RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12906
(303 letters)
>2fzp_A NRDP1, ring finger protein 41 isoform 1; E3 ligase, protein
ubiquitination, structural genomics, STRU genomics
consortium, SGC, ligase; 1.87A {Homo sapiens} SCOP:
d.345.1.1 PDB: 2gwf_B 2ogb_A
Length = 144
Score = 203 bits (517), Expect = 3e-66
Identities = 82/124 (66%), Positives = 102/124 (82%)
Query: 180 ENMERDDVARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPGHILDQLMHNSH 239
+E +++ W NSL ARVTRWGGMISTPD +LQA+IKRSL ESGCP I+++L+ N+H
Sbjct: 19 STIEYNEILEWVNSLQPARVTRWGGMISTPDAVLQAVIKRSLVESGCPASIVNELIENAH 78
Query: 240 ERNWPQGLSSLETRQNNRRQYENYVCKRIPSKQAVVVLLCDNVHLPEDMISAPGLVMIFA 299
ER+WPQGL++LETRQ NRR YENYV KRIP KQAVVV+ C+N H+ +DM+ PGLVMIFA
Sbjct: 79 ERSWPQGLATLETRQMNRRYYENYVAKRIPGKQAVVVMACENQHMGDDMVQEPGLVMIFA 138
Query: 300 HGIE 303
HG+E
Sbjct: 139 HGVE 142
>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 = 49.9 bits (118), Expect = 6e-07
Identities = 50/335 (14%), Positives = 101/335 (30%), Gaps = 116/335 (34%)
Query: 11 GC--TVAVKLDSYSSHLTECEHNPKRPV------QCEQGCGSVIPMDELKYLSNQCEYHQ 62
G T LD S+ +C+ + + C P L+ L +Q
Sbjct: 160 GSGKTWVA-LDVCLSYKVQCKMD--FKIFWLNLKNCNS------PETVLEMLQKLL--YQ 208
Query: 63 HDSHGTDLELSFCTPYQSLHTANTAI------MGYE----IVRFIGEV-DEELICSICSG 111
D + T +H+ + YE ++ V + +
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL---NVQNAKAW-----N 260
Query: 112 VFEEPLQDHNCVKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLT----------VL 161
F + +C + ++ + +++ + + + + LT L
Sbjct: 261 AF-----NLSC----KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL 311
Query: 162 ----QELMRAMKVSNP-GVRVLAENMERDDVARWSN---------------SLS------ 195
Q+L R + +NP + ++AE++ RD +A W N SL+
Sbjct: 312 DCRPQDLPREVLTTNPRRLSIIAESI-RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE 370
Query: 196 -RAR------------------VTRWGGMIST-PDVMLQAMIKRSLAE-------SGCPG 228
R W +I + V++ + K SL E P
Sbjct: 371 YRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS 430
Query: 229 HILDQLMHNSHERNWPQGL-SSLETRQNNRRQYEN 262
L+ + +E L S+ N + +++
Sbjct: 431 IYLELKVKLENEYA----LHRSIVDHYNIPKTFDS 461
Score = 44.1 bits (103), Expect = 5e-05
Identities = 40/265 (15%), Positives = 86/265 (32%), Gaps = 77/265 (29%)
Query: 95 RFIGEVDEELICSICSG------VFEEPLQDHNCV-KELRSIVHKQQQKMVNMETEMSEQ 147
+++ ++L + + + E ++D + + + ++ E S
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII----ESSLN 364
Query: 148 RFQMTELKR---QLTVLQELMRAMKVSNPGVRVLAENMERDDVARWSNSLSRAR-VTRWG 203
+ E ++ +L+V + + + ++ ++ + DV N L + V +
Sbjct: 365 VLEPAEYRKMFDRLSVFPP---SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQP 421
Query: 204 --GMISTPDVMLQAMIK--------RSLAES----------GCPGHILDQ-----LMHNS 238
IS P + L+ +K RS+ + LDQ + H
Sbjct: 422 KESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH-- 479
Query: 239 H-------ER-----------------------NWPQGLSSLETRQNNRRQYENYVCKRI 268
