RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7279
(195 letters)
>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 75
Score = 76.6 bits (189), Expect = 4e-19
Identities = 20/64 (31%), Positives = 38/64 (59%), Gaps = 2/64 (3%)
Query: 60 QIPSIAFPADEAPA--AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCR 117
Q+PS F + + CV+C+ F+ + ++ L C+H+FH++C++ WL+ + CP+CR
Sbjct: 8 QLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67
Query: 118 NAVS 121
Sbjct: 68 ADSG 71
>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 = 74.7 bits (184), Expect = 2e-18
Identities = 20/54 (37%), Positives = 31/54 (57%)
Query: 68 ADEAPAAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVS 121
+E +C ICL+ + GE+V+ L C H FH C++ WL + CP+CR +
Sbjct: 9 TEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIE 62
>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 = 74.8 bits (184), Expect = 2e-18
Identities = 18/57 (31%), Positives = 33/57 (57%)
Query: 73 AAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVSVGSISSEN 129
+C +C + GE V++L C+H FH C+ PWL + CP+CR +++ + ++
Sbjct: 15 GLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNP 71
>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 74
Score = 74.4 bits (183), Expect = 3e-18
Identities = 22/57 (38%), Positives = 29/57 (50%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVSVGSISSENGS 131
C +CL F+P +E+ C H FH +CL WL R+ CPLC V + S S
Sbjct: 17 LCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSGPSS 73
>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural
genomics, PSI-2, protein struc initiative; NMR {Homo
sapiens}
Length = 91
Score = 74.3 bits (183), Expect = 5e-18
Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 61 IPSIAFPADEAPA---AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCR 117
+P I D C IC + + G+ EL CHH FH C+ WL++ CP+CR
Sbjct: 25 LPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84
>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR
{Oryza sativa} SCOP: g.44.1.1
Length = 55
Score = 72.2 bits (178), Expect = 1e-17
Identities = 23/51 (45%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 73 AAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRERQHCPLCRNAVSV 122
+C +CLA + GEE + L C H FH+EC++ WL CPLCR V V
Sbjct: 5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 55
>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 = 63.8 bits (156), Expect = 2e-14
Identities = 17/49 (34%), Positives = 19/49 (38%), Gaps = 1/49 (2%)
Query: 74 AQCVICLAPFQPGEE-VKELLCHHKFHSECLEPWLRERQHCPLCRNAVS 121
+ C ICL L C H H C E L+E CPLC S
Sbjct: 6 SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54
>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 70
Score = 62.0 bits (151), Expect = 1e-13
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVSVGSISSENGS 131
+C IC+ G L C H F +C++ W ++CP+CR ++ + SS S
Sbjct: 16 EECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANESSGPSS 69
>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid
herpesvirus 1} SCOP: g.44.1.1
Length = 68
Score = 61.3 bits (149), Expect = 2e-13
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 71 APAAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVS 121
A +C ICL L C H F C+ W+R+ CPLC+ V
Sbjct: 3 TVAERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51
>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 69
Score = 61.1 bits (148), Expect = 3e-13
Identities = 18/67 (26%), Positives = 26/67 (38%), Gaps = 4/67 (5%)
Query: 59 GQIPSIAFPADEAPAAQCVICLAPF----QPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
G S + C IC+ + Q G + C H F S+CL L+ CP
Sbjct: 1 GSSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP 60
Query: 115 LCRNAVS 121
CR ++
Sbjct: 61 TCRKKIN 67
>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 59.5 bits (144), Expect = 2e-12
