RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8409
(937 letters)
>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb,
E3-ligase, nuclear protein, chromosomal protein,
transcription regulation; 2.0A {Mus musculus} PDB:
3rpg_B 2h0d_A
Length = 108
Score = 84.9 bits (210), Expect = 7e-20
Identities = 40/63 (63%), Positives = 52/63 (82%), Gaps = 2/63 (3%)
Query: 15 SFPVCKTCIVKYLKRHKYCPICDVLVYKTKPLQSIRPDTRLQNVVYKLIPGLYEKEMQRR 74
SF CKTCIV+YL+ KYCPICDV V+KT+PL +IR D LQ++VYKL+PGL++ EM+RR
Sbjct: 37 SF--CKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPGLFKNEMKRR 94
Query: 75 QMF 77
+ F
Sbjct: 95 RDF 97
>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase,
nuclear protein, chromosomal protein, transcription
regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B
Length = 165
Score = 65.4 bits (159), Expect = 2e-12
Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 4/60 (6%)
Query: 19 CKTCIVKYLKRH-KYCPICDVLVYKTKPLQSIRPDTRLQNVVYKLIPGLYEKEMQRRQMF 77
C CI+ L+ K CP C + + L RPD ++ K+ P E E + ++
Sbjct: 78 CADCIITALRSGNKECPTCRKKLVSKRSL---RPDPNFDALISKIYPSRDEYEAHQERVL 134
>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 = 56.6 bits (136), Expect = 4e-08
Identities = 88/609 (14%), Positives = 166/609 (27%), Gaps = 193/609 (31%)
Query: 48 SIRPDT----RLQNVVYKLIP-GLYEKEMQRRQMFFSSTPIQNSLGLTGEDKGIITESSD 102
S RP T L++V+ L+P + Q ++ F P + + G +D+
Sbjct: 5 STRPLTLSHGSLEHVL--LVPTASFFIASQLQEQFNKILP-EPTEGFAADDE-------- 53
Query: 103 IILPDENISITLEYLAHSSDDINKAVYGRRYLRCKASAPVSILHKFLKNKFNLSNKHCVE 162
P + ++L + S + + G+ + + + +L+ + H +
Sbjct: 54 ---PTTPAELVGKFLGYVSSLVEPSKVGQ-FDQVLNLCLTEFENCYLEGN----DIHALA 105
Query: 163 LVCNNEQLTQNISVMDVAYIYQWKKKTPMYLGYRILETKIKRISETEEAENSKRLKLSEE 222
E T + ++ Y + + + NS + E
Sbjct: 106 AKLLQENDTTLVKTKELIKNY--------ITARIMAKRPFDK------KSNSALFRAVGE 151
Query: 223 SNTD---------NSQN---------SRHKPITNDAI-PIGCDINSNADNNTNTGNVIPK 263
N N+ + + + D I ++ + V +
Sbjct: 152 GNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ 211
Query: 264 ANDTSNHINKPAPPINNQGAHSNEWKEVELKINDNGVMSATVLPPVTSQTQNSSNLLNLT 323
+ + P+ ++ ++S + S L+ +
Sbjct: 212 GLNILEWLENPSN------TPDKDY-----------LLSIPI----------SCPLIGVI 244
Query: 324 TQAQ---SKQQYGLIPVTSETSFVPISVQQQKNVTSFTNTVPRTSAAYETKALPQVPKSE 380
A + + G P + + Q VT A A+ + E
Sbjct: 245 QLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT----------AV----AIAETDSWE 290
Query: 381 MAISSPVPAVTSTNSIPGNRALVYPMVQEPRATTHMTFTNPNIKLPSAPPPSRLQPIQYQ 440
S A+T I G R + + PN ++ PPS L+
Sbjct: 291 SFFVSVRKAITVLFFI-GVRC-------------YEAY--PN----TSLPPSILEDSLEN 330
Query: 441 GTGHCSYM--PRGSRPRAPSVPRYKTLKTGVQPWNPTVSRSK-VSV------------GT 485
G S M + + + ++ V N + K V + G
Sbjct: 331 NEGVPSPMLSISN-------LTQ-EQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGP 382
Query: 486 PDPL------------KPQENISKI-FKSR----NARFMNSPSPPTTLP----------K 518
P L + S+I F R + RF+ P P
Sbjct: 383 PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFL-----PVASPFHSHLLVPASD 437
Query: 519 LSLQDPPKP----RASN------STLTKVDPRTLSP-IVP--VSSSTTK-VDSPTYIDNS 564
L +D K A + T D R LS I V V T
Sbjct: 438 LINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWET--TTQ 495
Query: 565 TSPSHLSVD 573
+H+ +D
Sbjct: 496 FKATHI-LD 503
Score = 50.0 bits (119), Expect = 4e-06
Identities = 67/465 (14%), Positives = 124/465 (26%), Gaps = 175/465 (37%)
Query: 564 STSP---SH------LSVDKHNKYARPSQIKEFNPFLHPSIFYPGFLPYPPDNNPLL--P 612
ST P SH L V + SQ++E F LP P + P
Sbjct: 5 STRPLTLSHGSLEHVLLVP-TASFFIASQLQEQ--FNKI-------LPEPTEGFAADDEP 54
Query: 613 NSP-----DFMKAMSALYQQNPAFHSSLPPSISTLFNH-----------H-----LPPQS 651
+P F+ +S+L + + ++ H L ++
Sbjct: 55 TTPAELVGKFLGYVSSLVEPSKV--GQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQEN 112
Query: 652 EKKMTPSSP--------RSSTAQPISTSRSSPMSMS------------------NTCLSS 685
+ + + R +P +S + + +
Sbjct: 113 DTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFE- 171
Query: 686 SSSELPRS--------------TAANHIYSLSSLPSSISV-----------------SPT 714
EL R +A + L +P
Sbjct: 172 ---EL-RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 715 TSNSHNLPASIKSYIPLNSISNSKVVSKTFSPVKSSPSSKEKSPTCVNSIFSPANMIASS 774
++P S I + +++ V T F+P + +
Sbjct: 228 KDYLLSIPISCP-LIGVIQLAHYVV-------------------TAKLLGFTPGELRSYL 267
Query: 775 SSTSSSKS--YSSSRMSPITSLASFPPTVSISSAQPLSLVT--------TTSITTSAPSL 824
+ ++ ++ S SF +S + ++++ T+ PS+
Sbjct: 268 KGATGHSQGLVTAVAIAETDSWESF----FVSVRKAITVLFFIGVRCYEAYPNTSLPPSI 323
Query: 825 TTNTNEERKDSNKDNTEQKATP----------VVISSSENTNSSSNSVTDTVSNIKSESL 874
+DS +N E +P V TNS + K +
Sbjct: 324 L-------EDS-LENNEGVPSPMLSISNLTQEQVQDYVNKTNSH-------LPAGKQVEI 368
Query: 875 STVNTPNADKNSV--G---DIKNTDVVLDKKEKTCDSKSEPSETP 914
S VN KN V G + ++ L +K K S + S P
Sbjct: 369 SLVNGA---KNLVVSGPPQSLYGLNLTL-RKAK-APSGLDQSRIP 408
Score = 47.4 bits (112), Expect = 3e-05
Identities = 68/399 (17%), Positives = 121/399 (30%), Gaps = 122/399 (30%)
Query: 632 HSSLPPSI----------STL---FNHHLPPQSEKKMT---PSSPRSSTAQPIS--TSRS 673
H SL + S L FN LP +E P++P + + +S
Sbjct: 13 HGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLV 72