H ER W S L T Q + Y+ Y+C
Sbjct: 480 HLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQ-LKFYKPYICDND 538
Query: 269 PSKQAVVVLLCDNVHLPE-DMISAP 292
P + +V + D + E ++I +
Sbjct: 539 PKYERLVNAILDFLPKIEENLICSK 563
Score = 42.5 bits (99), Expect = 1e-04
Identities = 22/184 (11%), Positives = 55/184 (29%), Gaps = 53/184 (28%)
Query: 139 NMETEMSEQRFQMTEL--------KRQLTV--LQELMRAMKVSNPGVRVLAENMERDDVA 188
+M+ E E ++Q ++ +Q++ ++ +L+ E D +
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKS---------ILS-KEEIDHII 55
Query: 189 RWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPGHILDQLMHNSHERNWPQGLS 248
+++S W +L ++ + + N+ +S
Sbjct: 56 MSKDAVSGTLRLFW--------TLLSK-----------QEEMVQKFVEEVLRINYKFLMS 96
Query: 249 SLETRQNNR-RQYENYVCKRIPSKQAVVVLLCDNVHLPEDMI----------SAPGLVMI 297
++T Q Y+ +R V NV + + A +++
Sbjct: 97 PIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI- 155
Query: 298 FAHG 301
G
Sbjct: 156 --DG 157
Score = 29.4 bits (65), Expect = 1.8
Identities = 24/155 (15%), Positives = 46/155 (29%), Gaps = 51/155 (32%)
Query: 18 LDSYSSHLTECEHNPKRPVQCEQGCGSVIPMDELKYLSNQCEYHQHDSHGTDLELSFCTP 77
+D Y+ T + P +D +Y + +H + + F
Sbjct: 450 VDHYNIPKTFDSDDLIPP-----------YLD--QYFYSHIGHHLKNIEHPERMTLFRMV 496
Query: 78 YQSLH----------TANTAIMG----------YE----------------IVRFIGEVD 101
+ TA A Y+ I+ F+ +++
Sbjct: 497 FLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIE 556
Query: 102 EELICSICSGVFEEPLQDHNCVKELRSIVHKQQQK 136
E LICS + + L + + + HKQ Q+
Sbjct: 557 ENLICSKYTDLLRIALMAED--EAIFEEAHKQVQR 589
>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 = 37.8 bits (87), Expect = 9e-04
Identities = 7/29 (24%), Positives = 13/29 (44%)
Query: 90 GYEIVRFIGEVDEELICSICSGVFEEPLQ 118
G+ +++ + +CS C V P Q
Sbjct: 18 GFSKTLLGTKLEAKYLCSACRNVLRRPFQ 46
>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 = 0.002
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 1/29 (3%)
Query: 90 GYEIVRFIGEVDEELICSICSGVFEEPLQ 118
GY+ V F ++ + C IC E +Q
Sbjct: 6 GYD-VEFDPPLESKYECPICLMALREAVQ 33
Score = 31.7 bits (72), Expect = 0.088
Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 5/40 (12%)
Query: 1 LVISCDNASYGCTVAVKLDSYSSHLTECEHNPKRPVQCEQ 40
L++ C N GC ++L H CE ++
Sbjct: 81 LMVKCPNE--GCLHKMELRHLEDHQAHCEF---ALLEHHH 115
>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 = 35.8 bits (82), Expect = 0.007
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 1/29 (3%)
Query: 90 GYEIVRFIGEVDEELICSICSGVFEEPLQ 118
GY+ V F ++ + C IC E +Q
Sbjct: 6 GYD-VEFDPPLESKYECPICLMALREAVQ 33
Score = 28.1 bits (62), Expect = 2.5
Identities = 14/63 (22%), Positives = 20/63 (31%), Gaps = 7/63 (11%)
Query: 1 LVISCDNASYGCTVAVKLDSYSSHLTECEHNPKRPVQCEQGCGSVIPMDELKY-LSNQCE 59
L++ C N GC ++L H CE C Q C + + C
Sbjct: 81 LMVKCPNE--GCLHKMELRHLEDHQAHCEFALM---DCPQ-CQRPFQKFHINIHILKDCP 134
Query: 60 YHQ 62
Q
Sbjct: 135 RRQ 137
>2a25_A Ubiquitin ligase SIAH1; protein-peptide complex, ligase; 2.20A