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 76 CVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRERQHCPLCR 117
C+ C A + + V C+H FH+ C+ W+++ CPLC+
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>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 = 59.1 bits (143), Expect = 2e-12
Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 4/62 (6%)
Query: 68 ADEAPAAQCVICLAPF----QPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVSVG 123
+ C IC+ + Q G + C H F S+CL L+ CP CR ++
Sbjct: 5 LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 64
Query: 124 SI 125
Sbjct: 65 RY 66
>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding;
HET: SUC; 1.50A {Homo sapiens}
Length = 64
Score = 57.9 bits (140), Expect = 4e-12
Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 4/55 (7%)
Query: 75 QCVICLAPF----QPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVSVGSI 125
C IC+ + Q G + C H F S+CL L+ CP CR ++
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 59
>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 49.5 bits (118), Expect = 1e-08
Identities = 13/49 (26%), Positives = 16/49 (32%), Gaps = 3/49 (6%)
Query: 69 DEAPAAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCR 117
+E +C IC FQ C H F C R C +C
Sbjct: 11 EEEIPFRCFICRQAFQ---NPVVTKCRHYFCESCALEHFRATPRCYICD 56
>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 = 49.9 bits (119), Expect = 1e-08
Identities = 13/52 (25%), Positives = 21/52 (40%), Gaps = 3/52 (5%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCPLCRNAVSVGSI 125
+C IC+ + + C C+ WL E R CP CR + + +
Sbjct: 24 RCFICMEKLR--DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLREL 73
>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila
melanogaster}
Length = 381
Score = 52.9 bits (126), Expect = 1e-08
Identities = 21/88 (23%), Positives = 30/88 (34%), Gaps = 18/88 (20%)
Query: 51 APFSTRRFGQIPSIAFPADEAPAAQCVICLAPFQPGEEVKELL-----CHHKFHSECLEP 105
F + P + +E +C IC A G EV + C K H+ CLE
Sbjct: 288 CYFPMPDWSDGPKLDEEDNEE--LRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEE 345
Query: 106 WLRERQH-----------CPLCRNAVSV 122
W + CP C+ +S
Sbjct: 346 WFKTLMDGKTFLEVSFGQCPFCKAKLST 373
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 49.0 bits (117), Expect = 1e-08
Identities = 11/47 (23%), Positives = 13/47 (27%), Gaps = 2/47 (4%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVS 121
C IC + C H F C+ CP C V
Sbjct: 17 LCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH 61
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 48.7 bits (116), Expect = 2e-08
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 3/53 (5%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVSVGSISS 127
+C ICL L C H F C++ + C LCR + + S
Sbjct: 17 ECAICLQTCV---HPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPEDFLDS 66
>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 = 48.7 bits (115), Expect = 3e-08
Identities = 16/56 (28%), Positives = 21/56 (37%), Gaps = 1/56 (1%)
Query: 63 SIAFPADEAPAAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRERQHCPLCR 117
+I +C A E C+H FH C+ WL+ RQ CPL
Sbjct: 41 AICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96
>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 = 47.9 bits (113), Expect = 7e-08
Identities = 16/56 (28%), Positives = 21/56 (37%), Gaps = 1/56 (1%)
Query: 63 SIAFPADEAPAAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRERQHCPLCR 117
+I +C A E C+H FH C+ WL+ RQ CPL
Sbjct: 52 AICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107
>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 = 46.8 bits (111), Expect = 9e-08
Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 4/46 (8%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ--HCPLCRN 118