Query: 674 SPMSMSNT--CLSSSSSELPRS-TAANHIYSL-SSLPSSISVSPTTSNSHNLPASIKSYI 729
P + L+ +E N I++L + L T + L IK+YI
Sbjct: 73 EPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQ--ENDTTLVKTKEL---IKNYI 127
Query: 730 PLNSISNSKVVSKTFSP-VKSSPSSK------------------------EKSPTCVNSI 764
++ K+ S ++ + V +
Sbjct: 128 TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDL 187
Query: 765 FSPANMI---ASSSSTSSSKSYS----------------------SSRMS-PI---TSLA 795
+ ++ + K ++ S +S P+ LA
Sbjct: 188 IKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLA 247
Query: 796 SFPPTVSISSAQP------LSLVTTTS---ITTSAPSLTTNTNEERKDSNKDNTE----- 841
+ T + P L T S +T A + T++ E S +
Sbjct: 248 HYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIA-ETDSWESFFVSVRKAITVLFFI 306
Query: 842 ----QKATPVVISSSENTNSSSNSVTDTVSNIKSESLSTVNTPNADKNSVGDIKNTDVVL 897
+A P NT+ + + D++ N +E + +P S+ ++ + V
Sbjct: 307 GVRCYEAYP-------NTSLPPSILEDSLEN--NEGVP---SPML---SISNL-TQEQVQ 350
Query: 898 DKKEKTCDSKSEPSETPKTNI-LTNGENNNHLK--PQSL 933
D KT P+ + I L NG N + PQSL
Sbjct: 351 DYVNKTN--SHLPAG-KQVEISLVNGAKNLVVSGPPQSL 386
Score = 39.6 bits (92), Expect = 0.006
Identities = 58/343 (16%), Positives = 105/343 (30%), Gaps = 136/343 (39%)
Query: 36 CDVLVYKTKPLQSIRPDTR-LQN--VVYKLIPGLYEKEMQ-------RRQMFFSSTPIQN 85
++L + P S PD L + + LI G+ Q + + F+ +++
Sbjct: 213 LNILEWLENP--SNTPDKDYLLSIPISCPLI-GVI----QLAHYVVTAKLLGFTPGELRS 265
Query: 86 SL-GLTGEDKGIITESSDIILPD------ENISITLEYLAHSSDDINKAVYGRRYLRCKA 138
L G TG +G++T + I D ++ + L I G +RC
Sbjct: 266 YLKGATGHSQGLVT-AVAIAETDSWESFFVSVRKAITVLFF----I-----G---VRCYE 312
Query: 139 SAPVSILH-KFLKNKFNLSNKHCVELVCNNEQLTQNISVMDVAYIYQWKKKTPMYLGYR- 196
+ P + L L++ +E NNE +PM L
Sbjct: 313 AYPNTSLPPSILED--------SLE---NNE-----------------GVPSPM-LSISN 343
Query: 197 ----ILETKIKRISETEEAE--------NSKR----------L--------KLSEESNTD 226
++ + + + A N + L K S D
Sbjct: 344 LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD 403
Query: 227 NSQ--NSRHKP-ITNDAIPIGCDINSNADNNTNTGNVIPKANDTSNHINKPAPPINNQGA 283
S+ S K +N +P+ +S H+ PA + N+
Sbjct: 404 QSRIPFSERKLKFSNRFLPVASPFHS--------------------HLLVPASDLINKDL 443
Query: 284 HSN--EWKEVELKINDNGVMSATVLPPVTSQTQNSSNLLNLTT 324
N + +++I PV T + S+L L+
Sbjct: 444 VKNNVSFNAKDIQI------------PVYD-TFDGSDLRVLSG 473
Score = 39.3 bits (91), Expect = 0.007
Identities = 81/504 (16%), Positives = 140/504 (27%), Gaps = 172/504 (34%)
Query: 331 QYGLIPVTSETSF-VP----ISVQQQKNVTSFTNTVPRTSAAYETKALPQVPKS--EMA- 382
+G + E VP Q + F +P E A P + E+
Sbjct: 12 SHGSL----EHVLLVPTASFFIASQLQE--QFNKILP---EPTEGFAADDEPTTPAELVG 62
Query: 383 -----ISSPVP--AVTSTNSI-------------PGNR--ALVYPMVQEPRAT---THMT 417
+SS V V + + GN AL ++QE T T
Sbjct: 63 KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKEL 122
Query: 418 FTN-------PNIKLPSAPPPSRLQPIQ------Y-----QGTGHCSYMP--RGSRPRAP 457
N + + + QG Y R
Sbjct: 123 IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD-DYFEELRD------ 175
Query: 458 SVPRYKTLKTGVQPWNPTVSRSKVSVGTPDPLKPQENISKIFKSRNARFMNSPSP----- 512
Y+T V S +S L ++ ++ ++ +PS
Sbjct: 176 ---LYQTYHVLVGDL-IKFSAETLSELIRTTLDAEKVFTQGLNIL--EWLENPSNTPDKD 229
Query: 513 -----PTTLPKLSL-Q-------------DPPKPRASNSTLTKVDPRTLSPIVPVSSSTT 553
P + P + + Q P + R+ T ++ + ++ + +
Sbjct: 230 YLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVA-IAETDS 288
Query: 554 KVDSPTYIDNSTSPSHLS----VDKHNKYARPSQIKEFNPFLHPSIFYPGFLPYPPDNNP 609
++ + + V + Y S L PSI L +NN
Sbjct: 289 ---WESFFVSVRKAITVLFFIGVRCYEAYPNTS--------LPPSI-----LEDSLENNE 332
Query: 610 LLPNSPDFMKAMSALYQQNPAFHSSLPPSISTLFNHHLPPQSEKKMTPSSPRSSTAQPIS 669
+P SP M ++S L Q+ + + N HLP + +
Sbjct: 333 GVP-SP--MLSISNLTQE------QVQDYV-NKTNSHLPA---------------GKQVE 367
Query: 670 TSRSSPMSMSNTCLSSSSSELPRSTAANHIYSLSSLPSS-ISVSPTTSNSHNLPASIKSY 728
+S+ N + N + +S P S ++ T + +S
Sbjct: 368 ------ISLVNG---------AK----NLV--VSGPPQSLYGLNLTLRKAKAPSGLDQSR 406
Query: 729 IPLNSISNSK-VVSKTFSPVKSSP 751
IP S K S F PV +SP
Sbjct: 407 IPF---SERKLKFSNRFLPV-ASP 426
>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 = 56.0 bits (134), Expect = 5e-08
Identities = 66/474 (13%), Positives = 139/474 (29%), Gaps = 120/474 (25%)
Query: 318 NLLNLTTQAQSKQQYGLI---PVTSETS---FVPISVQQQKNVTSFTNTVPRTSAAYETK 371
++ ++ SK++ I + F + +Q++ V F V R + +
Sbjct: 37 DVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMS 96
Query: 372 ALPQVPKSEMAISSPVPAVTSTNSIPGNRALVYPMVQEPRATTHMTFTNPNIKLPSAPPP 431
+ + S N V+ R ++ L
Sbjct: 97 PIKTEQRQP---SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ---AL------ 144
Query: 432 SRLQPIQY---QGTGHC--SYMPRGSRPRAPSVPRYKTLKT----GVQPWNPTVSRSKVS 482
L+P + G +++ A V ++ + W ++
Sbjct: 145 LELRPAKNVLIDGVLGSGKTWV-------ALDVCLSYKVQCKMDFKIF-W--------LN 188
Query: 483 VG---TPDP-LKPQENI-SKIFKSRNARFMNSPSPPTTL----PKLS--LQDPPKPRA-- 529
+ +P+ L+ + + +I + +R +S + + +L L+ P
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248
Query: 530 ------SNSTLTKVDP--RTLSPIVPVSSSTTKVDSPTYIDNSTSPSHLSVDKHNKYARP 581
+ + + L + TT+ T ++ + +H+S+D H+ P
Sbjct: 249 VLLNVQNAKAWNAFNLSCKIL-----L---TTRFKQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 582 SQIKE-FNPFLHPSIFYPGFLPY-PPDNNPLL-----------PNSPDFMKAMSALYQQN 628