{Homo sapiens} PDB: 2an6_A 1k2f_A
Length = 193
Score = 35.1 bits (80), Expect = 0.013
Identities = 16/79 (20%), Positives = 24/79 (30%), Gaps = 13/79 (16%)
Query: 1 LVISCDNASYGCTVAVKLDSYSSHLTECEHNPKRPVQCE---QGCGSVIPMDELKYLSNQ 57
++ C AS GC + + + H CE RP C C +D +
Sbjct: 5 VLFPCKYASSGCEITLPHTEKADHEELCEF---RPYSCPCPGASCKWQGSLDAVM----- 56
Query: 58 CEYHQHDSHGTDLELSFCT 76
H H + L
Sbjct: 57 --PHLMHQHKSITTLQGED 73
>2eod_A TNF receptor-associated factor 4; zinc binding, NF-KB, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 66
Score = 32.2 bits (73), Expect = 0.022
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 5/49 (10%)
Query: 12 CTVAVKLDSYSSHLTECEHNPKRPVQCEQGCGSV-IPMDELKY-LSNQC 58
CT D+ SH +C P+ PV C CG + ++L L + C
Sbjct: 16 CTKEFVFDTIQSHQYQC---PRLPVACPNQCGVGTVAREDLPGHLKDSC 61
>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 32.1 bits (73), Expect = 0.024
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 96 FIGEVDEELICSICSGVFEEPLQ 118
F+ V+++ C C V P Q
Sbjct: 8 FVKTVEDKYKCEKCHLVLCSPKQ 30
>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 = 34.6 bits (79), Expect = 0.043
Identities = 43/286 (15%), Positives = 77/286 (26%), Gaps = 96/286 (33%)
Query: 1 LVISCDNASYGCTVAVKLDSYSSHLTEC----EHNPKRPVQCEQGCGSVIPMDEL----- 51
L +S + + V +S L E P + + EL
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPA---ELVGKFL 65
Query: 52 KYLSNQCEYHQHDSHGTDLELS---FCTPY---QSLHTANTAIMG--------------- 90
Y+S+ E + L L F Y +H ++
Sbjct: 66 GYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKN 125
Query: 91 -YEIVRFIGEVDEE-----LICSICSG------VF------EEPLQDHNCVKELRSIVHK 132
++ L ++ G +F ++ +ELR + ++
Sbjct: 126 YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD------YFEELRDL-YQ 178
Query: 133 QQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSNPGVRVLAENMERDDVARWSN 192
+V +K L EL+R + V + + ++ W
Sbjct: 179 TYHVLV--------GDL----IKFSAETLSELIRTTLDAEK---VFTQGL---NILEW-- 218
Query: 193 SLSRARVTRWGGMISTPDV--MLQAMIKRSLAESGCPGHILDQLMH 236
L +TPD +L I S CP + QL H
Sbjct: 219 -LENPS--------NTPDKDYLLSIPI--S-----CPLIGVIQLAH 248
Score = 33.1 bits (75), Expect = 0.15
Identities = 23/120 (19%), Positives = 37/120 (30%), Gaps = 37/120 (30%)
Query: 18 LDSYSSHLTECEHNPKRPVQCEQGCGSVIPMDELK------YLSNQCEYHQH------DS 65
L + L K P +Q S IP E K +L +H H D
Sbjct: 386 LYGLNLTL----RKAKAPSGLDQ---SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDL 438
Query: 66 HGTDL---ELSFCTPYQSL-----HTANTAIMGYEIVRFIGEVDEELICSICSGVFEEPL 117
DL +SF + + T + G ++ R + + I + P+
Sbjct: 439 INKDLVKNNVSF--NAKDIQIPVYDTFD----GSDL-R---VLSGSISERIVDCIIRLPV 488
Score = 30.8 bits (69), Expect = 0.68
Identities = 16/109 (14%), Positives = 41/109 (37%), Gaps = 19/109 (17%)
Query: 72 LSFCTPYQSLHTANTAIMGYEIVRFIGEVDEELICSICSGVFE---EPLQ--DHNC---- 122
+ P L +N ++ R +E + + V + ++ ++N
Sbjct: 1793 MQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQ 1852