C IC + G+ + C + H C+ + + CP C +
Sbjct: 17 ICNICHSLLIQGQSCET--CGIRMHLPCVAKYFQSNAEPRCPHCND 60
>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 = 47.5 bits (113), Expect = 1e-07
Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCR 117
CV+C F + + C H F C+ +L ++CP+C
Sbjct: 17 MCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICD 57
>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase,
protein binding complex; 4.80A {Homo sapiens}
Length = 149
Score = 47.3 bits (112), Expect = 2e-07
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVS 121
QC+IC F E L C H F S C+ W++ + CP+CR +
Sbjct: 66 QCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 109
>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 = 45.3 bits (107), Expect = 7e-07
Identities = 16/53 (30%), Positives = 21/53 (39%), Gaps = 4/53 (7%)
Query: 66 FPADEAPAAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER-QHCPLCR 117
FPA + C IC + E C H F C+ L+ +CP CR
Sbjct: 16 FPAHFVKSISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCR 65
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3
ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Length = 238
Score = 46.3 bits (109), Expect = 1e-06
Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 4/46 (8%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH--CPLCRN 118
C IC + G+ + C + H C+ + + CP C +
Sbjct: 182 ICNICHSLLIQGQSCET--CGIRMHLPCVAKYFQSNAEPRCPHCND 225
>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 = 44.4 bits (104), Expect = 1e-06
Identities = 17/101 (16%), Positives = 27/101 (26%), Gaps = 26/101 (25%)
Query: 44 SELSPPRAPFSTRRFGQIPSIAFPADEAPAAQCVICLAPF---------------QPGEE 88
S S R++ + + +E C+IC+ P
Sbjct: 2 SSGSSGEPEQVIRKYTE--ELKVAPEE----DCIICMEKLAVASGYSDMTDSKALGPMVV 55
Query: 89 VKELLCHHKFHSECLEPWLRERQH-----CPLCRNAVSVGS 124
+ C H FH CL CP C+ +
Sbjct: 56 GRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT 96
>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 = 46.3 bits (109), Expect = 2e-06
Identities = 15/48 (31%), Positives = 19/48 (39%), Gaps = 4/48 (8%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER-QHCPLCRNAVS 121
C IC + +VK C H + CL W Q CP CR +
Sbjct: 334 LCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 378
>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding,
translesion synthesis, UB conjugation pathway; 1.80A
{Homo sapiens}
Length = 99
Score = 42.1 bits (99), Expect = 8e-06
Identities = 15/64 (23%), Positives = 24/64 (37%), Gaps = 2/64 (3%)
Query: 62 PSIAFPADEAPAAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVS 121
P +A +C IC F + C H + S C+ +L + CP C V+
Sbjct: 11 PGLAVMKTIDDLLRCGICFEYFN--IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVT 68
Query: 122 VGSI 125
+
Sbjct: 69 EPDL 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 = 41.2 bits (97), Expect = 1e-05
Identities = 16/57 (28%), Positives = 23/57 (40%), Gaps = 4/57 (7%)
Query: 75 QCVICLAPFQPGEEV-KELLCHHKFHSECLEPWLRERQ---HCPLCRNAVSVGSISS 127
+C IC+ F + K L C H +CLE L CP C + S++
Sbjct: 17 ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQ 73
>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex,
chimera; 2.21A {Rattus norvegicus}
Length = 133
Score = 41.7 bits (97), Expect = 2e-05
Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 4/58 (6%)
Query: 68 ADEAPAAQCVICLAPFQPGEEVKE----LLCHHKFHSECLEPWLRERQHCPLCRNAVS 121
A + C IC+ + + C H F S+CL L+ CP CR ++
Sbjct: 2 AMGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 59
Score = 40.9 bits (95), Expect = 3e-05
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 4/54 (7%)
Query: 72 PAAQCVICLAPF----QPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVS 121
C IC+ + Q G + C H F S+CL L+ CP CR ++
Sbjct: 71 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 124
