score = 76.9 bits (188), Expect = 4e-15
Identities = 27/160 (16%), Positives = 46/160 (28%), Gaps = 6/160 (3%)
Query: 46 EQTSLQDKISLGWECSLILELDLCSSDEFDNYMQQDAHEFLNFLINHINEVILSERPQSN 105
E+ Q ++ G + L EF QQDA EF LIN + S +
Sbjct: 419 ERVPEQKEVQDGIAPRMFKALIGKGHPEFSTNRQQDAQEFFLHLINMVERNCRSSENPNE 478
Query: 106 AKSKLSAPDGGGGDNHSSSGFEEPTWV---HEIFQGILTSETKCLNCETVSSKDEDFFDL 162
L + ++ L E E +E+ L
Sbjct: 479 VFRFLVEEKIKCLATEKVKYTQRVDYIMQLPVPMDAALNKEELLEYEEKKRQAEEEKMAL 538
Query: 163 QVDIKQNTSITQCLRGFSSTETLCSDNKFKCDNCASYQEA 202
++ + CL + + E + + F + A
Sbjct: 539 PELVRAQVPFSSCLEAYGAPEQV---DDFWSTALQAKSVA 575
Score = 68.4 bits (166), Expect = 2e-12
Identities = 19/82 (23%), Positives = 31/82 (37%), Gaps = 14/82 (17%)
Query: 373 SDDAVNPDRMYNLVAVVIHCGSGPNRGHYISIVKSHDFWLLFDDDVVDKIDQSTIEDFFG 432
+ Y L A + H G+ GHY+ +K W++++D V ++
Sbjct: 787 GPKVRDGPGKYQLFAFISHMGTSTMCGHYVCHIKKEGRWVIYNDQKVCASEKPP------ 840
Query: 433 LTSDHQKSSETGYILFYQSRDS 454
+ GYI FYQ S
Sbjct: 841 --------KDLGYIYFYQRVAS 854
Score = 46.4 bits (109), Expect = 2e-05
Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 1/55 (1%)
Query: 327 KCMKVKKLPMILALHLKRFKYMDKMNRHVKVSHRVVFPLELRLFHLSDDAVNPDR 381
K + P L + +K+F + K+ + P EL + L + P
Sbjct: 577 KTTRFASFPDYLVIQIKKFTFGLDWVPK-KLDVSIEMPEELDISQLRGTGLQPGE 630
>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo
sapiens}
Length = 367
Score = 104 bits (261), Expect = 6e-25
Identities = 33/159 (20%), Positives = 60/159 (37%), Gaps = 30/159 (18%)
Query: 71 SDEFDNYMQQDAHEFLNFLINHINEVILSERPQSNAKSKLSAPDGGGGDNHSSSGFE--- 127
+ +F Y QQD+ E L FL++ ++E + + K L D G + +
Sbjct: 90 APQFSGYQQQDSQELLAFLLDGLHEDLNRVKK----KPYLELKDANGRPDAVVAKEAWEN 145
Query: 128 ----EPTWVHEIFQGILTSETKCLNCETVSSKDEDFFDLQVDIKQNT------------- 170
+ + + F G+ S C C VS + F L + +
Sbjct: 146 HRLRNDSVIVDTFHGLFKSTLVCPECAKVSVTFDPFCYLTLPLPLKKDRVMEGPMLQPQK 205
Query: 171 ------SITQCLRGFSSTETLCSDNKFKCDNCASYQEAQ 203
++ C+ F++ ETL + + C NC +Q+A
Sbjct: 206 KKKTTVALRDCIELFTTMETLGEHDPWYCPNCKKHQQAT 244
Score = 100 bits (251), Expect = 1e-23
Identities = 39/116 (33%), Positives = 62/116 (53%), Gaps = 5/116 (4%)
Query: 227 GLVNFGNTCYSNSVLQALYFCKPFRDRVL--EYKAK-NKKNKETLLSCLADLFHNI--AT 281
GL N GNTC+ NS LQ L P D L EY+A+ N+ N + +A+ + +
Sbjct: 10 GLGNLGNTCFMNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGEIAEAYAELIKQM 69
Query: 282 HKKKVGSIAPKKFITRLRKEKDEFDNYMQQDAHEFLNFLINHINEKCMKVKKLPMI 337
+ +AP+ F T++ + +F Y QQD+ E L FL++ ++E +VKK P +
Sbjct: 70 WSGRDAHVAPRMFKTQVGRFAPQFSGYQQQDSQELLAFLLDGLHEDLNRVKKKPYL 125
Score = 99.6 bits (248), Expect = 4e-23
Identities = 40/138 (28%), Positives = 58/138 (42%), Gaps = 18/138 (13%)
Query: 327 KCMKVKKLPMILALHLKRFKYMDKMNRHVKVSHRVVFPLE-LRLFHLSDDAVNPDRMYNL 385
K + LP IL +HLKRF Y K+ V FP+ L + + +Y+L