++K +L P LP NP + D K +
Sbjct: 301 DEVKSLLLKYLDCR---PQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK-----HVNC 352
Query: 629 PAFHSSLPPSISTLFNHHLPPQSEKKMTPSS---PRSSTAQPIST----------SRSSP 675
+ + S++ L P +KM P S+ I T +S
Sbjct: 353 DKLTTIIESSLN-----VLEPAEYRKMFDRLSVFPPSA---HIPTILLSLIWFDVIKSDV 404
Query: 676 MSMSNTCLSSSSSELPRSTAANHIYSLSSLPSSISVSPTTSNSHNLPAS-IKSY 728
M + N S L S+ S+ + + N + L S + Y
Sbjct: 405 MVVVNKLHKYS---LVEKQPKESTISIPSI--YLELKVKLENEYALHRSIVDHY 453
Score = 54.9 bits (131), Expect = 1e-07
Identities = 44/260 (16%), Positives = 79/260 (30%), Gaps = 86/260 (33%)
Query: 25 KYLKRHKYCPICDV--LVYKTKPL------QSIR--PDT----------RLQNVVYKLIP 64
KYL C D+ V T P +SIR T +L ++ +
Sbjct: 309 KYLD----CRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364
Query: 65 GLYEKEMQRRQMFFSSTPIQNSLGLTGEDKGIITESSDI------ILPDENISITLEYLA 118
L E R+MF + + S+ I ++ + I + +
Sbjct: 365 VLEPAEY--RKMF--------------DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVV 408
Query: 119 ---HSSDDINKAVYGRRY--------LRCKASAPVSILHKFLKNKFNLSNKHCVELVCNN 167
H + K L+ K + LH+ + + +N+ ++
Sbjct: 409 NKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA-LHRSIVDHYNIPKTFD-----SD 462
Query: 168 EQLTQNISVMDVAYIYQ--------------WKKKTPMYLGYRILETKIKRISETEEAEN 213
+ + + D Y Y ++L +R LE KI+ S A
Sbjct: 463 DLIPPYL---D-QYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASG 518
Query: 214 S-----KRLKLSEESNTDNS 228
S ++LK + DN
Sbjct: 519 SILNTLQQLKFYKPYICDND 538
Score = 50.2 bits (119), Expect = 3e-06
Identities = 72/492 (14%), Positives = 143/492 (29%), Gaps = 173/492 (35%)
Query: 4 ILH------KS----------GPKLFFSFPV-------CKT--CIVKYLKRHKYCPICDV 38
++ K+ + F + C + +++ L++
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK--------- 204
Query: 39 LVYKTKPLQSIRPDTRLQNVVYKLIPGLYEKEMQRRQMFFSSTPIQNSL----------- 87
L+Y+ P + R D N I + S P +N L
Sbjct: 205 LLYQIDPNWTSRSD-HSSN-----IKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA 258
Query: 88 ------G----LTGEDKGIIT-------------ESSDIILPDENISITLEYLAHSSDDI 124
LT K + S + PDE S+ L+YL D+
Sbjct: 259 WNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318
Query: 125 NKAVYGRRYLRCKASAP--VSILHKFLKNKFNLSN--KHCVELVCNNEQLTQNISV-MDV 179
+ V + P +SI+ + +++ + KH N ++LT I ++V
Sbjct: 319 PREV-------LTTN-PRRLSIIAESIRDGLATWDNWKH-----VNCDKLTTIIESSLNV 365
Query: 180 AYIYQWKKKTPMYLGYRILE--TKI--KRIS------ETEEAE--------------NSK 215
+++K M+ + I +S + K
Sbjct: 366 LEPAEYRK---MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK 422
Query: 216 RLKLS------EESNTDNSQNSRHKPITNDAIPIGC-DINSNADNNTNTGNVIPKANDT- 267
+S E ++ + H+ I + +I D++ ++IP D
Sbjct: 423 ESTISIPSIYLELKVKLENEYALHRSI------VDHYNIPKTFDSD----DLIPPYLDQY 472
Query: 268 -SNHINKPAPPINNQGAH------SNEWKEVELKINDNGVMSATVLPPVTSQTQNSSNLL 320
+HI G H + D + + T+ + S +L
Sbjct: 473 FYSHI----------GHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGS-IL 521
Query: 321 NLTTQAQSKQQYGLIPVTSET---------SFVPISVQQQKNVTSFTNTV-----PRTSA 366
N Q + + Y I F+P +++ + +T+ + A
Sbjct: 522 NTLQQLKFYKPY--ICDNDPKYERLVNAILDFLP-KIEENLICSKYTDLLRIALMAEDEA 578
Query: 367 AYETKALPQVPK 378
+E A QV +
Sbjct: 579 IFEE-AHKQVQR 589
Score = 40.6 bits (94), Expect = 0.003
Identities = 55/423 (13%), Positives = 103/423 (24%), Gaps = 151/423 (35%)
Query: 479 SKVSVGTPDPLKPQENISKIFKSRNARFMNSPSPPTTLPKLSLQDPPKPRASNSTLTKVD 538
S + P +++++ + R N K ++ L ++
Sbjct: 96 SPIKTEQRQP----SMMTRMYIEQRDRLYNDNQV---FAKYNVSRLQPYLKLRQALLELR 148
Query: 539 PRTLSPIVPV--------SSSTTKVDSPTYIDNSTSPSHLSVDKHNKYARPSQIKEFNPF 590
P + V + + V +++ F
Sbjct: 149 P---AKNVLIDGVLGSGKTWVALDV-----------------------CLSYKVQCKMDF 182
Query: 591 LHPSIFYPGFLPYPPDNNPLLPNSPD-FMKAMSALYQQ------NPAFHSSLPPS----- 638
IF+ NSP+ ++ + L Q + + HSS
Sbjct: 183 ---KIFWLNLKNC---------NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230
Query: 639 ---ISTLFNHHLPPQS---------------------------EKKMTPSSPRSSTAQPI 668
+ L K++T ++T
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290
Query: 669 STSRSSPMSMSNT------CLSSSSSELPRSTAANHIYSLSSLPSSISVSPTTSNSHNLP 722
S ++ L +LPR + LS + SI T + N
Sbjct: 291 LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD--NW- 347
Query: 723 ASIKSYIPLNSISNSKVVSKTFSPVKSSPSSKEKSPTCVNSIFSPANMIASSSSTSSSKS 782
K N ++ + +N + PA K
Sbjct: 348 ---KHV-------NCDKLTTIIE-------------SSLNVL-EPAEY---------RKM 374
Query: 783 YSSSRMSPITSLASFPPTVSISSAQPLSLVTTTSITTSAPSLTTNTNEERKDS--NKDNT 840
+ L+ FPP+ I + LSL+ I + + N+ K S K
Sbjct: 375 F--------DRLSVFPPSAHIPT-ILLSLIWFDVIKSDVMVV---VNKLHKYSLVEKQPK 422
Query: 841 EQK 843
E
Sbjct: 423 EST 425
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 49.8 bits (119), Expect = 6e-08
Identities = 12/32 (37%), Positives = 21/32 (65%)
Query: 19 CKTCIVKYLKRHKYCPICDVLVYKTKPLQSIR 50
CK+CIV++ CP C+++V++T+PL
Sbjct: 39 CKSCIVRHFYYSNRCPKCNIVVHQTQPLSGPS 70
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 55.5 bits (133), Expect = 8e-08
Identities = 69/303 (22%), Positives = 107/303 (35%), Gaps = 46/303 (15%)
Query: 527 PRASNSTLTKVDPRTLSPIVPVSSSTTKVDSPTYIDNSTSPSHLSVDKHNKYARPSQIKE 586
