RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10334
(314 letters)
>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 = 90.3 bits (224), Expect = 5e-23
Identities = 55/84 (65%), Positives = 67/84 (79%)
Query: 23 SHVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTD 82
++AEVFRCFIC+EKLRD LCPHCSKLCC +CIR++LTE+R+QCPHCRA L + +
Sbjct: 13 EQSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE 72
Query: 83 LVNCRWMEEVTQHLDNLQMNSKSS 106
LVNCRW EEVTQ LD LQ+ S +
Sbjct: 73 LVNCRWAEEVTQQLDTLQLCSLTK 96
>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding,
translesion synthesis, UB conjugation pathway; 1.80A
{Homo sapiens}
Length = 99
Score = 74.4 bits (183), Expect = 4e-17
Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 27 RALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNC 86
+ + ++ RC IC E + P CS C CIR+FL ++QCP C ++ DL N
Sbjct: 17 KTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFL-SYKTQCPTCCVTVTEPDLKNN 75
Query: 87 RWMEEVTQHLDNLQ 100
R ++E+ + L+ +
Sbjct: 76 RILDELVKSLNFAR 89
>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 = 49.0 bits (117), Expect = 7e-08
Identities = 17/65 (26%), Positives = 22/65 (33%), Gaps = 1/65 (1%)
Query: 20 STTSHVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79
TT L C +C D C C CI ++L E CP C +H
Sbjct: 3 RTTRIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYL-ETSKYCPICDVQVH 61
Query: 80 MTDLV 84
T +
Sbjct: 62 KTRPL 66
>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger,
zinc-binding protein, heterodimer, ubiquitin ligase,
antitumor; NMR {Homo sapiens} SCOP: g.44.1.1
Length = 117
Score = 48.7 bits (116), Expect = 1e-07
Identities = 17/81 (20%), Positives = 31/81 (38%), Gaps = 3/81 (3%)
Query: 20 STTSHVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79
+ + L ++ RC C LR+ C + C C+ + + CP C
Sbjct: 10 AHSRAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCI---GTGCPVCYTPAW 66
Query: 80 MTDLVNCRWMEEVTQHLDNLQ 100
+ DL R ++ + Q L+
Sbjct: 67 IQDLKINRQLDSMIQLCSKLR 87
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 44.7 bits (106), Expect = 9e-07
Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 1/59 (1%)
Query: 27 RALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVN 85
L C IC L D C C +CI + ++CP C +H T ++
Sbjct: 10 SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHF-YYSNRCPKCNIVVHQTQPLS 67
>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin
ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB:
2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A
2ldr_A*
Length = 389
Score = 48.2 bits (114), Expect = 2e-06
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 1/55 (1%)
Query: 30 AEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84
+ C IC E +D + P C L C +C+ + E CP CR + T+ +
Sbjct: 330 STFQLCKICAENDKDVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 383
>2ecy_A TNF receptor-associated factor 3; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 43.6 bits (103), Expect = 2e-06
Identities = 10/55 (18%), Positives = 21/55 (38%), Gaps = 1/55 (1%)
Query: 29 LAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDL 83
+ + ++C C L C C +C+ L+ +C C+ S+ +
Sbjct: 12 VEDKYKCEKCHLVLCSPKQTE-CGHRFCESCMAALLSSSSPKCTACQESIVKDKV 65
>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 = 47.9 bits (113), Expect = 3e-06
Identities = 57/406 (14%), Positives = 108/406 (26%), Gaps = 147/406 (36%)
Query: 24 HVSRALAEVFRCFICIEKLRD-THLCPH----CSK--LCCLACIRQFLTEERSQCPHCRA 76
+VSR L + + +LR ++ K + C S C+
Sbjct: 130 NVSR-LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVC--------LSYKVQCKM 180
Query: 77 SLHM--TDLVNCRWMEEVTQHLDNLQMNSKSSLQTYQRLFPNSTLCLN-----VKNLLSE 129
+ +L NC E V + L L + + N L ++ ++ LL
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240
Query: 130 LKLKYGLSIKL--VWIPGHMNISGNCAVDLAAKQAQTSPDAEILNV-------------- 173
+ L + L V N A +L+ K T+ ++ +
Sbjct: 241 KPYENCLLV-LLNVQNAKAWN-----AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHH 294
Query: 174 ----THTDLKSFFKK--------IPSE---------------------KWKLTWSYETCD 200
T ++KS K +P E W W + CD
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD-NWKHVNCD 353
Query: 201 NKLKNIKQ----------------------DTK--------YWASSTRNIRKEEVVLTRL 230
I+ W ++ VV+ +L
Sbjct: 354 KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD--VMVVVNKL 411
Query: 231 RIGHSLLTHKFLLDRQEPPMC---NDCQVQITIK----QFKH-ILCDCPLYQSFRR--KN 280
L+++Q +++ +K H + D Y + +
Sbjct: 412 H-------KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDH--YNIPKTFDSD 462