Sbjct: 245 KKFDLWSLPKILVVHLKRFSYNR--YWRDKLDTVVEFPIRGLNMSEFVCNLSARPYVYDL 302
Query: 386 VAVVIHCGSGPNRGHYISIVKSH--DFWLLFDDDVVDKIDQSTIEDFFGLTSDHQKSSET 443
+AV H G+ GHY + K+ W FDD V + I ++
Sbjct: 303 IAVSNHYGA-MGVGHYTAYAKNKLNGKWYYFDDSNVSLASEDQIV------------TKA 349
Query: 444 GYILFYQSRDSTDARTMN 461
Y+LFYQ RD +T +
Sbjct: 350 AYVLFYQRRDDEFYKTPS 367
>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 = 102 bits (254), Expect = 8e-24
Identities = 52/388 (13%), Positives = 101/388 (26%), Gaps = 93/388 (23%)
Query: 71 SDEFDNYMQQDAHEFLNFLINHINEVILSERPQSNAKSKLSAPDGGGGDNHSSSGFEEPT 130
+ Y QQDA E L + ++ V
Sbjct: 115 DSQGGFYKQQDAEELFTQLFHSMSIVF-------------------------------GD 143
Query: 131 WVHEIFQGILTSETKCL--NCETVSSKDEDFFDLQVDIKQNTSITQCLRGFSSTETLCSD 188
E F+ + K + + ++E LQ I T+ + E +
Sbjct: 144 KFSEDFRIQFKTTIKDTANDNDITVKENESDSKLQCHISGTTNFMRNGLLEGLNEKIEKR 203
Query: 189 NKFKCDNCASYQEAQGPNISALEKEIGPDRFPPNERYFGLVNFGNTCYSNSVLQALYFCK 248
+ N E R P + + +
Sbjct: 204 SDLTGANSIY------------SVEKKISRLPKF-------------------LTVQYVR 232
Query: 249 PFRDRVLEYKAKNKKNKETLLSCLADLFHNIATHKKKVGSIAPKKFITRLRKEKDEFDNY 308
F R K+K I + +T +
Sbjct: 233 FFWKRSTNKKSK------------------ILRKVVFPFQLDVADMLTPEYAAEKV---K 271
Query: 309 MQQDAHEFLNFLINHINEKCMKVKKLPMILALHLKRFKYMDKMNRHVKVSHRVVFPLELR 368
++ + + E + + R +Y ++ + + + +
Sbjct: 272 VRDELRKVEKEKNEKEREIKRRKFDPSSSENVMTPREQYETQVALNESEKDQWLEEYKKH 331
Query: 369 LFHLSDDAVNPDRMYNLVAVVIHCGSGPNRGHYISIVKS---HDFWLLFDDDVVDKIDQS 425
+ NP +YNL+ V+ H G+ GHY + ++ + W F+DD V +++
Sbjct: 332 FPPNLEKGENPSCVYNLIGVITHQGANSESGHYQAFIRDELDENKWYKFNDDKVSVVEKE 391
Query: 426 TIEDFFGLTSDHQKSSETGYILFYQSRD 453
IE G + IL Y+
Sbjct: 392 KIESLAGGGESD-----SALILMYKGFG 414
Score = 98.0 bits (243), Expect = 2e-22
Identities = 34/122 (27%), Positives = 52/122 (42%), Gaps = 18/122 (14%)
Query: 222 NERYFGLVNFGNTCYSNSVLQALYFCKPFRDRVLEYK---------AKNKKNKETLLSCL 272
+ G N GNTCY N+ LQALY RD +L Y A++++ + ++ +
Sbjct: 21 AQLPVGFKNMGNTCYLNATLQALYRVNDLRDMILNYNPSQGVSNSGAQDEEIHKQIVIEM 80
Query: 273 ADLFHNIATHKKKVGSIAPKKFITRLRKEKDEF-------DNYMQQDAHEFLNFLINHIN 325
F N+ K S+ P + LRK +F Y QQDA E L + ++
Sbjct: 81 KRCFENLQNKSFK--SVLPVVLLNTLRKCYPQFAERDSQGGFYKQQDAEELFTQLFHSMS 138
Query: 326 EK 327
Sbjct: 139 IV 140
>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 = 64.7 bits (157), Expect = 4e-11
Identities = 76/483 (15%), Positives = 140/483 (28%), Gaps = 173/483 (35%)
Query: 63 ILELDLCSSDEFD-NYMQ-QDAHEFLNFLINH-------INEVI--------LSERPQSN 105
+L L L EF+ Y++ D H L+ E+I +++RP
Sbjct: 83 VLNLCL---TEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDK 139
Query: 106 -AKSKL--SAPDG--------GG-GDNHSSSGFEEPTWVHEIFQGILTSETKCLNCETVS 153
+ S L + +G GG G+ FEE +++ + ++
Sbjct: 140 KSNSALFRAVGEGNAQLVAIFGGQGNT--DDYFEELRDLYQTYHVLV------------- 184