P + + D SP+V S + + + SP P
Sbjct: 1490 PMVDSGFVGSPDAAAFSPLVQGGSEGREGFGDYGLLGAASPYKGVQS-------PGYTSP 1542
Query: 587 FNPFLHP--SIFYPGFLPYPPDNN---PLLPNSPDFMKAMSALYQQNPAFHSSLPPSIST 641
F+ + P + P + P P + +P+SP + S Y +S PS S
Sbjct: 1543 FSSAMSPGYGLTSPSYSPSSPGYSTSPAYMPSSPSYS-PTSPSYSPTSPSYSPTSPSYSP 1601
Query: 642 LFNHHLPPQSEKKMTPSSPRSSTAQPISTSRSSPMSMSNTCLSSSSSELPRSTAANHIYS 701
+ +P+SP S P + S S ++ P + + YS
Sbjct: 1602 TSPSYSATS--PSYSPTSPSYSPTSPSYSPTSPSYSPTS----------PSYSPTSPSYS 1649
Query: 702 LSSLPSSISVSPTTSNSHNLPASIKSYIPLNSISNSKVVSKTFSPVKSSPSSKEKSPTCV 761
P+S S SPT+ + S P S + SP SP+S SPT
Sbjct: 1650 ----PTSPSYSPTSPSYSPTSPSYSPTSPSYSPT---------SP-SYSPTSPSYSPT-- 1693
Query: 762 NSIFSPANMIASSSSTSSSKSYS-SSRMSPITSLASFPPTVSISSAQPLSLVTTTSITTS 820
SP+ S S + +S SYS +S TS + P + S S P T+ S + +
Sbjct: 1694 ----SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPT 1749
Query: 821 APS 823
+PS
Sbjct: 1750 SPS 1752
Score = 42.8 bits (100), Expect = 6e-04
Identities = 57/252 (22%), Positives = 83/252 (32%), Gaps = 11/252 (4%)
Query: 471 PWNPTVSRSKVSVGTPDPLKPQENISKIFKSRNARFMNSPSPPTTLPKLSLQDPPKPRAS 530
P S + G L + +S P P P S
Sbjct: 1507 PLVQGGSEGREGFGDYGLLGAASPYKGVQSPGYTSPFSSAMSPGYGLTSPSYSPSSPGYS 1566
Query: 531 NSTLTKVDPRTLSPIVPVSSSTTKVDSPTYIDNS-TSPSHLSVDKHNKYARPSQIKEFNP 589
S + SP P S T+ SPT S TSPS+ + PS
Sbjct: 1567 TSPAYMPSSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSATSPSYSPTSPSYSPTSPS 1626
Query: 590 FLHPSIFYPGFLP----YPPDNNPLLPNSPDFMKAMSALYQQNPAFHSSLPPSISTLFNH 645
+ S P + P Y P + P SP + S Y +S PS S
Sbjct: 1627 Y---SPTSPSYSPTSPSYSPTSPSYSPTSPSY-SPTSPSYSPTSPSYSPTSPSYSPTSPS 1682
Query: 646 HLPPQSEKKMTPSSPRSSTAQPISTSRSSPMSMSNTCLSSSSSELPRSTAANHIYSLSSL 705
+ P + +P+SP S P + S S ++ S +S ++ + S S
Sbjct: 1683 YSP--TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1740
Query: 706 PSSISVSPTTSN 717
P+S S SPT+ +
Sbjct: 1741 PTSPSYSPTSPS 1752
Score = 42.8 bits (100), Expect = 6e-04
Identities = 48/214 (22%), Positives = 77/214 (35%), Gaps = 13/214 (6%)
Query: 633 SSLPPSISTLFNHHLPPQSEKKMTPSSPRSSTAQPISTSRSSPMSMSNTCLSSSSSELPR 692
S LP T + S +P + S + ++S + +
Sbjct: 1476 SQLPEGAGTPYERSPMVDSGFVGSPDAAAFSPLVQGGSEGREGFGDYGLLGAASPYKGVQ 1535
Query: 693 STAANHIYSLSSLPSSISVSPTTSNSHNLPASIKSYIPLNSISNSKVVSKTFSP--VKSS 750
S +S + P SP S S + P S + S + S ++SP S
Sbjct: 1536 SPGYTSPFSSAMSPGYGLTSP--SYSPSSPGYSTSPAYMPSSPSYSPTSPSYSPTSPSYS 1593
Query: 751 PSSKEKSPTCVN--------SIFSPANMIASSSSTSSSKSYS-SSRMSPITSLASFPPTV 801
P+S SPT + S SP+ S S + +S SYS +S TS + P +
Sbjct: 1594 PTSPSYSPTSPSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSP 1653
Query: 802 SISSAQPLSLVTTTSITTSAPSLTTNTNEERKDS 835
S S P T+ S + ++PS + + S
Sbjct: 1654 SYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1687
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 55.1 bits (132), Expect = 1e-07
Identities = 58/303 (19%), Positives = 93/303 (30%), Gaps = 24/303 (7%)
Query: 506 FMNSPSPPTTLPKLSLQDPPKPRASNSTLTKVDPRTLSPIVPVSSSTTKVDSPTYIDNST 565
++ S +P+ + + + +T + + + SP S
Sbjct: 1444 MIDEESLVKYMPEQKITEIED--GQDGGVTPYSNESGLVNADLDVKDELMFSPLVDSGSN 1501
Query: 566 SPSHLSVDKHNKYARPSQIKEFNPFLHP------SIFYPGFLPYPPDNNPLLPN----SP 615
+ F + + PGF P P +P P SP
Sbjct: 1502 DAMAGGFTAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTSP 1561
Query: 616 DFMKAMSALYQQNPAFHSSLPPSISTLFNHHLPPQSEKKMTPSSPRSSTAQPISTSRSSP 675
+ S Y +S PS S + P +P+SP S P + S
Sbjct: 1562 SY-SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSP--SYSPTSPSYSPTSPSYSPTSPS 1618
Query: 676 MSMSNTCLSSSSSELPRSTAANHIYSLSSLPSSISVSPTTSNSHNLPASIKSYIPLNSIS 735
S ++ S +S ++ + S S P+S S SPT S + SY P
Sbjct: 1619 YSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPT---SPAYSPTSPSYSP----- 1670
Query: 736 NSKVVSKTFSPVKSSPSSKEKSPTCVNSIFSPANMIASSSSTSSSKSYSSSRMSPITSLA 795
S S T SP S S + S SP+ S + S +YS + +
Sbjct: 1671 TSPSYSPT-SPSYSPTSPSYSPTSPNYSPTSPSYSPTSPGYSPGSPAYSPKQDEQKHNEN 1729
Query: 796 SFP 798
Sbjct: 1730 ENS 1732
Score = 54.3 bits (130), Expect = 2e-07
Identities = 62/280 (22%), Positives = 92/280 (32%), Gaps = 45/280 (16%)
Query: 506 FMNSPSPPTTLPKLSLQDPPKPRASNSTLTKVDPRTLSPIVPVSSSTTKVDSPTYIDNST 565
++S S + + S SP VSS SPTY S
Sbjct: 1495 LVDSGSNDAMAGGFTAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSP 1554
Query: 566 SPSHLSVDKHNKYARPSQIKEFNPFLHPSIFYPGFLPYPPDNNPLLPNSPDFMKAMSALY 625
+ S S Y+ S S P + P P +P P S Y
Sbjct: 1555 AYSPTS----PSYSPTSP--------SYSPTSPSYSPTSPSYSPTSP----SYSPTSPSY 1598
Query: 626 QQNPAFHSSLPPSISTLFNHHLPPQSEKKMTPSSPRSSTAQPISTSRSSPMSMSNTCLSS 685
+S PS S P S +P+SP S P + S S ++ S
Sbjct: 1599 SPTSPSYSPTSPSYS--------PTS-PSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1649
Query: 686 SSSELPRSTAANHIYSLSSLPSSISVSPTTSN----SHNLPASIKSYIPLNSISNSKVVS 741
+S ++ A S S P+S S SPT+ + S + + +Y P S
Sbjct: 1650 TSPSYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPNYSP---------TS 1700
Query: 742 KTFSPVKSSPSSKEKSPTCVNSIFSPANMIASSSSTSSSK 781
++SP +SP SP +SP + +S+
Sbjct: 1701 PSYSP--TSPGYSPGSPA-----YSPKQDEQKHNENENSR 1733
Score = 45.1 bits (106), Expect = 1e-04