Query: 123 -V--KELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168
V +LR++ + N+ + Q+ + EL++ L++ E +
Sbjct: 1853 YVAAGDLRAL-----DTVTNVLNFIKLQKIDIIELQKSLSL--EEVEGH 1894
>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 = 30.9 bits (70), Expect = 0.071
Identities = 6/24 (25%), Positives = 12/24 (50%)
Query: 99 EVDEELICSICSGVFEEPLQDHNC 122
+ +EL+C IC + + + C
Sbjct: 11 PIPDELLCLICKDIMTDAVVIPCC 34
>2yuc_A TNF receptor-associated factor 4; ZF-TRAF, cysteine-rich domain
associated with ring and TRAF domains protein 1,
malignant 62; NMR {Homo sapiens}
Length = 76
Score = 31.1 bits (70), Expect = 0.074
Identities = 8/39 (20%), Positives = 13/39 (33%), Gaps = 4/39 (10%)
Query: 23 SHLTECEHNPKRPVQCEQGCGSVIPMDELK-YLSNQCEY 60
HL C + C C + +L +L + C
Sbjct: 7 GHLNTCSF---NVIPCPNRCPMKLSRRDLPAHLQHDCPK 42
>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing,
mRNA splicing; NMR {Homo sapiens}
Length = 92
Score = 31.3 bits (71), Expect = 0.092
Identities = 5/19 (26%), Positives = 10/19 (52%)
Query: 98 GEVDEELICSICSGVFEEP 116
+ +EL+C IC + +
Sbjct: 8 DPIPDELLCLICKDIMTDA 26
>2xdq_B Light-independent protochlorophyllide reductase S; oxidoreductase,
DPOR, (bacterio)chlorophyll biosynthesis,
photosynthesis; 2.40A {Thermosynechococcus elongatus}
Length = 511
Score = 32.5 bits (74), Expect = 0.15
Identities = 7/50 (14%), Positives = 17/50 (34%), Gaps = 5/50 (10%)
Query: 70 LELSFCTPYQSLHTANTAIMGYE-IVRFIGEVDEELICSICSGVFEEPLQ 118
++ Q +GYE + + + + S G+ + L+
Sbjct: 394 GVIAAPIHIQDFPVGYRPFLGYEGTNQLV----DLIYNSFTLGMEDHLLE 439
>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 = 30.7 bits (69), Expect = 0.22
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 94 VRFIGEVDEELICSICSGVFEEPLQ 118
V F + + C IC + +P++
Sbjct: 14 VDFPAHFVKSISCQICEHILADPVE 38
>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 = 31.1 bits (69), Expect = 0.25
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 10/36 (27%)
Query: 271 KQAVVVL---LCDNVHLPEDMISAPGLVMIFAHGIE 303
KQA+ L L ++ + SAP L I A +E
Sbjct: 19 KQALKKLQASL--KLYADD---SAPALA-IKAT-ME 47
>3mem_A Putative signal transduction protein; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI-2; HET: MSE; 2.25A {Marinobacter
aquaeolei}
Length = 457
Score = 31.9 bits (72), Expect = 0.25
Identities = 21/163 (12%), Positives = 50/163 (30%), Gaps = 22/163 (13%)
Query: 92 EIVRFIGEVDEELICSICSGVFEEPLQDHNCVKELRSIVHKQQQKMVNMETEMSEQRFQM 151
E R + ++ + L +H ++ +H ++ + + ++
Sbjct: 127 EDFRQLTAKAARHDFAVDTANISVNLDNHAADRD---QLHSAIKRFTGLRIQ--QRLEDT 181
Query: 152 TELKRQLTVLQELMRAMKVSNPGVRVLAENMERD-----DVARWSNS-----------LS 195
EL Q ++ N + L + +E D V W++S +
Sbjct: 182 LELPPLPETAQRIIHLRVNPNAVMGDLVDVVESDPSLAAQVVSWASSSFYAAAGRVHSVH 241
Query: 196 RARVTRWGGMISTPDVMLQAMIKRSLAESGCPGHILDQLMHNS 238
A V+R G ++ + + R+L +
Sbjct: 242 DA-VSRVLGFDLVMNLAMGLALGRALKHPQDHPDGYVDYWQQA 283