Query: 281 NLTELT------------LSSLLRDDS----TQIYKVMRFLRQTKL 310
+L L ++ + ++ RFL Q K+
Sbjct: 463 DLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQ-KI 507
Score = 45.2 bits (106), Expect = 2e-05
Identities = 49/265 (18%), Positives = 89/265 (33%), Gaps = 64/265 (24%)
Query: 94 QHLD----NLQMNSKSSLQTYQRLFPNSTLCLNV----KNLLSELKLKYGLSIK------ 139
H+D Q K L ++ F ++ C +V K++LS+ ++ + + K
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 140 --LVWIPGHMNISGNCAVDLAAKQAQTSPDA--EILNVTHTDLKSFFKKIPSEKWKLTWS 195
L W L +KQ + E+L + + L S K + +T
Sbjct: 65 LRLFWT-------------LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM 111
Query: 196 YETCDNKLKNIKQD-TKYWASSTRNIRKEEVVLTRLR------------IGHSLLTHKFL 242
Y ++L N Q KY S + K L LR G + +
Sbjct: 112 YIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVC 171
Query: 243 LDRQEPPMCNDCQVQ-ITIKQFKHILCDCP---------LYQSFRRKNNLTELTLSSLLR 292
L + D ++ + +K C+ P L N + SS ++
Sbjct: 172 LS-YKVQCKMDFKIFWLNLKN-----CNSPETVLEMLQKLLYQI-DPNWTSRSDHSSNIK 224
Query: 293 DDSTQIYKVMRFLRQTKLFK---LI 314
I +R L ++K ++ L+
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLV 249
>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 = 47.0 bits (111), Expect = 6e-06
Identities = 50/378 (13%), Positives = 107/378 (28%), Gaps = 148/378 (39%)
Query: 2 DELDGLSTIEVLFLRLFISTTS----HVSRALAEVFRCF---ICIEK-LRDTHLCPHCSK 53
+EL L + + I ++ + R + + F + I + L + P
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY 230
Query: 54 LCC--LAC--IRQFLTEERSQCPH----CRAS-LHMTDLVNCRWMEEVTQHL-------- 96
L ++C I + Q H + +L + +++ T H
Sbjct: 231 LLSIPISCPLI--GVI----QLAHYVVTAKLLGFTPGELRS--YLKGATGHSQGLVTAVA 282
Query: 97 -------DNLQMNSKSSLQTY-------QRLFPNSTLC------------------LNVK 124
++ ++ + ++ +PN++L L++
Sbjct: 283 IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 125 NLLSELKLKY------------GLSIKLVWIPGHMNISGN----CAVDLAAKQAQTSPDA 168
NL E Y + I LV ++ +SG ++L ++A+
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGL 402
Query: 169 EILNVTHTDLKSFFKKIPSEKWKLTWSYETCDNKLKNIKQDTKYWASSTRNIRKEEVVLT 228
+ +IP + RK +
Sbjct: 403 DQ------------SRIPFSE-------------------------------RKLKFSNR 419
Query: 229 RLRIG---HS-LL---THKFLLDRQEPPMCNDCQVQITIKQFKHILCDCPLYQSF----- 276
L + HS LL + D + V K + P+Y +F
Sbjct: 420 FLPVASPFHSHLLVPASDLINKDLVKN------NVSFNAKDIQ-----IPVYDTFDGSDL 468
Query: 277 RR-KNNLTELTLSSLLRD 293
R +++E + ++R
Sbjct: 469 RVLSGSISERIVDCIIRL 486
Score = 31.2 bits (70), Expect = 0.60
Identities = 11/56 (19%), Positives = 21/56 (37%), Gaps = 16/56 (28%)
Query: 149 ISGNC-AVDLAAKQAQTSPDAEILNVTHTDLKSFFKKIPSEKWKLTWSYETCDNKL 203
+G+ A+D +LN +K +KI + + + S E + L
Sbjct: 1855 AAGDLRALDTVT---------NVLNF----IKL--QKIDIIELQKSLSLEEVEGHL 1895
>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 = 42.4 bits (100), Expect = 7e-06
Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 1/64 (1%)
Query: 20 STTSHVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTE-ERSQCPHCRASL 78
S +S + + C IC + + D + P C C CIR L E + CP C +
Sbjct: 3 SGSSGEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQND 62
Query: 79 HMTD 82
D
Sbjct: 63 VSPD 66
>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 = 43.4 bits (102), Expect = 2e-05
Identities = 17/63 (26%), Positives = 23/63 (36%)
Query: 20 STTSHVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79
R+L C IC++ L++T C C CI L +CP CR L
Sbjct: 42 LEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLV 101
Query: 80 MTD 82
Sbjct: 102 SKR 104
>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 74
Score = 41.1 bits (96), Expect = 2e-05
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 1/49 (2%)
Query: 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFL-TEERSQCPHCRASL 78
V C IC L C C L C+ ++ + +CPHC
Sbjct: 14 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 62
>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing,
mRNA splicing; NMR {Homo sapiens}
Length = 92
Score = 41.7 bits (98), Expect = 2e-05
Identities = 16/62 (25%), Positives = 23/62 (37%), Gaps = 1/62 (1%)
Query: 22 TSHVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTE-ERSQCPHCRASLHM 80
+ + C IC + + D + P C C CIR L E + CP C +
Sbjct: 3 LGSEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS 62
Query: 81 TD 82
D
Sbjct: 63 PD 64
>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 = 42.1 bits (99), Expect = 2e-05
Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 1/59 (1%)
Query: 29 LAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCR 87
L + C IC+ LR+ P C C ACI + + + +CP L L