Query: 154 SKDEDFFDLQVDIKQNTSITQCLRGFSSTETLCSDNKFKCDNCASYQEAQGPNISA-LEK 212
D + L T K + QG NI LE
Sbjct: 185 ---GDLIK---------FSAETLSELIRTTL--DAEKV-------FT--QGLNILEWLE- 220
Query: 213 EIGPDRFPPNERYF----------GLVNFGNTCYSNSVLQALYFCKPFRDRVLEYKAKNK 262
P P + Y G++ + Y + K +L +
Sbjct: 221 --NPSNTPDKD-YLLSIPISCPLIGVIQLAH--Y-------VVTAK-----LLGFTPGE- 262
Query: 263 KNKETLLSCLADLFHNIATHKKKVGS---IAPKKFITRLRKEKDEFDNYMQQDAHEFLNF 319
L H + + + IA + F +++ A L F
Sbjct: 263 ---------LRSYLKGATGHSQGLVTAVAIA-------ETDSWESFFVSVRK-AITVL-F 304
Query: 320 LI--------------NHINEKCMKVKK---LPMILALHLKR---FKYMDKMNRHVKVSH 359
I I E ++ + PM+ +L + Y++K N H+
Sbjct: 305 FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGK 364
Query: 360 RVVFPLELRLFHLSDDAV---NPDRMYNLVAVV--IHCGSG------PNRGHYISIVKS- 407
+V E+ L + + + V P +Y L + SG P +
Sbjct: 365 QV----EISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF 420
Query: 408 -------HDFWLLFDDDVVDKIDQSTIEDFFGLTSDHQKSSETGYILFYQSRDSTDARTM 460
H L D I++ +++ + + I Y + D +D R +
Sbjct: 421 LPVASPFHSHLL---VPASDLINKDLVKNNVSFNAKDIQ------IPVYDTFDGSDLRVL 471
Query: 461 NSN 463
+ +
Sbjct: 472 SGS 474
Score = 45.4 bits (107), Expect = 4e-05
Identities = 50/314 (15%), Positives = 87/314 (27%), Gaps = 103/314 (32%)
Query: 72 DEFDNYMQQDAHEFLNFLINHINEVILSERPQSNAKSKLSAPDGGGG----DNHSSSGFE 127
+ DN+ + F I I V +N + G G +N+S+ FE
Sbjct: 1647 NRADNHFKDT----YGFSILDI--V------INNPVNLTIHFGGEKGKRIRENYSAMIFE 1694
Query: 128 EP----TWVHEIFQGILTSETKCLNCETVSSKDEDFFDLQVDIKQNTSITQ-CLRGFSST 182
+IF+ I T T S ++ T TQ L
Sbjct: 1695 TIVDGKLKTEKIFKEINEHSTSY----TFRS-EKGLLSA-------TQFTQPAL------ 1736
Query: 183 ETLCSDNKFKCDNCASYQEAQGPNISALEKEIGPDRFPPNERYF-----G----LVNFGN 233
TL A+++ L+ + G P + F G L
Sbjct: 1737 -TLME--------KAAFE--------DLKSK-G---LIPADATFAGHSLGEYAALA---- 1771
Query: 234 TCYSNSVLQALYFCKPFRD--RVLEY--KAKNK--KNKETLLSCLADLFHNIATHKKKVG 287
++ V+ V+ Y E S + N
Sbjct: 1772 -SLAD-VM-------SIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFS 1822
Query: 288 SIAPKKFITRLRKEKDEF-----DNYM-QQ-------DAHEFLNFLINHINEKCMKVKKL 334
A + + R+ K N QQ A + + ++N I + + + +L
Sbjct: 1823 QEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIEL 1882
Query: 335 PMILALHLKRFKYM 348
+L L+ +
Sbjct: 1883 Q--KSLSLEEVEGH 1894
>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 = 62.2 bits (150), Expect = 2e-10
Identities = 65/479 (13%), Positives = 130/479 (27%), Gaps = 148/479 (30%)
Query: 28 GKTC--KE--KEDRIEKSQP---FWEQTSLQDKISLGWECS--LILEL--DLCSSDEFDN 76
GKT + +++ FW ++L S +LE+ L + +
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFW--------LNLKNCNSPETVLEMLQKLLYQIDPNW 213
Query: 77 YMQQDAHEFLNFLINHINEV---ILSERPQSNAKSKLSAPDGGGGDNHSSSGFEEPTWVH 133
+ D + I+ I +L +P N L N ++