Identities = 52/251 (20%), Positives = 82/251 (32%), Gaps = 18/251 (7%)
Query: 584 IKEFNPFLHPSIFYPGFLPY---PPDNNPLLPNSPDFMKAMSALYQQNPAFHSSLPPSIS 640
+ E G PY N L + M + N A
Sbjct: 1454 MPEQKITEIEDGQDGGVTPYSNESGLVNADLDVKDELMFSPLVDSGSNDAMAGGFTAYGG 1513
Query: 641 TLFNHHLPPQSEKKMTPSSPRSSTAQPISTSRSSPMSMSNTCLSSSSSELPRSTAANHIY 700
+ P P+SP + P + S S ++ S +S ++ +
Sbjct: 1514 ADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTSPSYSPTSPSYSPT 1573
Query: 701 SLSSLPSSISVSPTTSNSHNLPASIKSYIPLNSISNSKVVSKTFSPVKSSPSSKEKSPTC 760
S S P+S S SPT+ + S P S + SPS SP+
Sbjct: 1574 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPT--------------SPSYSPTSPSY 1619
Query: 761 VNSIFSPANMIASSSSTSSSKSYSSSRMSPITSLASFPPTVSISSAQPLSLVTTTSITTS 820
+ S + S S TS S S +S SP + S P + + S P T+ S + +
Sbjct: 1620 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS-PTSPAYSPTSPSYSPTSPSYSPT 1678
Query: 821 APSLTTNTNEE 831
+PS + +
Sbjct: 1679 SPSYSPTSPSY 1689
>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding,
translesion synthesis, UB conjugation pathway; 1.80A
{Homo sapiens}
Length = 99
Score = 48.2 bits (115), Expect = 4e-07
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 4/44 (9%)
Query: 19 CKTCIVKYLKRHKYCPICDVLVYKTKPLQSIRPDTRLQNVVYKL 62
C CI K+L CP C V V + ++ + L +V L
Sbjct: 46 CSLCIRKFLSYKTQCPTCCVTVTEPD----LKNNRILDELVKSL 85
>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase,
protein binding complex; 4.80A {Homo sapiens}
Length = 149
Score = 45.8 bits (108), Expect = 7e-06
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 8/62 (12%)
Query: 15 SFPVCKTCIVKYLKRHKYCPICDVLVYKTKPLQSIRPDTRLQNVVYKLIPGLYEKEMQRR 74
SF C CI +++KR CPIC K ++S L N + K++ L + +RR
Sbjct: 85 SF--CSYCINEWMKRKIECPIC------RKDIKSKTYSLVLDNCINKMVNNLSSEVKERR 136
Query: 75 QM 76
+
Sbjct: 137 IV 138
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 40.5 bits (94), Expect = 9e-04
Identities = 11/61 (18%), Positives = 22/61 (36%), Gaps = 20/61 (32%)
Query: 182 IYQWKKKTPMYLGYRILETKIKRISETEEAENSKRLKLSEESNTD--------NSQNSRH 233
I +W+ E + KR+ E + A + E++ D + Q ++
Sbjct: 87 IRKWR------------EEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKN 134
Query: 234 K 234
K
Sbjct: 135 K 135
>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA
repair, ring finger domain, metal binding, DNA
replication; 1.75A {Homo sapiens}
Length = 124
Score = 37.6 bits (87), Expect = 0.003
Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 4/51 (7%)
Query: 19 CKTCIVKYLKRHKY-CPICDVLVYKTKPLQSIRPDTRLQNVVYKLIPGLYE 68
CK C+ + + + CP C +++ + LQ V+ +L PG
Sbjct: 75 CKDCLDRSFRAQVFSCPACRY-DLGRSY--AMQVNQPLQTVLNQLFPGYGN 122
>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding;
HET: SUC; 1.50A {Homo sapiens}
Length = 64
Score = 35.5 bits (82), Expect = 0.005
Identities = 7/18 (38%), Positives = 8/18 (44%)
Query: 19 CKTCIVKYLKRHKYCPIC 36
C C+ LK CP C
Sbjct: 33 CSQCLRDSLKNANTCPTC 50
>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha,
coiled coil, cytoplasm, metal- binding, UBL
conjugation, UBL conjugation pathway; 2.10A {Homo
sapiens} PDB: 3hcu_A 2eci_A 2jmd_A
Length = 118
Score = 36.7 bits (85), Expect = 0.006
Identities = 10/45 (22%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 19 CKTCIVKYLKRH-KYCPICDVLVYKTKPLQSIRPDTRLQNVVYKL 62
CK CI+K ++ CP+ + ++ + + + PD + + L
Sbjct: 41 CKACIIKSIRDAGHKCPVDNEILLENQ----LFPDNFAKREILSL 81
>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 70
Score = 35.1 bits (81), Expect = 0.008
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 19 CKTCIVKYLKRHKYCPIC 36
C+ CI K+ RH+ CPIC
Sbjct: 37 CQKCIDKWSDRHRNCPIC 54
>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA
damage, chromatin regulator, chromosomal protein, DNA
repair, metal-binding; 2.12A {Homo sapiens}
Length = 115
Score = 36.0 bits (83), Expect = 0.010
Identities = 11/61 (18%), Positives = 22/61 (36%), Gaps = 8/61 (13%)
Query: 19 CKTCIVKYLKRHKY-CPIC---DVLVYKTKPLQSIRPDTRLQNVVYKLIPGLYEKEMQRR 74
CK C +++ CP C + ++ + L ++ K P +E + R
Sbjct: 38 CKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTIIQKHYP----RECKLR 93
Query: 75 Q 75
Sbjct: 94 A 94
>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 69
Score = 34.5 bits (79), Expect = 0.012
Identities = 7/18 (38%), Positives = 8/18 (44%)
Query: 19 CKTCIVKYLKRHKYCPIC 36
C C+ LK CP C
Sbjct: 45 CSQCLRDSLKNANTCPTC 62
>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 34.8 bits (80), Expect = 0.014
Identities = 5/18 (27%), Positives = 11/18 (61%)
Query: 19 CKTCIVKYLKRHKYCPIC 36
C++C +++ + C IC
Sbjct: 38 CESCALEHFRATPRCYIC 55
>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid
herpesvirus 1} SCOP: g.44.1.1
Length = 68
Score = 33.5 bits (77), Expect = 0.025
Identities = 6/18 (33%), Positives = 13/18 (72%)
Query: 19 CKTCIVKYLKRHKYCPIC 36
C CI ++++++ CP+C
Sbjct: 29 CYVCITRWIRQNPTCPLC 46
>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase,
ubiquitylation, sumoylation, zinc-FI metal binding
protein; 1.80A {Rattus norvegicus}
Length = 71
Score = 33.7 bits (77), Expect = 0.026
Identities = 7/18 (38%), Positives = 8/18 (44%)