Sbjct: 15 LESKYECPICLMALREAVQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDN 72
>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 = 43.2 bits (101), Expect = 2e-05
Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 1/63 (1%)
Query: 29 LAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRW 88
L + C IC+ LR+ P C C ACI + + + +CP L L +
Sbjct: 15 LESKYECPICLMALREAVQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNF 73
Query: 89 MEE 91
+
Sbjct: 74 AKR 76
>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 = 42.4 bits (99), Expect = 2e-05
Identities = 10/62 (16%), Positives = 16/62 (25%), Gaps = 1/62 (1%)
Query: 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWME 90
+ C C LR C C C+ L+ C C + ++
Sbjct: 30 AKYLCSACRNVLRRPFQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESS 88
Query: 91 EV 92
Sbjct: 89 SA 90
>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 = 41.1 bits (96), Expect = 6e-05
Identities = 19/58 (32%), Positives = 22/58 (37%), Gaps = 1/58 (1%)
Query: 28 ALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVN 85
+ C IC L D C L C CI + L S CP CR TDL +
Sbjct: 19 HFVKSISCQICEHILADPVET-SCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLES 75
>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 = 39.6 bits (92), Expect = 2e-04
Identities = 14/60 (23%), Positives = 20/60 (33%), Gaps = 1/60 (1%)
Query: 20 STTSHVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79
S + E F+C C E + C C C+ + + CP CR L
Sbjct: 40 SPFQLFLSKVEETFQCICCQELVFRPITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLG 98
>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase,
protein binding complex; 4.80A {Homo sapiens}
Length = 149
Score = 38.9 bits (90), Expect = 5e-04
Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 20 STTSHVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79
SH++ L +C IC E + C+ C CI +++ + + +CP CR +
Sbjct: 52 EVLSHMNDVLENELQCIICSEYFIEAVTLN-CAHSFCSYCINEWM-KRKIECPICRKDIK 109
>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 70
Score = 36.6 bits (85), Expect = 6e-04
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 5/60 (8%)
Query: 20 STTSHVSRALAEVFRCFICIEKLRDTHL-CPHCSKLCCLACIRQFLTEERSQCPHCRASL 78
S +S + L + C IC++ D L C H C CI ++ R+ CP CR +
Sbjct: 3 SGSSGRVKQLTDEEECCICMDGRADLILPCAHSF---CQKCIDKWSDRHRN-CPICRLQM 58
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 36.7 bits (85), Expect = 6e-04
Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 2/59 (3%)
Query: 20 STTSHVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASL 78
S +S + V C IC++ + C + C C++ + C CR +
Sbjct: 3 SGSSGNTAPSLTVPECAICLQTCVHP-VSLPCKHVFCYLCVKGASWLGKR-CALCRQEI 59
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO
enzyme, structural genomics, protein structure
initiative; NMR {Desulfitobacterium hafniense dcb-2}
PDB: 2kw4_A
Length = 147
Score = 37.7 bits (88), Expect = 0.001
Identities = 12/54 (22%), Positives = 18/54 (33%)
Query: 122 NVKNLLSELKLKYGLSIKLVWIPGHMNISGNCAVDLAAKQAQTSPDAEILNVTH 175
++L +Y + H N VD+ AK A D E + H
Sbjct: 94 EFTQAYAKLMNQYRGIYSFEKVKAHSGNEFNDYVDMKAKSALGIRDLEHHHHHH 147
>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 = 0.002
Identities = 13/60 (21%), Positives = 22/60 (36%), Gaps = 7/60 (11%)
Query: 30 AEVFRCFICIEKLRDTHLCPH--CSKLC----CLACIRQFLTEERSQCPHCRASLHMTDL 83
+ C IC++ + S C C C+R L + + CP CR ++
Sbjct: 1 GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL-KNANTCPTCRKKINHKRY 59
>2ecw_A Tripartite motif-containing protein 30; metal binding protein,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 85
Score = 35.8 bits (83), Expect = 0.002
Identities = 20/68 (29%), Positives = 28/68 (41%), Gaps = 10/68 (14%)
Query: 23 SHVSRALAEVFRCFICIEKLRD--THLCPHCSKLCCLACIRQFL-----TEERSQCPHCR 75
S V + E C IC+E L++ + C H C ACI T+ + CP CR
Sbjct: 10 SSVLEMIKEEVTCPICLELLKEPVSADCNHSF---CRACITLNYESNRNTDGKGNCPVCR 66
Query: 76 ASLHMTDL 83
+L
Sbjct: 67 VPYPFGNL 74
>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid
herpesvirus 1} SCOP: g.44.1.1
Length = 68
Score = 34.7 bits (80), Expect = 0.003
Identities = 12/46 (26%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 34 RCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79
RC IC+E + + C C CI +++ + CP C+ +
Sbjct: 7 RCPICLEDPSNYSMALPCLHAFCYVCITRWI-RQNPTCPLCKVPVE 51
>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 = 0.004
Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 2/44 (4%)
Query: 33 FRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRA 76
FRCFIC + ++ + C C +C + +C C