>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 = 40.6 bits (95), Expect = 4e-05
Identities = 15/68 (22%), Positives = 26/68 (38%), Gaps = 4/68 (5%)
Query: 63 SIAFPADEAPAAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH-CPLCRNAVS 121
+ F +C ICL E + C H+F C+ +R+ H CP+ +
Sbjct: 8 DVEFDPPLESKYECPICLMAL---REAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL 64
Query: 122 VGSISSEN 129
+ +N
Sbjct: 65 ENQLFPDN 72
>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 = 40.3 bits (94), Expect = 5e-05
Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 4/48 (8%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH-CPLCRNAVS 121
QC+ C +C H +CL+ R + CP CR +
Sbjct: 54 QCICCQELVF---RPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLG 98
>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS),
leukemia, transcription regulation; NMR {Homo sapiens}
SCOP: g.44.1.1
Length = 56
Score = 38.1 bits (89), Expect = 8e-05
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 6/50 (12%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVSVGS 124
+C C A + K L C H S CLE CP+C+ +G+
Sbjct: 8 RCQQCQAEA---KCPKLLPCLHTLCSGCLE---ASGMQCPICQAPWPLGA 51
>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 = 38.7 bits (90), Expect = 2e-04
Identities = 20/67 (29%), Positives = 29/67 (43%), Gaps = 9/67 (13%)
Query: 63 SIAFPADEAPAA---QCVICLAPF-QPGEEVKELLCHHKFHSECLEPWLRERQH-CPLCR 117
S+A P D P+ QC IC+ +P L C+H C + + + CP CR
Sbjct: 2 SMALPKDAIPSLSECQCGICMEILVEP----VTLPCNHTLCKPCFQSTVEKASLCCPFCR 57
Query: 118 NAVSVGS 124
VS +
Sbjct: 58 RRVSSWT 64
>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 37.5 bits (87), Expect = 2e-04
Identities = 10/52 (19%), Positives = 18/52 (34%), Gaps = 4/52 (7%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH-CPLCRNAVSVGSI 125
+C C K+ C H+F C+ L C C+ ++ +
Sbjct: 17 KCEKCHLVL---CSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDKV 65
>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 = 38.5 bits (89), Expect = 3e-04
Identities = 14/65 (21%), Positives = 24/65 (36%), Gaps = 4/65 (6%)
Query: 66 FPADEAPAAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCPLCRNAVSVGS 124
F +C ICL E + C H+F C+ +R+ CP+ +
Sbjct: 11 FDPPLESKYECPICLMAL---REAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67
Query: 125 ISSEN 129
+ +N
Sbjct: 68 LFPDN 72
>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 = 39.6 bits (92), Expect = 4e-04
Identities = 37/228 (16%), Positives = 62/228 (27%), Gaps = 76/228 (33%)
Query: 25 RAPFSIRRFGRIPSIASTDSEL----SPPRAPFSTRRF-GQ-IPSIAFPADE-------- 70
+ + R + P ++S L A F GQ F +E
Sbjct: 124 KNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI-FGGQGNTDDYF--EELRDLYQTY 180
Query: 71 APAAQCVI-----CLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP----LCRNAVS 121
+I L+ E + + + WL + P L +S
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN---ILEWLENPSNTPDKDYLLSIPIS 237
Query: 122 VGSI-----------------SSENGSSWLSDTTG----------LSHTDSYFFLTAEEF 154
I + S+L TG ++ TDS E F
Sbjct: 238 CPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDS-----WESF 292
Query: 155 SDAEAFAEALV----------EAFPQV-FPEDPIDWNAENGDTV--SM 189
+ +A+ EA+P P ++ + EN + V M
Sbjct: 293 --FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM 338
Score = 39.3 bits (91), Expect = 6e-04
Identities = 34/184 (18%), Positives = 49/184 (26%), Gaps = 74/184 (40%)
Query: 23 PPRAPFSIRRFGRIPSIASTDSELSPPRAPFSTR------RFGQIPSIAFPADEAPAAQC 76
PP+ S+ A S L R PFS R RF +
Sbjct: 382 PPQ---SLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPV--------------- 423
Query: 77 VICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVSVGSISSENGSSW--- 133
+PF HS L P + + L +N VS N
Sbjct: 424 ---ASPF---------------HSHLLVP-ASDLINKDLVKNNVSF------NAKDIQIP 458
Query: 134 LSDT-TGLSHTDSYFFLTAEEFSDAEAFAEALVEA-FPQVFPEDPIDWNAENGDTVSMHS 191