Query: 19 CKTCIVKYLKRHKYCPIC 36
C C+ LK CP C
Sbjct: 40 CSQCLRDSLKNANTCPTC 57
>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 74
Score = 33.6 bits (77), Expect = 0.028
Identities = 7/18 (38%), Positives = 13/18 (72%)
Query: 19 CKTCIVKYLKRHKYCPIC 36
+ C++K+L+ K CP+C
Sbjct: 41 HRKCLIKWLEVRKVCPLC 58
>1z6u_A NP95-like ring finger protein isoform B; structural genomics
consortium, ligase, ubiquitin-protein ligase, cell cycle
regulation, SGC; 2.10A {Homo sapiens}
Length = 150
Score = 35.4 bits (81), Expect = 0.032
Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 4/51 (7%)
Query: 19 CKTCIVKYLKRHKY-CPICDVLVYKTKPLQSIRPDTRLQNVVYKLIPGLYE 68
CK C+ + K + CP C + + + P+ LQ ++ PG +
Sbjct: 101 CKDCLQRSFKAQVFSCPACRHDLGQNYIM---IPNEILQTLLDLFFPGYSK 148
>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1;
RCHY1, ring domain, zinc-binding domain, structural
genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A
Length = 55
Score = 32.6 bits (75), Expect = 0.036
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 20 KTCIVKYLKRHKYCPIC 36
+TC + LK CP+C
Sbjct: 33 RTCYEEMLKEGYRCPLC 49
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 36.2 bits (83), Expect = 0.049
Identities = 22/108 (20%), Positives = 40/108 (37%), Gaps = 6/108 (5%)
Query: 629 PAFHSSLPPSISTLFNHHLPPQSEKKMTPSSPRSSTAQPISTSRSSPMSMSNTCLSSSSS 688
P+ H SL P I + H P + SSP + P S SSPM + + ++ +
Sbjct: 36 PSLHPSLGPGIGSPGQLHSPIST-----LSSPINGMGPPFSVI-SSPMGPHSMSVPTTPT 89
Query: 689 ELPRSTAANHIYSLSSLPSSISVSPTTSNSHNLPASIKSYIPLNSISN 736
+ + ++ + SS + P + L + S +
Sbjct: 90 LGFSTGSPQLSSPMNPVSSSEDIKPPLGLNGVLKVPAHPSGNMASFTK 137
>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc
binuclear cluster, zinc finger, DNA-binding protein;
2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1
Length = 116
Score = 33.7 bits (77), Expect = 0.071
Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 19 CKTCIVKYLKRH-KYCPICDVLVYKTKPLQSIRPDTRLQNVVYKL 62
C+ CI++ LK YCP C Y P P N++ L
Sbjct: 46 CRICILRCLKVMGSYCPSCR---YPCFPTDLESPVKSFLNILNSL 87
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 31.7 bits (72), Expect = 0.11
Identities = 5/18 (27%), Positives = 7/18 (38%)
Query: 19 CKTCIVKYLKRHKYCPIC 36
C C+ K C +C
Sbjct: 38 CYLCVKGASWLGKRCALC 55
>2ecy_A TNF receptor-associated factor 3; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 31.7 bits (72), Expect = 0.12
Identities = 5/19 (26%), Positives = 8/19 (42%), Gaps = 1/19 (5%)
Query: 19 CKTCIVKYLKRH-KYCPIC 36
C++C+ L C C
Sbjct: 38 CESCMAALLSSSSPKCTAC 56
>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR
{Oryza sativa} SCOP: g.44.1.1
Length = 55
Score = 31.0 bits (71), Expect = 0.13
Identities = 10/31 (32%), Positives = 14/31 (45%), Gaps = 7/31 (22%)
Query: 17 PVCK-----TCIVKYLKRHKYCPIC--DVLV 40
P C C+ +L H CP+C V+V
Sbjct: 25 PRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 55
>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase,
Zn binding domain, metal zinc, zinc-finger, metal
binding protein; NMR {Homo sapiens}
Length = 69
Score = 31.6 bits (72), Expect = 0.16
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 20 KTCIVKYLKRHKYCPIC 36
+ C+ ++L +K CPIC
Sbjct: 41 QVCVDQWLITNKKCPIC 57
>2yvr_A Transcription intermediary factor 1-beta; ZF-B_BOX domain,
structural genomics, NPPSFA; 1.80A {Homo sapiens}
Length = 50
Score = 30.5 bits (69), Expect = 0.21
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 5 LHKSGPKLFF----SFPVCKTCIVKYLKRHKYCPICDVL 39
+HK P + F C+ C + K H+Y + D +
Sbjct: 11 VHKHEPLVLFCESCDTLTCRDCQLNAHKDHQYQFLEDAV 49
>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger,
zinc-binding protein, heterodimer, ubiquitin ligase,
antitumor; NMR {Homo sapiens} SCOP: g.44.1.1
Length = 112
Score = 32.0 bits (73), Expect = 0.23
Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 9/48 (18%)
Query: 15 SFPVCKTCIVKYLKRHK---YCPICDVLVYKTKPLQSIRPDTRLQNVV 59
F CK C++K L + K CP+C +S++ TR +V
Sbjct: 42 IF--CKFCMLKLLNQKKGPSQCPLCK----NDITKRSLQESTRFSQLV 83
>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha,
coiled coil, cytoplasm, metal- binding, UBL
conjugation, UBL conjugation pathway; 2.20A {Homo
sapiens}
Length = 170
Score = 32.8 bits (74), Expect = 0.26
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 3/44 (6%)
Query: 19 CKTCIVKYLKRHKYCPICDVLVYKTKPLQSIRPDTRLQNVVYKL 62
CK CI+K ++ + D + L PD + + L
Sbjct: 41 CKACIIKSIRDAGHKCPVDNEILLENQL---FPDNFAKREILSL 81
>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex,
chimera; 2.21A {Rattus norvegicus}
Length = 133
Score = 32.1 bits (72), Expect = 0.36
Identities = 7/19 (36%), Positives = 8/19 (42%)
Query: 19 CKTCIVKYLKRHKYCPICD 37
C C+ LK CP C
Sbjct: 102 CSQCLRDSLKNANTCPTCR 120
>3knv_A TNF receptor-associated factor 2; cross-brace, alternative
splicing, apoptosis, cytoplasm, metal-binding, UBL
conjugation, zinc, zinc-finger; 1.90A {Homo sapiens}
Length = 141
Score = 32.0 bits (72), Expect = 0.39
Identities = 10/50 (20%), Positives = 14/50 (28%), Gaps = 6/50 (12%)
Query: 19 CKTCIVKYLKRH-KYCPICDVLVYKTKP-----LQSIRPDTRLQNVVYKL 62