Sbjct: 16 FRCFICRQAFQNPVVTK-CRHYFCESCALEHF-RATPRCYICDQ 57
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3
ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Length = 238
Score = 36.6 bits (84), Expect = 0.005
Identities = 13/50 (26%), Positives = 18/50 (36%), Gaps = 1/50 (2%)
Query: 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFL-TEERSQCPHCRASLH 79
V C IC L C C L C+ ++ + +CPHC
Sbjct: 179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP 228
>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 = 35.8 bits (82), Expect = 0.005
Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 5/54 (9%)
Query: 27 RALAEVFRCFICIEKLRD--THLCPHCSKLCCLACIRQFLTEERSQCPHCRASL 78
+ L + F C C E + T C H C C+++ + CP CR L
Sbjct: 73 KKLEQSFMCVCCQELVYQPVTTECFHNV---CKDCLQRSFKAQVFSCPACRHDL 123
>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 = 34.0 bits (78), Expect = 0.006
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 7/57 (12%)
Query: 33 FRCFICIEKLRDTHLCPH--CSKLC----CLACIRQFLTEERSQCPHCRASLHMTDL 83
C IC++ + S C C C+R L + + CP CR ++
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL-KNANTCPTCRKKINHKRY 66
>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional
control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B
Length = 78
Score = 34.3 bits (78), Expect = 0.006
Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 3/47 (6%)
Query: 34 RCFICIEKL--RDTHLCP-HCSKLCCLACIRQFLTEERSQCPHCRAS 77
C +C+E L D + P C C C + T+E CP CR
Sbjct: 13 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 59
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV,
RNAse H, reverse transcriptase, transcription; 1.50A
{Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A
3v1r_A* 2hb5_A
Length = 165
Score = 35.6 bits (82), Expect = 0.008
Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 7/52 (13%)
Query: 123 VKNLLSELKLKYGLSIKLVWIPGHM-----NISGNCAVDLAAKQAQTSPDAE 169
+ LL L L + ++ PGH GN D AA++A E
Sbjct: 111 ILALLKALFLPK--RLSIIHCPGHQKGNSAEARGNRMADQAAREAAMKAVLE 160
>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 = 34.5 bits (79), Expect = 0.009
Identities = 16/71 (22%), Positives = 26/71 (36%), Gaps = 1/71 (1%)
Query: 29 LAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRW 88
+C IC+E L + P C+ C C + + + CP CR + + R
Sbjct: 12 SLSECQCGICMEILVEPVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRR 70
Query: 89 MEEVTQHLDNL 99
V L +
Sbjct: 71 NSLVNVELWTI 81
>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 = 34.9 bits (79), Expect = 0.011
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 9/35 (25%)
Query: 90 EEVTQHLDNLQMNSKSSLQTYQRLFPNSTLCLNVK 124
E+ Q L LQ +SL+ Y +S L +K
Sbjct: 18 EK--QALKKLQ----ASLKLYA---DDSAPALAIK 43
Score = 31.8 bits (71), Expect = 0.15
Identities = 9/24 (37%), Positives = 12/24 (50%), Gaps = 7/24 (29%)
Query: 122 NVKNLLSELKLKY------GLSIK 139
+K L + LKL Y L+IK
Sbjct: 21 ALKKLQASLKL-YADDSAPALAIK 43
>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 = 34.3 bits (79), Expect = 0.012
Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 7/69 (10%)
Query: 19 ISTTSHVSRALAEVFRCFICIEKLRD--THLCPHCSKLCCLACIRQFLTEER--SQCPHC 74
+ +V A+ ++ C IC+E +++ + C H C C+ + L +++ SQCP C
Sbjct: 8 VEEVQNVINAMQKILECPICLELIKEPVSTKCDHIF---CKFCMLKLLNQKKGPSQCPLC 64
Query: 75 RASLHMTDL 83
+ + L
Sbjct: 65 KNDITKRSL 73
>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 69
Score = 33.0 bits (75), Expect = 0.012
Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 7/67 (10%)
Query: 20 STTSHVSRALAEVFRCFICIEKLRDTHLCPH--CSKLC----CLACIRQFLTEERSQCPH 73
S +S + C IC++ + S C C C+R L + + CP
Sbjct: 3 SGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL-KNANTCPT 61
Query: 74 CRASLHM 80
CR ++
Sbjct: 62 CRKKINH 68
>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 73
Score = 32.7 bits (75), Expect = 0.016
Identities = 18/66 (27%), Positives = 26/66 (39%), Gaps = 7/66 (10%)
Query: 22 TSHVSRALAEVFRCFICIEKLRD--THLCPHCSKLCCLACIRQFLTEER--SQCPHCRAS 77
+ L E C IC++ L+ T C H CL CI Q +CP C+ S
Sbjct: 10 SGQFVNKLQEEVICPICLDILQKPVTIDCGHNF---CLKCITQIGETSCGFFKCPLCKTS 66
Query: 78 LHMTDL 83
+ +
Sbjct: 67 VRKNAI 72
>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT-
interacting protein, ring domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 88
Score = 33.1 bits (76), Expect = 0.017
Identities = 20/61 (32%), Positives = 27/61 (44%), Gaps = 5/61 (8%)
Query: 20 STTSHVSRALAEVFRCFICIEKLRDTHLCP---HCSKLCCLACIRQFLTEERS--QCPHC 74
S +S AL EV C IC+E + L P HC C C+ + L + +CP C
Sbjct: 3 SGSSGNLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC 62