Sbjct: 214 TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL--------LNVQNA------KAW 259
Query: 134 EIFQGILTSETKCLNCET-VSSKDEDFFD-LQVDIKQNTSITQCLRGFSSTET--LCSDN 189
F L+C+ ++++ + D L + S+ + E L
Sbjct: 260 NAFN---------LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL-- 308
Query: 190 KFKCDNCASYQ---EAQGPN------ISALEKEIGPDRF--------------------- 219
K +C E N I+ ++ G +
Sbjct: 309 --KYLDCRPQDLPREVLTTNPRRLSIIAESIRD-GLATWDNWKHVNCDKLTTIIESSLNV 365
Query: 220 -PPNE---RYFGLVNF-GNTCYSNSVLQALYFCKPFRD--RVLE----YKAKNKKNKETL 268
P E + L F + +L ++F D V+ Y K+ KE+
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425
Query: 269 LSCLADLF--------HNIATHKKKVGSIAPKKFITRLRKEKDEFDNY------------ 308
+S + ++ + A H+ V K D Y
Sbjct: 426 IS-IPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNI 484
Query: 309 -MQQDAHEF------LNFLINHINEKCMKVKKLPMILALHLKRFKYMDKMNRHVKVSHRV 361
+ F FL I IL L++ K+
Sbjct: 485 EHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNT-LQQLKFYKP----------- 532
Query: 362 VFPLELRLFHLSDDAVNPDRMYN-LVAVVIHCGSGPNRGHYISIVKSHDFWLLFDDDVV 419
++ D+ +R+ N ++ + Y +++ L+ +D+ +
Sbjct: 533 ---------YICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLR---IALMAEDEAI 579
Score = 52.5 bits (125), Expect = 2e-07
Identities = 73/514 (14%), Positives = 136/514 (26%), Gaps = 176/514 (34%)
Query: 50 LQDKISLGWECSLILEL--DLCSSDEFDN-YMQQDAHEFLNFLINHINEVILSERPQSNA 106
+D ++C + ++ + S +E D+ M +DA L L + +
Sbjct: 25 FEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW-----TLLSKQEEMV 79
Query: 107 KSKLSAPDGGGGDNHSSSGFEEPTWVHEIFQGILTSETKCLNCET---VSSKDEDFFDLQ 163
+ + + N+ ++ + +E + + T + +D + D Q
Sbjct: 80 QKFV---EEVLRINYK--------FLMSPIK----TEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 164 VDIKQNTSITQC---LRGFSSTETLCSDNKFKCDNCASYQEAQGPNISALEKEIGPDRFP 220
V K N S Q LR + L N+
Sbjct: 125 VFAKYNVSRLQPYLKLR-----QALLELRP-------------AKNVLI----------- 155
Query: 221 PNERYFGLVNFGNTCYSNSVLQALYFCKPFRDRVLEYKAKNKKNKETLLSCLADLFHNIA 280
G++ G T + V + ++ KN + ET+L L L + I
Sbjct: 156 -----DGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI- 209
Query: 281 THKKKVGSIAPKKFITRLRKEKDEFDNYMQQDAHEFLNFL-----------INHINEKC- 328
S R+ + E ++ +E N L N N C
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE--NCLLVLLNVQNAKAWNAFNLSCK 267
Query: 329 ---------------------------------------------MKVKKLP-------- 335
+ + LP
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP 327
Query: 336 ----MILAL------HLKRFKYM--DKMNRHVKVSHRVVFPLELR-LFH----LSDDAVN 378
+I +K++ DK+ ++ S V+ P E R +F A
Sbjct: 328 RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI 387
Query: 379 P---------DRMYNLVAVVIH-------CGSGPNRGHYISIVKSHDFWLLFDDDVVDK- 421
P D + + V VV++ P SI +L + ++