>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding,
translesion synthesis, UB conjugation pathway; 1.80A
{Homo sapiens}
Length = 99
Score = 30.1 bits (68), Expect = 0.25
Identities = 7/24 (29%), Positives = 10/24 (41%)
Query: 99 EVDEELICSICSGVFEEPLQDHNC 122
+D+ L C IC F + C
Sbjct: 18 TIDDLLRCGICFEYFNIAMIIPQC 41
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 29.3 bits (66), Expect = 0.26
Identities = 7/26 (26%), Positives = 12/26 (46%)
Query: 97 IGEVDEELICSICSGVFEEPLQDHNC 122
+ E+ ++CSIC G + C
Sbjct: 9 LSELTPYILCSICKGYLIDATTITEC 34
>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 = 30.2 bits (68), Expect = 0.30
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 99 EVDEELICSICSGVFEEPLQDHNC 122
E++ L+C +C G F + C
Sbjct: 11 ELNPHLMCVLCGGYFIDATTIIEC 34
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 30.8 bits (69), Expect = 0.33
Identities = 7/29 (24%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 103 ELICSICSGVFEEPLQDHNCVKELRSIVH 131
+++C++C V + L D E R+ +
Sbjct: 42 DVVCALCGLVLSDKLVDTR--SEWRTFSN 68
>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 = 30.0 bits (67), Expect = 0.57
Identities = 5/25 (20%), Positives = 13/25 (52%)
Query: 92 EIVRFIGEVDEELICSICSGVFEEP 116
E F+ ++++ +C C + +P
Sbjct: 67 EGPNFLKKLEQSFMCVCCQELVYQP 91
>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 = 29.5 bits (66), Expect = 0.61
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 99 EVDEELICSICSGVFEEPLQDHNC 122
+++ L CS C+ + EP+ C
Sbjct: 18 RLEKLLRCSRCTNILREPVCLGGC 41
>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 = 29.6 bits (66), Expect = 0.74
Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 70 LELSFCTPYQSLHTANTAIMGYEIVRFIGEVDEELICSICSGVFEEP 116
ELS ++ A T G EIV + EL+C IC + +
Sbjct: 23 WELSLYELQRTPQEAIT--DGLEIVVSPRSLHSELMCPICLDMLKNT 67
>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 = 28.0 bits (63), Expect = 0.95
Identities = 7/15 (46%), Positives = 9/15 (60%)
Query: 102 EELICSICSGVFEEP 116
EE+ C IC + EP
Sbjct: 11 EEVTCPICLELLTEP 25
>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 63
Score = 27.3 bits (61), Expect = 1.1
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 102 EELICSICSGVFEEP 116
EE+IC IC + ++P
Sbjct: 19 EEVICPICLDILQKP 33
>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 73
Score = 27.7 bits (62), Expect = 1.1
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 102 EELICSICSGVFEEP 116
EE+IC IC + ++P
Sbjct: 19 EEVICPICLDILQKP 33
>2ecv_A Tripartite motif-containing protein 5; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 85
Score = 27.6 bits (62), Expect = 1.3
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 102 EELICSICSGVFEEP 116
EE+ C IC + +P
Sbjct: 18 EEVTCPICLELLTQP 32
>2zvr_A Uncharacterized protein TM_0416; hyperthermophIle, ketohexose
3-epimeras tagatose 3-epimerase, isomerase; 2.20A
{Thermotoga maritima}
Length = 290