Query: 75 R 75
Sbjct: 63 S 63
>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 = 32.1 bits (73), Expect = 0.023
Identities = 12/46 (26%), Positives = 21/46 (45%), Gaps = 7/46 (15%)
Query: 35 CFICIEKLRDTHL----CPHCSKLCCLACIRQFLTEERSQCPHCRA 76
C +C ++ RD ++ H C C R+ L + + CP C+
Sbjct: 10 CSLCEKRPRDGNIIHGRTGHLV--TCFHCARR-LKKAGASCPICKK 52
>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 = 32.1 bits (73), Expect = 0.025
Identities = 13/55 (23%), Positives = 21/55 (38%), Gaps = 7/55 (12%)
Query: 26 SRALAEVFRCFICIEKLRDTHL----CPHCSKLCCLACIRQFLTEERSQCPHCRA 76
S L + C IC + ++ + H C C ++ L + CP CR
Sbjct: 2 SLPLNAIEPCVICQGRPKNGCIVHGKTGHLM--ACFTCAKK-LKKRNKPCPVCRQ 53
>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 58
Score = 31.1 bits (71), Expect = 0.043
Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 7/59 (11%)
Query: 20 STTSHVSRALAEVFRCFICIEKLRD--THLCPHCSKLCCLACIRQFLTEERS--QCPHC 74
S +S L C +C+E L++ C H C ACI ++ + CP C
Sbjct: 3 SGSSGALENLQVEASCSVCLEYLKEPVIIECGHNF---CKACITRWWEDLERDFPCPVC 58
>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain,
tripartite motif protein 34, interferon- responsive
finger protein 1; NMR {Homo sapiens}
Length = 79
Score = 31.9 bits (73), Expect = 0.044
Identities = 21/70 (30%), Positives = 27/70 (38%), Gaps = 11/70 (15%)
Query: 22 TSHVSRALAEVFRCFICIEKLRD--THLCPHCSKLCCLACIRQFLTE------ERSQCPH 73
+S S + E C IC+E L + + C H C ACI E +S CP
Sbjct: 2 SSGSSGNVQEEVTCPICLELLTEPLSLDCGHSL---CRACITVSNKEAVTSMGGKSSCPV 58
Query: 74 CRASLHMTDL 83
C S L
Sbjct: 59 CGISYSFEHL 68
>2ecv_A Tripartite motif-containing protein 5; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 85
Score = 31.9 bits (73), Expect = 0.047
Identities = 19/68 (27%), Positives = 27/68 (39%), Gaps = 10/68 (14%)
Query: 23 SHVSRALAEVFRCFICIEKLRD--THLCPHCSKLCCLACIRQF-----LTEERSQCPHCR 75
S + + E C IC+E L + C H C AC+ L + S CP CR
Sbjct: 10 SGILVNVKEEVTCPICLELLTQPLSLDCGHSF---CQACLTANHKKSMLDKGESSCPVCR 66
Query: 76 ASLHMTDL 83
S ++
Sbjct: 67 ISYQPENI 74
>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 = 30.7 bits (70), Expect = 0.057
Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 4/47 (8%)
Query: 35 CFICIEKLRDTH---LCPHCSKLCCLACIRQFLTEERSQCPHCRASL 78
C IC+E + + C L C + L +E +CP C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEML-KEGYRCPLCSGPS 53
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo
sapiens} PDB: 2qk9_A 2qkk_A*
Length = 154
Score = 31.8 bits (73), Expect = 0.12
Identities = 13/43 (30%), Positives = 20/43 (46%), Gaps = 3/43 (6%)
Query: 123 VKN--LLSEL-KLKYGLSIKLVWIPGHMNISGNCAVDLAAKQA 162
V N L +L G+ I+ + +PGH GN D A++
Sbjct: 106 VINKEDFVALERLTQGMDIQWMHVPGHSGFIGNEEADRLAREG 148
>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring,
ATP-binding, chromosomal protein, coiled coil, DNA
damage; 2.31A {Saccharomyces cerevisiae}
Length = 267
Score = 32.6 bits (73), Expect = 0.12
Identities = 14/68 (20%), Positives = 21/68 (30%), Gaps = 9/68 (13%)
Query: 33 FRCFICIEKLRD---THLCPHCSKLCCLACIRQFLTEERS-QCPH--CRASLHMTDLVNC 86
C I + + C H I+ +L + CP C + M D V
Sbjct: 182 LTCPITCKPYEAPLISRKCNHV---FDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRD 238
Query: 87 RWMEEVTQ 94
ME +
Sbjct: 239 PIMELRCK 246
>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1,
ring domain, zinc-binding domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 68
Score = 30.1 bits (68), Expect = 0.16
Identities = 14/43 (32%), Positives = 18/43 (41%), Gaps = 7/43 (16%)
Query: 35 CFICIEKLRDTHLCPHCSKLC-CLACIRQFLTEERSQCPHCRA 76
C +C + L P C C C C++ F QCP CR
Sbjct: 18 CVVCQNGTVNWVLLP-CRHTCLCDGCVKYF-----QQCPMCRQ 54
>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex,
chimera; 2.21A {Rattus norvegicus}
Length = 133
Score = 31.3 bits (70), Expect = 0.17
Identities = 11/57 (19%), Positives = 18/57 (31%), Gaps = 7/57 (12%)
Query: 33 FRCFICIEKLRDTHLCPHCSKLC------CLACIRQFLTEERSQCPHCRASLHMTDL 83
C IC++ + C C+R L + CP CR ++
Sbjct: 73 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-CPTCRKKINHKRY 128
Score = 27.4 bits (60), Expect = 3.5
Identities = 13/71 (18%), Positives = 22/71 (30%), Gaps = 7/71 (9%)
Query: 30 AEVFRCFICIEKLRDTHLCPH--CSKLC----CLACIRQFLTEERSQCPHCRASLHMTDL 83
+ C IC++ + S C C C+R L + + CP CR ++
Sbjct: 5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL-KNANTCPTCRKKINHKRY 63
Query: 84 VNCRWMEEVTQ 94
Sbjct: 64 HPIYIGSGTVS 74
>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 63
Score = 28.9 bits (65), Expect = 0.29
Identities = 17/57 (29%), Positives = 22/57 (38%), Gaps = 7/57 (12%)