+ DT G SD + ++ E + P+ W T +
Sbjct: 459 VYDTFDG---------------SDLRVLSGSISERIVDCII-RLPVKWET----TTQFKA 498
Query: 192 QHTV 195
H +
Sbjct: 499 THIL 502
Score = 35.0 bits (80), Expect = 0.014
Identities = 36/240 (15%), Positives = 67/240 (27%), Gaps = 99/240 (41%)
Query: 16 QEHSELRPPRAPFSIRRFGRIPSIASTDSELSPPRAPFST-----RRFGQI---PSIAFP 67
+S RP ++ S S + L P A F +F +I P+ F
Sbjct: 2 DAYS-TRP----LTL-------SHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFA 49
Query: 68 ADEAPAAQCVICLAPF--------QPGEE------VKELLCHHKFHSECL---------- 103
AD+ P + + F +P + + L F + L
Sbjct: 50 ADDEPTTPAEL-VGKFLGYVSSLVEPSKVGQFDQVLNLCLTE--FENCYLEGNDIHALAA 106
Query: 104 ------EPWLRERQHCPLCRN-----AVSVGSISSENGSSWL-SDTTGLSH--------- 142
+ L + + L +N ++ ++ S+ + G +
Sbjct: 107 KLLQENDTTLVKTKE--LIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQG 164
Query: 143 -TDSYFFLTAEE----FSDAEAFAEALVEA------------------FPQVFPEDPIDW 179
TD YF EE + L++ F Q + ++W
Sbjct: 165 NTDDYF----EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL--NILEW 218
Score = 28.5 bits (63), Expect = 1.8
Identities = 16/74 (21%), Positives = 28/74 (37%), Gaps = 22/74 (29%)
Query: 118 NAVSVGSISSENGS---SWLSDTTGLSHTDSYFFLTAEEFSDAEAFAEALVEAFPQVFPE 174
+A S ++ +GS L + T S+F A L E F ++ PE
Sbjct: 2 DAYSTRPLTLSHGSLEHVLL-----VP-TASFFI------------ASQLQEQFNKILPE 43
Query: 175 DPIDWNAENGDTVS 188
P + A + + +
Sbjct: 44 -PTEGFAADDEPTT 56
>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 = 36.3 bits (84), Expect = 7e-04
Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 4/45 (8%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH--CPLCR 117
C+IC + V C + + EC+ L E CP C
Sbjct: 17 LCLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCH 59
>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD
domain, histone-lysine N-methyltransferase, H3 lysine-4
specific MLL3; NMR {Homo sapiens}
Length = 111
Score = 36.9 bits (85), Expect = 8e-04
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 7/56 (12%)
Query: 76 CVICLAPFQPGEEVKELLCH---HKFHSECLEPWLRERQ----HCPLCRNAVSVGS 124
C +C Q GE+ K L+C +H+ CL+P ++ C CR +S S
Sbjct: 54 CKVCQNCKQSGEDSKMLVCDTCDKGYHTFCLQPVMKSVPTNGWKCKNCRICISGPS 109
Score = 29.6 bits (66), Expect = 0.29
Identities = 8/36 (22%), Positives = 15/36 (41%)
Query: 74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE 109
A C +C +P ++ C +H CL+ +
Sbjct: 8 ANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTP 43
>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 = 36.8 bits (85), Expect = 8e-04
Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 4/51 (7%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVSVGSI 125
+C C + E V C H F S C+ + CP+C + +
Sbjct: 24 RCSRCTNILR--EPVCLGGCEHIFCSNCVSDCIGTG--CPVCYTPAWIQDL 70
>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 = 36.9 bits (85), Expect = 0.001
Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 4/44 (9%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH-CPLCR 117
CV C + C H +CL+ + + CP CR
Sbjct: 80 MCVCCQELVY---QPVTTECFHNVCKDCLQRSFKAQVFSCPACR 120
>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional
control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B
Length = 78
Score = 34.7 bits (79), Expect = 0.002
Identities = 10/53 (18%), Positives = 17/53 (32%), Gaps = 2/53 (3%)
Query: 67 PADEAPAAQCVICLAPF-QPGEEVKELLCHHKFHSECLEPWLRERQ-HCPLCR 117
P + +C +C+ P C ++ C + CP CR
Sbjct: 5 PDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 57
>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 = 34.8 bits (80), Expect = 0.002
Identities = 7/33 (21%), Positives = 14/33 (42%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLR 108
C +CL + + C F + CL+ ++
Sbjct: 8 CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVE 40
>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 34.5 bits (79), Expect = 0.003