Score = 29.3 bits (66), Expect = 1.3
Identities = 10/81 (12%), Positives = 21/81 (25%), Gaps = 8/81 (9%)
Query: 205 MISTPDVMLQAMIKRSLAESGCPGHILDQLMHNSHERNWPQGLSSLETRQNNRRQYENYV 264
+ P ++ +K E L + + GLS R++ V
Sbjct: 61 AVRDPSIVDWNEVKILSEELN-----LPICAIGTGQAYLADGLSLTHPNDEIRKKAIERV 115
Query: 265 CKRIPSKQAVVVLLCDNVHLP 285
K + + +
Sbjct: 116 VKHT---EVAGMFGALVIIGL 133
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 29.7 bits (67), Expect = 1.4
Identities = 4/39 (10%), Positives = 20/39 (51%)
Query: 131 HKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169
++++++ E+++ R ++ + + + ++E K
Sbjct: 980 KNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYK 1018
>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 = 28.4 bits (63), Expect = 1.5
Identities = 6/22 (27%), Positives = 10/22 (45%)
Query: 95 RFIGEVDEELICSICSGVFEEP 116
F+ +V+E C C + P
Sbjct: 44 LFLSKVEETFQCICCQELVFRP 65
>3efg_A Protein SLYX homolog; xanthomonas campestris PV. campestris,
coiled-coil, structur genomics, PSI-2, protein structure
initiative; 2.00A {Xanthomonas campestris PV}
Length = 78
Score = 27.4 bits (61), Expect = 1.6
Identities = 3/32 (9%), Positives = 11/32 (34%)
Query: 143 EMSEQRFQMTELKRQLTVLQELMRAMKVSNPG 174
+++ R + L E + ++ +
Sbjct: 36 ALADARLTGARNAELIRHLLEDLGKVRSTLFA 67
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition,
helix-coil dynamics, inhibitor design, complex
(polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP:
a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A*
1taq_A*
Length = 832
Score = 29.4 bits (67), Expect = 1.6
Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 6/36 (16%)
Query: 153 ELKRQLTVLQELMRAMKVSNPGVRVLA-ENMERDDV 187
+ RQL +++EL+ + G+ L E DDV
Sbjct: 91 DFPRQLALIKELVDLL-----GLARLEVPGYEADDV 121
>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 58
Score = 26.9 bits (60), Expect = 1.6
Identities = 6/15 (40%), Positives = 8/15 (53%)
Query: 102 EELICSICSGVFEEP 116
E CS+C +EP
Sbjct: 14 VEASCSVCLEYLKEP 28
>2ecw_A Tripartite motif-containing protein 30; metal binding protein,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 85
Score = 27.3 bits (61), Expect = 1.7
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 102 EELICSICSGVFEEP 116
EE+ C IC + +EP
Sbjct: 18 EEVTCPICLELLKEP 32
>2d9k_A FLN29 gene product; zinc finger, ZF-TRAF, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 75
Score = 26.9 bits (59), Expect = 2.0
Identities = 10/48 (20%), Positives = 16/48 (33%), Gaps = 4/48 (8%)
Query: 12 CTVAVKLDSYSSHLTECEHNPKRPVQCEQGCGSVIPMDELKYLSNQCE 59
C + + + H C R C CG + + +LK C
Sbjct: 23 CDLELSILKLKEHEDYC---GARTELC-GNCGRNVLVKDLKTHPEVCG 66
>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 = 5/18 (27%), Positives = 7/18 (38%)
Query: 99 EVDEELICSICSGVFEEP 116
E + L C C + P
Sbjct: 2 EEFQFLRCQQCQAEAKCP 19
>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 = 27.0 bits (60), Expect = 3.4