C C+ L + C C + S PD + V L
Sbjct: 54 CSFCLASILSSGPQNCAACVHEGIYEEGISILESSSAFPDNAARREVESL 103
>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative
splicing, HOST-virus interaction, UBL conjugation
pathway, zinc-finger, polymorphism; HET: FLC; 2.20A
{Homo sapiens} PDB: 2vjf_B*
Length = 63
Score = 29.8 bits (67), Expect = 0.48
Identities = 7/19 (36%), Positives = 8/19 (42%)
Query: 18 VCKTCIVKYLKRHKYCPIC 36
C C + K CPIC
Sbjct: 32 TCFHCARRLKKAGASCPIC 50
>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; HET: MSE; 2.29A {Homo
sapiens}
Length = 100
Score = 30.6 bits (69), Expect = 0.50
Identities = 9/42 (21%), Positives = 17/42 (40%), Gaps = 5/42 (11%)
Query: 19 CKTCIVKYLKRHKY-CPICDVLVYKTKPLQSIRPDTRLQNVV 59
C +CI ++L + CP C + L+ + + V
Sbjct: 46 CFSCIRRWLTEQRAQCPHCRAPL----QLRELVNCRWAEEVT 83
>2krc_A DNA-directed RNA polymerase subunit delta; delta subunit,
GRAM-positive bacteria, nucleotidyltransferase,
transcription, transferase; NMR {Bacillus subtilis}
Length = 99
Score = 30.5 bits (69), Expect = 0.57
Identities = 9/52 (17%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 166 NNEQLTQNISVMDVAYIYQWKKKTPMYLGYRILETKIKRISETEEAENSKRL 217
+ E+L + ++++++A+ + K P+ ++ L +I + ++ E R+
Sbjct: 6 SQEEL-KEMALVEIAHELFEEHKKPVP--FQELLNEIASLLGVKKEELGDRI 54
>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 75
Score = 29.6 bits (67), Expect = 0.67
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 20 KTCIVKYLKRHKYCPIC 36
C+ K+LK ++ CPIC
Sbjct: 50 AKCVDKWLKANRTCPIC 66
>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 29.9 bits (67), Expect = 0.68
Identities = 6/26 (23%), Positives = 12/26 (46%), Gaps = 5/26 (19%)
Query: 17 PVCK-----TCIVKYLKRHKYCPICD 37
C C+ ++K++ CP+C
Sbjct: 46 GECNHSFHNCCMSLWVKQNNRCPLCQ 71
>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene,
phosphorylation, alternative splicing, HOST-virus
interaction, UBL conjugation pathway, zinc-finger,
polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB:
2vjf_A* 2hdp_A
Length = 64
Score = 29.0 bits (65), Expect = 0.87
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 18 VCKTCIVKYLKRHKYCPIC 36
C TC K KR+K CP+C
Sbjct: 33 ACFTCAKKLKKRNKPCPVC 51
>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition,
ATP-binding, DNA- cell division, DNA translocation,
KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas
aeruginosa} PDB: 2iuu_A*
Length = 574
Score = 32.3 bits (74), Expect = 0.92
Identities = 15/86 (17%), Positives = 29/86 (33%)
Query: 448 MPRGSRPRAPSVPRYKTLKTGVQPWNPTVSRSKVSVGTPDPLKPQENISKIFKSRNARFM 507
+P + + + + R + P K E ++ K + A
Sbjct: 2 VPDRREQSKAKERLLEREEALAKHMSEREKRPPPKIDPPPSPKAPEPSKRVLKEKQAPLF 61
Query: 508 NSPSPPTTLPKLSLQDPPKPRASNST 533
+ TLP LSL DP + + + +
Sbjct: 62 VDTAVEGTLPPLSLLDPAEVKQKSYS 87
>2ect_A Ring finger protein 126; metal binding protein, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Mus musculus}
Length = 78
Score = 29.3 bits (66), Expect = 1.1
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 19 CKTCIVKYLKRHKYCPIC 36
+CIV +L++H CP+C
Sbjct: 41 HDSCIVPWLEQHDSCPVC 58
>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing,
mRNA splicing; NMR {Homo sapiens}
Length = 92
Score = 29.3 bits (66), Expect = 1.5
Identities = 9/43 (20%), Positives = 13/43 (30%), Gaps = 5/43 (11%)
Query: 19 CKTCIVKYL--KRHKYCPICDVLVYKTKPLQSIRPDTRLQNVV 59
C CI L CP C ++ + L+ V
Sbjct: 37 CDECIRTALLESDEHTCPTCHQ---NDVSPDALIANKFLRQAV 76
>3sbc_A Peroxiredoxin TSA1; alpha-beta fold, peroxidase, cytosol,
oxidoreductase; 2.80A {Saccharomyces cerevisiae}
Length = 216
Score = 30.7 bits (70), Expect = 1.6
Identities = 8/48 (16%), Positives = 20/48 (41%)
Query: 247 INSNADNNTNTGNVIPKANDTSNHINKPAPPINNQGAHSNEWKEVELK 294
+ S+ ++ ++ ++P+ + + K AP + EV L
Sbjct: 1 MGSSHHHHHHSSGLVPRGSHMVAQVQKQAPTFKKTAVVDGVFDEVSLD 48
>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA
complex, DNA-binding protein- complex; HET: DNA 3DR;
5.93A {Mus musculus}
Length = 117
Score = 29.4 bits (65), Expect = 2.1
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 22 CIVKYLKRHKYCPIC 36
CI ++LK + CP+
Sbjct: 92 CISRWLKTRQVCPLD 106
>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG,
structural genomics, PSI-2, protein struc initiative;
NMR {Homo sapiens}
Length = 91
Score = 28.5 bits (64), Expect = 2.5
Identities = 5/15 (33%), Positives = 10/15 (66%)
Query: 22 CIVKYLKRHKYCPIC 36
C+ +L++ CP+C
Sbjct: 69 CVSIWLQKSGTCPVC 83
>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 = 29.5 bits (65), Expect = 3.0
Identities = 9/41 (21%), Positives = 14/41 (34%), Gaps = 17/41 (41%)
Query: 583 QIKEFNPFLHPSIFYPGFLPYPPDNNPLLPNSPDFMKAMSA 623
+K+ L S+ Y D+ P L A+ A
Sbjct: 21 ALKK----LQASL-----KLYADDSAPAL--------AIKA 44
Score = 28.4 bits (62), Expect = 8.0
Identities = 7/26 (26%), Positives = 12/26 (46%), Gaps = 4/26 (15%)
Query: 650 QSEKKMTPS----SPRSSTAQPISTS 671
Q+ KK+ S + S+ A I +
Sbjct: 20 QALKKLQASLKLYADDSAPALAIKAT 45
>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus
interaction, receptor, UBL conjugation, UBL conjugation
pathway, acetylation, cytoplasm; 2.60A {Homo sapiens}
SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D
4a0l_F* 1ldj_B 1ldk_C 2lgv_A
Length = 106
Score = 28.6 bits (63), Expect = 3.1
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 22 CIVKYLKRHKYCPIC 36
CI ++LK + CP+
Sbjct: 81 CISRWLKTRQVCPLD 95
>2j4o_A Mitogen-activated protein kinase kinase kinase 7-interacting
protein 1; TGF-beta, pseudo-phosphatase, TAK1 binding
protein, protein binding; 2.25A {Homo sapiens} PDB:
2pom_A 2pop_A
Length = 401
Score = 30.4 bits (68), Expect = 3.2
Identities = 10/37 (27%), Positives = 15/37 (40%)
Query: 643 FNHHLPPQSEKKMTPSSPRSSTAQPISTSRSSPMSMS 679
F + L S+ +P+ P+S SS S S
Sbjct: 365 FGYPLGEMSQPTPSPAPAAGGRVYPVSVPYSSAQSTS 401
>2uv4_A 5'-AMP-activated protein kinase subunit gamma-1; transferase, CBS
domain, lipid synthesis, fatty acid biosynthesis; HET:
AMP; 1.33A {Homo sapiens} PDB: 2uv5_A* 2uv6_A* 2uv7_A*
Length = 152
Score = 29.2 bits (66), Expect = 3.7
Identities = 14/127 (11%), Positives = 44/127 (34%), Gaps = 28/127 (22%)
Query: 34 PICDVLVYKTKPLQSIRPDTRLQNVVYKLIPGLYEKEMQRRQMFFSSTPIQNSLGLTGED 93
+ ++ + + +R T + + + + S+ P+ + G
Sbjct: 19 SLEELQIGTYANIAMVRTTTPVYVAL---------GIFVQHR--VSALPVVDE---KGRV 64
Query: 94 KGIITESSDIIL-----PDENISITL-EYLAHSSDDINKAVYGRRYLRCKASAPV-SILH 146
I ++ D+I N+ +++ + L H S + C + +I++
Sbjct: 65 VDIYSK-FDVINLAAEKTYNNLDVSVTKALQHRSHYFEGVLK------CYLHETLETIIN 117
Query: 147 KFLKNKF 153
+ ++ +
Sbjct: 118 RLVEAEV 124
>3odw_A RHO guanine nucleotide exchange factor 1; regulation of RHOA
GTPase, rhogef, DH, PH, signaling PR; 3.20A {Homo
sapiens} PDB: 3odx_A
Length = 536
Score = 29.7 bits (66), Expect = 5.4
Identities = 19/167 (11%), Positives = 37/167 (22%), Gaps = 9/167 (5%)
Query: 633 SSLPPSISTLFNHHLPPQSEKKMTPSSPRSSTAQPISTSRSSPMSMSNTCLSSSSSELPR 692
S P + L + P P + + + + S +
Sbjct: 19 SDEPAKTKKGLSSILDAARWNRGEPQVPDFRHLKAEVDAEKPGATDRKGGVGMPSRDRNI 78
Query: 693 STAANHIYSLSSLPSSISVSPTTSNSHNLPASIKSYIPLNSISNSKVVSKTFSPVKSSPS 752
P + + P + PL +S + + S
Sbjct: 79 GA------PGQDTPGVSLHPLSLDSPDREPGAD---APLELGDSSPQGPMSLESLAPPES 129
Query: 753 SKEKSPTCVNSIFSPANMIASSSSTSSSKSYSSSRMSPITSLASFPP 799
+ E + T S + + P +L S P
Sbjct: 130 TDEGAETESPEPGDEGEPGRSGLELEPEEPPGWRELVPPDTLHSLPK 176
>1lw3_A Myotubularin-related protein 2; protein-phosphate complex,
hydrolase; 2.30A {Homo sapiens} SCOP: b.55.1.8 c.45.1.3
PDB: 1m7r_A
Length = 657
Score = 29.6 bits (65), Expect = 5.4
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 768 ANMIASSSSTSSSKSYSSSRMSPITSLASFPPTVSISSAQPL--SLVTTTSITTSAPSLT 825
A+M SSS S +++R + SL+S + S +S S+V++ SI+TSA + +
Sbjct: 2 ASMETSSSCESLGSQPAAARPPSVDSLSSASTSHSENSVHTKSASVVSSDSISTSADNFS 61
Query: 826 TNTNEERKDSNKDNTEQ 842
+ R+ + E+
Sbjct: 62 PDLRVLRESNKLAEMEE 78
>2qrj_A Saccharopine dehydrogenase, NAD+, L-lysine- forming; sulfate,
rossmann fold, alpha-aminoadipate pathway, fungal lysine
biosynthesis; 1.60A {Saccharomyces cerevisiae} PDB:
2qrk_A* 2qrl_A* 2q99_A 3ugk_A 3uh1_A* 3uha_A*
Length = 394
Score = 29.6 bits (66), Expect = 5.8
Identities = 17/87 (19%), Positives = 37/87 (42%), Gaps = 5/87 (5%)
Query: 490 KPQENISKIFKSRNARFMNSPSPPTTLPKLSLQDPPKPRASNSTLTKVDPRTLSPIVPVS 549
P + I + N +++ P P T + L +P + + ++ D +P+
Sbjct: 256 GPFDEIPQADIFINCIYLSKPIAPFTNME-KLNNPNRRLRTVVDVS-ADTTNPHNPIPIY 313
Query: 550 SSTTKVDSPTYIDNSTSP---SHLSVD 573
+ T + PT + +T+ S +S+D
Sbjct: 314 TVATVFNKPTVLVPTTAGPKLSVISID 340
>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT-
interacting protein, ring domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 88
Score = 27.4 bits (61), Expect = 6.1
Identities = 7/22 (31%), Positives = 10/22 (45%), Gaps = 3/22 (13%)
Query: 18 VCKTCIVKYLKRHKY---CPIC 36
+C+ C+ K L CP C
Sbjct: 41 ICRQCLEKLLASSINGVRCPFC 62
>3asi_A Neurexin-1-alpha; beta-sandwich, cell adhesion, synapse maturation,
neuroligin glycosylation, membrane; HET: NAG; 2.30A {Bos
taurus}
Length = 410
Score = 29.2 bits (65), Expect = 6.5
Identities = 7/40 (17%), Positives = 19/40 (47%)
Query: 286 NEWKEVELKINDNGVMSATVLPPVTSQTQNSSNLLNLTTQ 325
N+W V + + + + + + +T+Q + L+L +
Sbjct: 87 NQWHNVMISRDTSNLHTVKIDTKITTQITAGARNLDLKSD 126
>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein
of testis, proliferation potential-related protein,
protein P2P-R; NMR {Homo sapiens}
Length = 74
Score = 27.0 bits (60), Expect = 7.3
Identities = 7/20 (35%), Positives = 7/20 (35%), Gaps = 2/20 (10%)
Query: 19 CKTCIVKYLKRHKY--CPIC 36
C CI L CP C
Sbjct: 39 CDECIRTALLESDEHTCPTC 58
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
0.308 0.123 0.346
Gapped
Lambda K H
0.267 0.0544 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 12,295,484
Number of extensions: 673624
Number of successful extensions: 1123
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1033
Number of HSP's successfully gapped: 98
Length of query: 937
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 835
Effective length of database: 3,853,851
Effective search space: 3217965585
Effective search space used: 3217965585
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 62 (28.1 bits)