Identities = 13/55 (23%), Positives = 19/55 (34%), Gaps = 8/55 (14%)
Query: 70 EAPAAQCVICLAPFQPGEEVKELLCH-----HKFHSECLEPWLRERQ--HCPLCR 117
+ C IC + CH H H CL+ W++ C LC+
Sbjct: 12 PSSQDICRICHCEGDDESPLITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCK 65
>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 = 34.7 bits (79), Expect = 0.006
Identities = 11/44 (25%), Positives = 15/44 (34%), Gaps = 4/44 (9%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER-QHCPLCR 117
C C + C H++ S CL L Q+C C
Sbjct: 33 LCSACRNVL---RRPFQAQCGHRYCSFCLASILSSGPQNCAACV 73
>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 = 34.5 bits (78), Expect = 0.012
Identities = 12/54 (22%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH--CPL--CRNAVSVGSI 125
C I P++ + C+H F + ++ +L+ CP C VS+
Sbjct: 184 CPITCKPYE--APLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDF 235
>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace
motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3
Length = 60
Score = 32.0 bits (73), Expect = 0.013
Identities = 13/58 (22%), Positives = 17/58 (29%), Gaps = 14/58 (24%)
Query: 69 DEAPAAQCVICLAPFQPGEEVKELL--CH-----HKFHSECLEPWLRERQ--HCPLCR 117
++ C IC E E C H CL WL + C +C
Sbjct: 2 EDEDVPVCWICN-----EELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICG 54
>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 = 33.8 bits (77), Expect = 0.018
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 3/56 (5%)
Query: 67 PADEAPAAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR-ERQHCPLCRNAVS 121
P C ICL + KE C H+F ++C+ LR + CP CR +
Sbjct: 48 PRSLHSELMCPICLDMLKNTMTTKE--CLHRFCADCIITALRSGNKECPTCRKKLV 101
>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 = 34.4 bits (78), Expect = 0.019
Identities = 33/164 (20%), Positives = 52/164 (31%), Gaps = 57/164 (34%)
Query: 55 TRRFGQIPSIAFPADEAPAAQ-CVICLAPFQPG---EEVKELLCHHKFHSECLE------ 104
T RF Q+ D AA I L +EVK LL + L+
Sbjct: 271 TTRFKQV------TDFLSAATTTHISLDHHSMTLTPDEVKSLL------LKYLDCRPQDL 318
Query: 105 PWLRERQHC---PLCRNAVSVGSISSENGSSWLSDTTGLSHTDSYFFLTAEEFSDA-EAF 160
P R+ P +S+ I+ + D GL+ D++ + ++ + E+
Sbjct: 319 P----REVLTTNPR---RLSI--IAES-----IRD--GLATWDNWKHVNCDKLTTIIESS 362
Query: 161 AEALVEAFPQ-------VFPED---PID-----WNAENGDTVSM 189
L A + VFP P W V +
Sbjct: 363 LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV 406
Score = 34.1 bits (77), Expect = 0.029
Identities = 35/222 (15%), Positives = 56/222 (25%), Gaps = 78/222 (35%)
Query: 1 MGLFWFYSNKTSKVGQEHSELRPPRA----PFSIRRFGRI----PS-------------- 38
L + +L P P + +
Sbjct: 304 KSLL------LKYLDCRPQDL-PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLT 356
Query: 39 --IASTDSELSPP--RAPFSTRRFGQIPSIAFPADEA-PAAQCVICLAPFQPGEEVKELL 93
I S+ + L P R F R S+ FP P ++ L F + ++
Sbjct: 357 TIIESSLNVLEPAEYRKMF--DRL----SV-FPPSAHIPTI--LLSLIWFDVIKSDVMVV 407
Query: 94 CHHKFHSECL-EPW------------LRERQHCP----LCRNAVSVGSISSENGSSWLSD 136
+ K H L E L + L R+ V ++ SD
Sbjct: 408 VN-KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVD----HYNIPKTFDSD 462
Query: 137 TTGLSHTDSYFF------LTAEEFSDAEAFAEALVEAFPQVF 172
+ D YF+ L E + + F VF
Sbjct: 463 DLIPPYLDQYFYSHIGHHLKNIEHPE-------RMTLFRMVF 497
>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing,
mRNA splicing; NMR {Homo sapiens}
Length = 92
Score = 32.0 bits (73), Expect = 0.023
Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 4/45 (8%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH--CPLCR 117
C+IC + V C + + EC+ L E CP C
Sbjct: 15 LCLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCH 57
>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding
domain; 1.90A {Mus musculus}
Length = 101
Score = 32.5 bits (73), Expect = 0.023