Query: 22 TSHVSRALAEVFRCFICIEKLRD--THLCPHCSKLCCLACIRQFLTEERS--QCPHC 74
+ L E C IC++ L+ T C H CL CI Q +CP C
Sbjct: 10 SGQFVNKLQEEVICPICLDILQKPVTIDCGHNF---CLKCITQIGETSCGFFKCPLC 63
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase,
hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} PDB:
3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A
Length = 150
Score = 30.6 bits (70), Expect = 0.34
Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 8/46 (17%)
Query: 123 VKN------LLSELKLKYGLSIKLVWIPGHMNISGNCAVDLAAKQA 162
VKN ++ +L K + L W+P H I GN VD
Sbjct: 101 VKNVDLVNQIIEQLIKKE--KVYLAWVPAHKGIGGNEQVDKLVSAG 144
>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase
complex, ring zinc-finger, UBL conjugation pathway;
2.10A {Homo sapiens} PDB: 2yhn_A
Length = 79
Score = 29.3 bits (66), Expect = 0.37
Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 9/52 (17%)
Query: 27 RALAEVFRCFICIEKLRDTHLCP--HCSKLCCLACIRQFLTEERSQCPHCRA 76
R L E C +C E+ ++ CP H CC +C Q CP CR+
Sbjct: 13 RKLKEAMLCMVCCEEEINSTFCPCGHTV--CCESCAAQL-----QSCPVCRS 57
>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
SCOP: g.44.1.3
Length = 93
Score = 29.4 bits (65), Expect = 0.37
Identities = 18/64 (28%), Positives = 25/64 (39%), Gaps = 7/64 (10%)
Query: 20 STTSHVSRALAEVFRCFICIEKLRDTHL--CPHCSK-LCCLACIRQFLTEERSQ----CP 72
S +S A + C IC E+L DTH CP C C R+ + + + CP
Sbjct: 3 SGSSGSPMANSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCP 62
Query: 73 HCRA 76
Sbjct: 63 SGEK 66
>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 75
Score = 28.6 bits (64), Expect = 0.55
Identities = 13/52 (25%), Positives = 17/52 (32%), Gaps = 9/52 (17%)
Query: 27 RALAEVFRCFICIEKLRDTHLCP--HCSKLCCLACIRQFLTEERSQCPHCRA 76
R L E C IC+++ P H C C +CP C
Sbjct: 20 RRLQEEKLCKICMDRNIAIVFVPCGHLV--TCKQCAEAV-----DKCPMCYT 64
>1z60_A TFIIH basal transcription factor complex P44 subunit; basic
transcription factor, zinc binding protein, ring
finger; NMR {Homo sapiens} SCOP: g.49.1.2
Length = 59
Score = 28.3 bits (63), Expect = 0.60
Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 35 CFICIEKLRDTHL--CPHCSKLCCLACIRQFLTEERSQCPHC 74
C+ C +L+D H+ C C + C+ C F+ + CP C
Sbjct: 18 CYGCQGELKDQHVYVCAVCQNVFCVDC-DVFVHDSLHSCPGC 58
Score = 25.2 bits (55), Expect = 7.1
Identities = 4/20 (20%), Positives = 7/20 (35%)
Query: 56 CLACIRQFLTEERSQCPHCR 75
C C + + C C+
Sbjct: 18 CYGCQGELKDQHVYVCAVCQ 37
>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding
domain; 1.90A {Mus musculus}
Length = 101
Score = 28.7 bits (63), Expect = 0.88
Identities = 8/45 (17%), Positives = 13/45 (28%)
Query: 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79
C C ++ C + C C + CP C +
Sbjct: 4 CDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ 48
>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3
ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2
PDB: 1n87_A
Length = 61
Score = 27.3 bits (61), Expect = 1.0
Identities = 9/52 (17%), Positives = 20/52 (38%), Gaps = 1/52 (1%)
Query: 33 FRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84
C I + R L P + + + Q++ ++ P L + ++V
Sbjct: 4 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYV-KDTGNDPITNEPLSIEEIV 54
>1b8t_A Protein (CRP1); LIM domain, muscle differentiation, contractIle;
NMR {Gallus gallus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3
g.39.1.3 PDB: 1ibi_A 1qli_A 1cxx_A 1ctl_A 2o13_A
Length = 192
Score = 29.2 bits (65), Expect = 1.2
Identities = 11/63 (17%), Positives = 21/63 (33%)
Query: 33 FRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWMEEV 92
F C +C + L T + H ++ C +C + + +L + E
Sbjct: 35 FLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEE 94
Query: 93 TQH 95
Q
Sbjct: 95 GQS 97
>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch
signaling, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus
musculus} SCOP: g.44.1.1
Length = 114
Score = 28.7 bits (63), Expect = 1.2
Identities = 14/63 (22%), Positives = 18/63 (28%), Gaps = 21/63 (33%)
Query: 35 CFICIEKLRD-----------------THLCPHCSKLCCLACIRQFL----TEERSQCPH 73
C IC+EKL CS L C+ + QCP
Sbjct: 28 CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPS 87
Query: 74 CRA 76
C+
Sbjct: 88 CKT 90
>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability,
hydrogen exchange, cooperativity, hydrolase; 1.30A
{Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A
1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A
1lav_A 3aa4_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 3aa3_A 3aa2_A
3aa5_X 1rbv_A ...