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 102 EELICSICSGVFEEP 116
+ L C IC + +EP
Sbjct: 20 KILECPICLELIKEP 34
>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 = 26.8 bits (59), Expect = 3.9
Identities = 6/15 (40%), Positives = 7/15 (46%)
Query: 102 EELICSICSGVFEEP 116
E C IC + EP
Sbjct: 14 SECQCGICMEILVEP 28
>1gk6_A Vimentin; intermediate filament, dimer, parallel coiled coil,
heptad repeat, leucine zipper, fusion protein; 1.9A
{Saccharomyces cerevisiae} SCOP: h.1.20.1
Length = 59
Score = 25.4 bits (56), Expect = 4.9
Identities = 3/32 (9%), Positives = 14/32 (43%), Gaps = 3/32 (9%)
Query: 134 QQKMVNMETEMSEQRFQMTELKRQLTVLQELM 165
+ K+ + ++ ++ R ++ +L+
Sbjct: 6 EDKVEELLSKNYHLENEVA---RLKKLVGDLL 34
>3i7a_A Putative metal-dependent phosphohydrolase; YP_926882.1, STRU
genomics, joint center for structural genomics, JCSG;
2.06A {Shewanella amazonensis SB2B}
Length = 281
Score = 27.4 bits (61), Expect = 5.3
Identities = 10/66 (15%), Positives = 25/66 (37%), Gaps = 16/66 (24%)
Query: 144 MSEQRFQMTELKRQL-----------TVLQELMRAMKVSNPGVRVLAENMERD-----DV 187
MS + + L ++L V + + + ++ +AE + +D +
Sbjct: 2 MSNEHQLLVGLLKKLKDDALILPTLPEVAMRVQEVVGRPDSSLKQVAEIIGQDAAISARI 61
Query: 188 ARWSNS 193
+ +NS
Sbjct: 62 IKVANS 67
>1u5t_A Appears to BE functionally related to SNF7; SNF8P; ESCRT,
endosomal, trafficking, protein complex, transport
protein; 3.60A {Saccharomyces cerevisiae} SCOP: a.4.5.54
a.4.5.54 PDB: 1w7p_A
Length = 233
Score = 27.6 bits (61), Expect = 5.4
Identities = 11/43 (25%), Positives = 19/43 (44%), Gaps = 2/43 (4%)
Query: 126 LRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168
L + + K ++ + E+ Q EL+ QL V QE +
Sbjct: 6 LAAFDELKDGKYNDVNKTILEK--QSVELRDQLMVFQERLVEF 46
>1x8y_A Lamin A/C; structural protein, intermediate filament protein; 2.20A
{Homo sapiens} SCOP: h.1.20.1 PDB: 3v5b_A 3v4w_A 3v4q_A
Length = 86
Score = 26.0 bits (58), Expect = 5.8
Identities = 11/32 (34%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 134 QQKMVNMETEMSEQRFQMTELKRQLTVLQELM 165
++ + E EM+E R +M +QL QEL+
Sbjct: 34 RRLLAEKEREMAEMRARMQ---QQLDEYQELL 62
>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 = 26.0 bits (57), Expect = 6.2
Identities = 5/24 (20%), Positives = 8/24 (33%)
Query: 99 EVDEELICSICSGVFEEPLQDHNC 122
+ E C IC + +C
Sbjct: 18 SIAEVFRCFICMEKLRDARLCPHC 41
>3gfz_A Klebsiella pneumoniae BLRP1; TIM-barrel, EAL domain, BLUF domain,
hydrolase, signaling PR; HET: C2E FMN; 2.05A {Klebsiella
pneumoniae subsp} PDB: 3gfy_A* 3gfx_A* 3gg0_A* 3gg1_A*
2kb2_A*
Length = 413
Score = 27.3 bits (61), Expect = 7.0
Identities = 20/85 (23%), Positives = 31/85 (36%), Gaps = 13/85 (15%)
Query: 211 VMLQAMIKRSLAESGCPGHILDQLMHNSHERNWPQGLSS------------LETRQNNRR 258
ML +I RS P LD L+H + +N P G++ LE +
Sbjct: 8 RMLTTLIYRSQVHPDRPPVDLDALVHRASSKNLPLGITGILLFNGLQFFQVLEGTEEALE 67
Query: 259 QYENYVCKRIPSKQAVVVLLCDNVH 283