Identities = 11/47 (23%), Positives = 19/47 (40%), Gaps = 3/47 (6%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER-QHCPLCRNAVS 121
C C P + + + C H F +C ++ + CP C + V
Sbjct: 4 CDKCGLPIKVYGRM--IPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ 48
>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP:
g.50.1.2
Length = 51
Score = 30.8 bits (70), Expect = 0.033
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 10/53 (18%)
Query: 74 AQCVICLAPFQPGEEVKELL---CHHKFHSECLEPWLRE----RQHCPLCRNA 119
A+C +C + GE+ K +L C+ FH CL P L E CP C+ A
Sbjct: 1 ARCKVC---RKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQPA 50
>2yt5_A Metal-response element-binding transcription factor 2;
zinc-regulated factor 1, ZIRF1, metal-response element
DNA-binding protein M96; NMR {Mus musculus}
Length = 66
Score = 30.2 bits (68), Expect = 0.067
Identities = 12/58 (20%), Positives = 18/58 (31%), Gaps = 13/58 (22%)
Query: 76 CVICLAPFQPGEEVKELL----CHHKFHSECLEPWLRERQ-------HCPLCRNAVSV 122
C IC + E E++ C +H C P + C C A +
Sbjct: 9 CTICQEEY--SEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATTT 64
>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 73
Score = 30.4 bits (69), Expect = 0.068
Identities = 15/53 (28%), Positives = 22/53 (41%), Gaps = 6/53 (11%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ---HCPLCRNAVSVGSI 125
C ICL Q + + C H F +C+ CPLC+ +V +I
Sbjct: 23 CPICLDILQ---KPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI 72
>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 = 31.2 bits (71), Expect = 0.072
Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 12/53 (22%)
Query: 75 QCVICLAPFQPGEEVKE---LLCHHKFHSECLEPWLRERQ---HCPLCRNAVS 121
+C ICL KE C H F C+ L +++ CPLC+N ++
Sbjct: 23 ECPICLELI------KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT 69
>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 = 29.4 bits (66), Expect = 0.13
Identities = 11/58 (18%), Positives = 17/58 (29%), Gaps = 12/58 (20%)
Query: 69 DEAPAAQCVICL-----APFQPGEEVKELLCHHKFH-SECLEPWLRERQHCPLCRNAV 120
CVIC G+ H C + + + CP+CR +
Sbjct: 4 PLNAIEPCVICQGRPKNGCIVHGK------TGHLMACFTCAKKLKKRNKPCPVCRQPI 55
>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 = 29.5 bits (66), Expect = 0.13
Identities = 9/46 (19%), Positives = 14/46 (30%), Gaps = 3/46 (6%)
Query: 75 QCVICLAPFQPGEEVKELL--CHHKFHSECLEPWLRERQH-CPLCR 117
C C +K ++ C H C++ CP C
Sbjct: 5 GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECG 50
>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger,
transferase-structural protein; 1.47A {Homo sapiens}
PDB: 2ln0_A
Length = 112
Score = 30.4 bits (68), Expect = 0.15
Identities = 14/51 (27%), Positives = 19/51 (37%), Gaps = 8/51 (15%)
Query: 76 CVICLAPFQPGEEVKELL----CHHKFHSECLEPWLRERQ----HCPLCRN 118
C C + G+ +L C FH EC +P L C +CR
Sbjct: 61 CKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP 111
Score = 28.1 bits (62), Expect = 0.99
Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 6/46 (13%)
Query: 72 PAAQCVICLAPFQPGEE--VKELL----CHHKFHSECLEPWLRERQ 111
P C CL + E +EL+ C + H CL+
Sbjct: 4 PIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTV 49
>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 = 28.9 bits (65), Expect = 0.18
Identities = 8/47 (17%), Positives = 17/47 (36%), Gaps = 2/47 (4%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCRNAVSV 122
C I + V F LE ++++ + P+ +S+
Sbjct: 6 CAISGKVPR--RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI 50
>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 = 28.6 bits (64), Expect = 0.24
Identities = 7/58 (12%), Positives = 16/58 (27%), Gaps = 12/58 (20%)
Query: 69 DEAPAAQCVICLAPFQPGEEVKELL-----CHHKFH-SECLEPWLRERQHCPLCRNAV 120
+ C +C + ++ H C + CP+C+ +
Sbjct: 3 CQNLLKPCSLCE------KRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEI 54