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI-SI---PSIYLELKVKLENEY 443
Query: 422 ------IDQSTIEDFFGLTSDHQKSSETGYILFY 449
+D I F + D Y +
Sbjct: 444 ALHRSIVDHYNIPKTF-DSDDLIPPYLDQYFYSH 476
>2vhf_A Ubiquitin carboxyl-terminal hydrolase CYLD; cytokine signalling,
linkage specificity, deubiquitinating enzyme, Lys63-
linked, anti-oncogene; 2.8A {Homo sapiens}
Length = 374
Score = 51.3 bits (122), Expect = 4e-07
Identities = 28/106 (26%), Positives = 44/106 (41%), Gaps = 7/106 (6%)
Query: 224 RYFGLVNFGNTCYSNSVLQALYFCKPFRDRVLEYKAKNKKNKETLLSCLADLFHNIATHK 283
+ G+ N+CY +S L L+ D VL + K K + E L I
Sbjct: 8 KKKGIQGHYNSCYLDSTLFCLFAFSSVLDTVL-LRPKEKNDVEYYSETQELLRTEIVNPL 66
Query: 284 KKVGSIAPKKFITRLRKEKDEFD-----NYMQQDAHEFLNFLINHI 324
+ G + I +LRK ++ + ++D EFLN L +HI
Sbjct: 67 RIYGYV-CATKIMKLRKILEKVEAASGFTSEEKDPEEFLNILFHHI 111
Score = 33.6 bits (76), Expect = 0.14
Identities = 24/141 (17%), Positives = 41/141 (29%), Gaps = 42/141 (29%)
Query: 340 LHLKRFKYMDKMNRHVKVSHRVVFPLELRLFHLSDDAVNPDRMYNLVAVVIHCGSGPNRG 399
LH KR + + V P +L + + M L AV+
Sbjct: 244 LHPKRLNH---------KYNPVSLPKDLPDWDWRHGCIPCQNM-ELFAVLC-----IETS 288
Query: 400 HYISIVKS---HDFWLLFDDDVVDKIDQ-----------STIEDFFGLTSDH-------- 437
HY++ VK WL FD Q + ++ ++ +
Sbjct: 289 HYVAFVKYGKDDSAWLFFDSMADRDGGQNGFNIPQVTPCPEVGEYLKMSLEDLHSLDSRR 348
Query: 438 -----QKSSETGYILFYQSRD 453
++ Y+ YQS
Sbjct: 349 IQGCARRLLCDAYMCMYQSPT 369
Score = 31.7 bits (71), Expect = 0.51
Identities = 26/152 (17%), Positives = 41/152 (26%), Gaps = 37/152 (24%)
Query: 66 LDLCSSDEFDNYMQQDAHEFLNFLINHINEVILSERPQSNAKSKLSAPDGGGGDNHSSSG 125
L+ + ++D EFLN L +H IL P S
Sbjct: 84 LEKVEAASGFTSEEKDPEEFLNILFHH----ILRVEP----------------LLKIRSA 123
Query: 126 FEEPTWVHEIFQGILTSETKCLNCETVSSKDEDFFDLQVDIKQNTS--ITQCLRG----- 178
++ + +Q + K + F + + + S I Q R
Sbjct: 124 GQKVQDCY-FYQIFMEKNEKVGVPTIQQLLEWSFINSNLKFAEAPSCLIIQMPRFGKDFK 182
Query: 179 -----FSSTET----LCSDNKFKCDNCASYQE 201
F S E L D +C C
Sbjct: 183 LFKKIFPSLELNITDLLEDTPRQCRICGGLAM 214
>1jfi_B DR1 protein, transcription regulator NC2 beta chain; histone,
H2A/H2B, tata-DNA, transcription initiation, NC2,
negative cofactor, structural genomics, PSI; 2.62A {Homo
sapiens} SCOP: a.22.1.3
Length = 179
Score = 29.8 bits (66), Expect = 1.3
Identities = 11/50 (22%), Positives = 22/50 (44%), Gaps = 7/50 (14%)
Query: 291 PKKFITRLRKEK-------DEFDNYMQQDAHEFLNFLINHINEKCMKVKK 333
P+ I ++ KE ++ + EF++ + + NE C K +K
Sbjct: 17 PRAAINKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEK 66
>1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens}
SCOP: a.22.1.3
Length = 93
Score = 28.3 bits (63), Expect = 1.5
Identities = 11/51 (21%), Positives = 23/51 (45%), Gaps = 8/51 (15%)
Query: 291 PKKFITRLRKEKDEFDNYMQQDAH--------EFLNFLINHINEKCMKVKK 333
P + R+ K + +DA EF++F+ + +E+C + K+