Length = 155
Score = 29.0 bits (66), Expect = 1.3
Identities = 16/50 (32%), Positives = 19/50 (38%), Gaps = 3/50 (6%)
Query: 123 VKN--LLSEL-KLKYGLSIKLVWIPGHMNISGNCAVDLAAKQAQTSPDAE 169
VKN L L IK W+ GH N D A+ A +P E
Sbjct: 98 VKNVDLWQRLDAALGQHQIKWEWVKGHAGHPENERADELARAAAMNPTLE 147
>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL
conjugation pathway, DNA damage, nucleus,
phosphoprotein; HET: 1PE; 2.40A {Saccharomyces
cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A
Length = 968
Score = 29.3 bits (65), Expect = 1.7
Identities = 9/54 (16%), Positives = 20/54 (37%), Gaps = 1/54 (1%)
Query: 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84
+ F + ++D + P + I+ L + + P R L + D+
Sbjct: 890 DEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDST-DPFNRMPLKLEDVT 942
>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring
E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A
{Saccharomyces cerevisiae}
Length = 371
Score = 29.1 bits (64), Expect = 2.0
Identities = 10/53 (18%), Positives = 22/53 (41%)
Query: 45 THLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWMEEVTQHLD 97
+ C H L + L QCP C+ + + +L +++++ Q+
Sbjct: 265 SINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALENLAISEFVDDILQNCQ 317
>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA,
apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase,
IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB:
1qbh_A 2l9m_A 3eb5_A 3eb6_A
Length = 345
Score = 29.2 bits (63), Expect = 2.0
Identities = 13/53 (24%), Positives = 18/53 (33%), Gaps = 5/53 (9%)
Query: 24 HVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRA 76
R L E C +C++K P + C C +CP CR
Sbjct: 287 EQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL-----RKCPICRG 334
>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS),
leukemia, transcription regulation; NMR {Homo sapiens}
SCOP: g.44.1.1
Length = 56
Score = 26.2 bits (58), Expect = 2.5
Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 5/50 (10%)
Query: 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHM 80
+ RC C + + L P C C C+ QCP C+A +
Sbjct: 5 QFLRCQQCQAEAKCPKLLP-CLHTLCSGCLEAS----GMQCPICQAPWPL 49
>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 26.8 bits (59), Expect = 3.2
Identities = 7/47 (14%), Positives = 19/47 (40%), Gaps = 4/47 (8%)
Query: 35 CFICIEKLRDTH---LCPHCSKLCCLACIRQFLTEERSQCPHCRASL 78
C C + + + C+ C+ ++ ++ ++CP C+
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWV-KQNNRCPLCQQDW 74
>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein
4, UIP4, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo
sapiens} SCOP: g.44.1.1
Length = 94
Score = 26.7 bits (59), Expect = 3.3
Identities = 8/54 (14%), Positives = 18/54 (33%), Gaps = 9/54 (16%)
Query: 30 AEVFRCFICIE--KLRDTHLCPHCSKLCCLACIRQFLTEERSQ-------CPHC 74
+ C +C+ + C + C C++Q++ + CP
Sbjct: 3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56
>3n71_A Histone lysine methyltransferase SMYD1; heart development,
transcription; HET: SFG MES; 2.30A {Mus musculus}
Length = 490
Score = 28.4 bits (62), Expect = 3.3
Identities = 14/88 (15%), Positives = 26/88 (29%), Gaps = 5/88 (5%)
Query: 34 RCFICIEKLRDTHLCPHCS--KLCCLACIRQFLTEERSQCPHCR---ASLHMTDLVNCRW 88
C C ++ H C C C C + +++C + + + R
Sbjct: 51 VCHTCFKRQEKLHRCGQCKFAHYCDRTCQKDAWLNHKNECAAIKKYGKVPNENIRLAARI 110
Query: 89 MEEVTQHLDNLQMNSKSSLQTYQRLFPN 116
M V + L S+ Q +
Sbjct: 111 MWRVEREGTGLTEGCLVSVDDLQNHVEH 138
>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 74
Score = 26.3 bits (58), Expect = 3.6
Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 5/48 (10%)
Query: 34 RCFICIEKLRD---THLCPHCSKLCCLACIRQFLTEERSQCPHCRASL 78
C +C+E + +CP C C+ ++L E R CP C +
Sbjct: 17 LCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWL-EVRKVCPLCNMPV 62
>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4),
metal binding protein; NMR {Homo sapiens} SCOP:
g.44.1.1
Length = 65
Score = 26.1 bits (57), Expect = 3.8
Identities = 7/28 (25%), Positives = 9/28 (32%)
Query: 51 CSKLCCLACIRQFLTEERSQCPHCRASL 78
C C +C+ CP C L
Sbjct: 26 CGHTLCESCVDLLFVRGAGNCPECGTPL 53
>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring
domain, structural GE consortium, SGC; 2.39A {Homo
sapiens} PDB: 2asq_B
Length = 360
Score = 28.0 bits (61), Expect = 4.3
Identities = 7/54 (12%), Positives = 13/54 (24%)
Query: 45 THLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWMEEVTQHLDN 98
C H ++ + CP C L+ E+ +
Sbjct: 231 AVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYESLILDGLFMEILNDCSD 284
>1wjv_A Cell growth regulating nucleolar protein LYAR; DNA-binding
protein, C2H2 type zinc-finger, structural genomics;
NMR {Mus musculus} SCOP: g.37.1.2 g.37.1.2
Length = 79
Score = 26.0 bits (57), Expect = 4.8
Identities = 11/42 (26%), Positives = 20/42 (47%), Gaps = 6/42 (14%)
Query: 32 VFRCFICIEKLR----DTHL--CPHCSKLCCLACIRQFLTEE 67
F C C E ++ + H+ C +C L C+ C + F ++
Sbjct: 10 FFTCNACGESVKKIQVEKHVSNCRNCECLSCIDCGKDFWGDD 51
>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 91
Score = 26.3 bits (58), Expect = 5.2
Identities = 8/30 (26%), Positives = 10/30 (33%)
Query: 33 FRCFICIEKLRDTHLCPHCSKLCCLACIRQ 62
FRC C KL ++ C Q
Sbjct: 43 FRCSYCNNKLSLGTYASLHGRIYCKPHFNQ 72
>1kmv_A DHFR, dihydrofolate reductase; oxidoreductase, antiparasitic drugs,
lipophilic antifolates; HET: LII NDP; 1.05A {Homo
sapiens} SCOP: c.71.1.1 PDB: 1dhf_A* 1hfr_A* 1drf_A*
1kms_A* 1ohj_A* 1ohk_A* 1pd8_A* 1pd9_A* 1pdb_A 1s3u_A*
1s3v_A* 1s3w_A* 1u72_A* 1yho_A* 2c2s_A* 2c2t_A* 2dhf_A*
3ghw_A* 3ntz_A* 3nu0_A* ...