+ + P + VV L+ D
Sbjct: 68 SLFSEIQSD-PRHRDVVELMRDYSA 91
>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA
complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F
2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A
Length = 62
Score = 25.0 bits (55), Expect = 7.0
Identities = 7/38 (18%), Positives = 21/38 (55%)
Query: 132 KQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169
++ +++ +E ++ + Q +EL +L+E + +K
Sbjct: 19 RKLERIARLEEKVKTLKAQNSELASTANMLREQVAQLK 56
>3nqo_A MARR-family transcriptional regulator; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI-2; HET: MSE PG4; 2.20A {Clostridium
difficile}
Length = 189
Score = 26.8 bits (59), Expect = 7.6
Identities = 10/65 (15%), Positives = 28/65 (43%), Gaps = 6/65 (9%)
Query: 126 LRSIVHKQQQKMVNMETEMSEQRFQ-----MTELKRQLTVLQELMRAMKVSNPGVRVLAE 180
L ++ +K Q + ++ +++ + + + T+ + R M S + L
Sbjct: 21 LFTLTNKIQIEGDKYFGILTSRQYMTILSILHLPEEETTL-NNIARKMGTSKQNINRLVA 79
Query: 181 NMERD 185
N+E++
Sbjct: 80 NLEKN 84
>1dh3_A Transcription factor CREB; protein-DNA complex, transcription/DNA
complex; HET: DNA; 3.00A {Mus musculus} SCOP: h.1.3.1
Length = 55
Score = 24.7 bits (54), Expect = 8.3
Identities = 7/34 (20%), Positives = 18/34 (52%)
Query: 132 KQQQKMVNMETEMSEQRFQMTELKRQLTVLQELM 165
K+++ + ++E ++ Q L +L L++L
Sbjct: 19 KKKEYVKSLENRVAVLENQNKTLIEELKALKDLY 52
>1lwu_C Fibrinogen gamma chain; heterotrimer, protein-peptide complex,
blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A
{Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB:
1n73_C*
Length = 323
Score = 27.1 bits (60), Expect = 8.8
Identities = 6/38 (15%), Positives = 13/38 (34%)
Query: 132 KQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169
Q+ + + E+ Q+ L E+ R +
Sbjct: 2 SGQKTVQKILEEVRILEQIGVSHDAQIQELSEMWRVNQ 39
>3itf_A Periplasmic adaptor protein CPXP; CPXR, CPXA, cpxrap, CPX-pathway,
envelope stress, transduction; HET: MSE; 1.45A
{Escherichia coli str} PDB: 3qzc_A
Length = 145
Score = 26.1 bits (57), Expect = 9.2
Identities = 17/68 (25%), Positives = 27/68 (39%), Gaps = 7/68 (10%)
Query: 133 QQQKMVN-METEMSEQRFQMTELKRQLTVLQELMRAMKVSNPGVRVLAENMERDDVARWS 191
Q+Q+M + M+ EQ + L+ A VR AE M + +AR
Sbjct: 50 QRQQMRDLMQQARHEQPPVNVSELETM---HRLVTAENFDENAVRAQAEKMANEQIAR-- 104
Query: 192 NSLSRARV 199
+ A+V
Sbjct: 105 -QVEMAKV 111
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 0.132 0.399
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: 4,580,204
Number of extensions: 265984
Number of successful extensions: 703
Number of sequences better than 10.0: 1
Number of HSP's gapped: 694
Number of HSP's successfully gapped: 68
Length of query: 303
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 210
Effective length of database: 4,105,140
Effective search space: 862079400
Effective search space used: 862079400
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.2 bits)