Sbjct: 10 PIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKR 60
>2qzc_A Transcriptional activator TENA-1; heme oxygenase-like fold,
structural genomics, joint center structural genomics,
JCSG; 1.50A {Sulfolobus solfataricus P2}
Length = 214
Score = 28.9 bits (64), Expect = 2.9
Identities = 18/97 (18%), Positives = 36/97 (37%), Gaps = 20/97 (20%)
Query: 266 ETLLSCLADLFHNIATHKKKVGSIAPKKFITRLRK---EKDEFDNYMQQDAHEFLNFLIN 322
E L++ + +L++ H+ FI ++R D F Y+ QD ++ +
Sbjct: 9 ENLINGVGELWNKYVKHE----------FILKMRDGSLPLDIFRYYLIQDGK----YVED 54
Query: 323 HINEKCMKVKKLP---MILALHLKRFKYMDKMNRHVK 356
+ + K P + L+L + H K
Sbjct: 55 MLRALLIASSKGPIDKVTKILNLVFSSRDKGLETHGK 91
>1udd_A Transcriptional regulator; helix-bundle, lipid binding protein;
2.15A {Pyrococcus horikoshii} SCOP: a.132.1.3
Length = 226
Score = 28.6 bits (63), Expect = 3.6
Identities = 17/94 (18%), Positives = 34/94 (36%), Gaps = 14/94 (14%)
Query: 266 ETLLSCLADLFHNIATHKKKVGSIAPKKFITRLRK---EKDEFDNYMQQDAHEFLNFLIN 322
+ L ++ I H F+ +L ++F Y+ QD + +L L
Sbjct: 7 DKLRRDSEQIWKKIFEHP----------FVVQLYSGTLPLEKFKFYVLQDFN-YLVGLTR 55
Query: 323 HINEKCMKVKKLPMILALHLKRFKYMDKMNRHVK 356
+ K + M + L R + ++ +VK
Sbjct: 56 ALAVISSKAEYPLMAELIELARDEVTVEVENYVK 89
>2byk_B Chrac-14; nucleosome sliding, histone fold, DNA-binding protein;
2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB:
2bym_B
Length = 128
Score = 27.6 bits (61), Expect = 4.0
Identities = 10/51 (19%), Positives = 15/51 (29%), Gaps = 8/51 (15%)
Query: 291 PKKFITRLRKEKDEFDNYMQQDA--------HEFLNFLINHINEKCMKVKK 333
P I RL KE + ++A F F+ + K
Sbjct: 11 PNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNH 61
>1qh5_A Glyoxalase II, protein (hydroxyacylglutathione hydrolase);
metallo-hydrolase; HET: GSH GBP; 1.45A {Homo sapiens}
SCOP: d.157.1.2 PDB: 1qh3_A*
Length = 260
Score = 27.9 bits (63), Expect = 7.0
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 7/62 (11%)
Query: 251 RDRVLEYKAKNKKNKETLLSCLAD-LFHNI------ATHKKKVGSIAPKKFITRLRKEKD 303
R+++ K K + T+ S LA+ +N T ++ G P + +R+EKD
Sbjct: 194 REKLAWAKEKYSIGEPTVPSTLAEEFTYNPFMRVREKTVQQHAGETDPVTTMRAVRREKD 253
Query: 304 EF 305
+F
Sbjct: 254 QF 255
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 0.136 0.410
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,011,334
Number of extensions: 410065
Number of successful extensions: 902
Number of sequences better than 10.0: 1
Number of HSP's gapped: 835
Number of HSP's successfully gapped: 54
Length of query: 470
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 373
Effective length of database: 3,993,456
Effective search space: 1489559088
Effective search space used: 1489559088
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 (21.7 bits)
S2: 59 (27.0 bits)