Length = 186
Score = 27.2 bits (61), Expect = 5.5
Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 4/42 (9%)
Query: 160 KQAQTSPDAEILNVTHTDLK----SFFKKIPSEKWKLTWSYE 197
K+A P L VT +FF +I EK+KL Y
Sbjct: 122 KEAMNHPGHLKLFVTRIMQDFESDTFFPEIDLEKYKLLPEYP 163
>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 = 25.9 bits (57), Expect = 6.2
Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 9/49 (18%)
Query: 35 CFICIEKLRD----THL-CPHCSKLCCLACIRQFLTEERSQCPHCRASL 78
C +C E L C H L +CI +L E+ CP CR SL
Sbjct: 18 CPVCKEDYALGESVRQLPCNH---LFHDSCIVPWL-EQHDSCPVCRKSL 62
>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila
melanogaster}
Length = 381
Score = 27.5 bits (60), Expect = 6.8
Identities = 20/74 (27%), Positives = 24/74 (32%), Gaps = 19/74 (25%)
Query: 31 EVFRCFICIEKLRDTHLCP-------HCSKLCCLACI----------RQFLTEERSQCPH 73
E RC IC D P C C C+ + FL QCP
Sbjct: 307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPF 366
Query: 74 CRA--SLHMTDLVN 85
C+A S L+N
Sbjct: 367 CKAKLSTSFAALLN 380
>3lti_A DNA-directed RNA polymerase subunit beta; BBM2,
nucleotidyltransferase, transcription, transferase; HET:
MLY MSE; 1.60A {Escherichia coli} PDB: 3e7h_A
Length = 296
Score = 27.1 bits (61), Expect = 8.0
Identities = 18/167 (10%), Positives = 54/167 (32%), Gaps = 46/167 (27%)
Query: 169 EILN------VTHTDLKSFFKKIPSEKWK-LTWSYETCDNKLKNIKQDTKYWASSTRNIR 221
+IL+ + ++ E+ + T S++ N ++ + A R+IR
Sbjct: 72 QILDLFFEKVIFEIRDNKLQMELVPERLRGETASFDIEANGXVYVEXGRRITA---RHIR 128
Query: 222 K-EEVVLTRLRIGHSLLTHKFL----LDRQEPPMCNDCQVQITIKQFKHILCDCPLYQSF 276
+ E+ + + + + + +D + +++++ +
Sbjct: 129 QLEKDDVKLIEVPVEYIAGXVVAXDYIDESTGELICAANMELSLDLLAXL---------- 178
Query: 277 RRKNNLTELTLS-------------SLLRDDST-------QIYKVMR 303
++ + +L D + +IY++MR
Sbjct: 179 -SQSGHKRIETLFTNDLDHGPYISETLRVDPTNDRLSALVEIYRMMR 224
>3lpm_A Putative methyltransferase; structural genomics, protein structure
initiative, NEW YORK structural genomix research
consortium, nysgxrc; 2.40A {Listeria monocytogenes}
Length = 259
Score = 27.1 bits (60), Expect = 8.5
Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 4/56 (7%)
Query: 154 AVDLAAKQAQTSPDAEILNVTHTDLKSFFKKIPSEKWKLTWS----YETCDNKLKN 205
D+A + + + + + DLK IP E+ + + T D LKN
Sbjct: 84 LADMAKRSVAYNQLEDQIEIIEYDLKKITDLIPKERADIVTCNPPYFATPDTSLKN 139
>1tdh_A NEI endonuclease VIII-like 1; helix two turns helix, zinc-LESS
finger, hydrolase; 2.10A {Homo sapiens} SCOP: a.156.1.2
b.113.1.1 g.39.1.8
Length = 364
Score = 26.8 bits (59), Expect = 8.7
Identities = 3/24 (12%), Positives = 5/24 (20%), Gaps = 4/24 (16%)
Query: 34 RCFICIEKL----RDTHLCPHCSK 53
+ + T L P
Sbjct: 288 LAPKGRKSRKKKSKATQLSPEDRV 311
>1k3x_A Endonuclease VIII; hydrolase/DNA, hydrolase-DNA complex; HET: BRU
PED; 1.25A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1
g.39.1.8 PDB: 1k3w_A* 1q39_A 2ea0_A* 2oq4_A* 1q3c_A
2opf_A* 1q3b_A*
Length = 262
Score = 26.7 bits (60), Expect = 9.1
Identities = 9/24 (37%), Positives = 10/24 (41%), Gaps = 7/24 (29%)
Query: 35 CFIC---IEKL----RDTHLCPHC 51
C C IEK R + CP C
Sbjct: 237 CERCGSIIEKTTLSSRPFYWCPGC 260
>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics,
ring-finger, riken structural genomics/proteomics
initiative, RSGI; NMR {Arabidopsis thaliana} SCOP:
g.44.1.1
Length = 93
Score = 25.5 bits (55), Expect = 9.2
Identities = 12/48 (25%), Positives = 16/48 (33%), Gaps = 6/48 (12%)
Query: 35 CFICIEKLRDTH------LCPHCSKLCCLACIRQFLTEERSQCPHCRA 76
C IC +++ T C C C C E CP C+
Sbjct: 19 CEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKT 66
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug
design, transferase; 2.35A {Human immunodeficiency virus
2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Length = 555
Score = 27.0 bits (60), Expect = 9.2
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 123 VKNLLSELKLKYGLSIKLVWIPGHMNISGNCAVD 156
V ++ E+ K +I + W+P H I GN VD
Sbjct: 517 VNQIIEEMIKKE--AIYVAWVPAHKGIGGNQEVD 548
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
0.325 0.135 0.420
Gapped
Lambda K H
0.267 0.0436 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,467,337
Number of extensions: 242607
Number of successful extensions: 1061
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1003
Number of HSP's successfully gapped: 128
Length of query: 314
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 221
Effective length of database: 4,105,140
Effective search space: 907235940
Effective search space used: 907235940
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 57 (26.5 bits)