>2ecw_A Tripartite motif-containing protein 30; metal binding protein,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 85
Score = 28.9 bits (65), Expect = 0.27
Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 9/48 (18%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH------CPLCR 117
C ICL + E C+H F C+ ++ CP+CR
Sbjct: 22 CPICLELLK---EPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCR 66
>2e6s_A E3 ubiquitin-protein ligase UHRF2; PHD domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 77
Score = 29.0 bits (65), Expect = 0.28
Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 11/60 (18%)
Query: 67 PADEAPAAQCVICLAPFQPGEEVKELL---CHHKFHSECLEPWLR-----ERQHCPLCRN 118
P + + C +C E +LL C+ +H CL P L E +CP C+
Sbjct: 20 PEKKCHSCSCRVC---GGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSCKT 76
>3ask_A E3 ubiquitin-protein ligase UHRF1; histone reader modules,
epigenetic regulation, trimethylaion of lysine residue,
ligase-DNA binding protein; HET: M3L; 2.90A {Homo
sapiens}
Length = 226
Score = 29.3 bits (65), Expect = 0.56
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 11/51 (21%)
Query: 76 CVICLAPFQPGEEVKELL---CHHKFHSECLEPWLRE-----RQHCPLCRN 118
C +C + K+L+ C FH CL+P L +CP CRN
Sbjct: 177 CHLC---GGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 224
>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken
structural genomics/proteomics initiative, RSGI, gene
regulation; NMR {Mus musculus} SCOP: g.50.1.2
Length = 88
Score = 28.1 bits (62), Expect = 0.65
Identities = 11/56 (19%), Positives = 23/56 (41%), Gaps = 14/56 (25%)
Query: 76 CVICLAPFQPGEEVKELL----CHHKFHSECLEPWLRERQ--------HCPLCRNA 119
CV+C +L+ CH+ +H +C +P + +++ +C C
Sbjct: 19 CVVCRQMTVASGN--QLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQ 72
>4dwe_A Uncharacterized protein; hypothetical protein, structural genomics,
joint center for structural genomics, JCSG, protein
structure initiative; 2.01A {Bacteroides ovatus}
Length = 480
Score = 29.5 bits (65), Expect = 0.72
Identities = 22/90 (24%), Positives = 41/90 (45%), Gaps = 15/90 (16%)
Query: 80 LAPFQPGEEVKELLCHHKFHSECLEPWL-----------RERQHCPLCRNAVSVGSISSE 128
L PFQ ++++++ F+ L +E ++ R A+S+G+ +++
Sbjct: 262 LYPFQENGDIEQVVIERAFYDPPEGSGLTNPDMIKAAILKEMENPKEERAAISIGAHNTD 321
Query: 129 NGSS----WLSDTTGLSHTDSYFFLTAEEF 154
G WL+DT G DS +F EE+
Sbjct: 322 TGWVNFLEWLNDTYGRDGDDSMWFTNQEEY 351
>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 56
Score = 26.9 bits (60), Expect = 0.95
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 94 CHHKFHSECLEPWLRE----RQHCPLCRN 118
C +H +CL+P L+ CP C++
Sbjct: 27 CSRVYHLDCLDPPLKTIPKGMWICPRCQD 55
>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 = 1.0
Identities = 12/44 (27%), Positives = 19/44 (43%), Gaps = 6/44 (13%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH---CPLC 116
C +CL + E + C H F C+ W + + CP+C
Sbjct: 18 CSVCLEYLK---EPVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 92
Score = 27.6 bits (61), Expect = 1.2
Identities = 16/51 (31%), Positives = 19/51 (37%), Gaps = 7/51 (13%)
Query: 76 CVICLAPFQPGEEVKELL---CHHKFHSECLEPWLRE----RQHCPLCRNA 119
IC + E+ K L C +H CL P L E CP C A
Sbjct: 16 SYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILA 66
>3shb_A E3 ubiquitin-protein ligase UHRF1; unmodified histone, methylation,
UHRF1, PHD, ligase-NUCL protein complex; 1.80A {Homo
sapiens}
Length = 77
Score = 27.1 bits (60), Expect = 1.2
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 11/51 (21%)
Query: 76 CVICLAPFQPGEEVKELL---CHHKFHSECLEPWLRE-----RQHCPLCRN 118
C +C + K+L+ C FH CL+P L +CP CRN
Sbjct: 29 CHLC---GGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 76
>3asl_A E3 ubiquitin-protein ligase UHRF1; histone reader module,
epigenetic regulation, LI binding protein complex; 1.41A
{Homo sapiens} PDB: 3sou_A 3sow_A* 3sox_A 3zvy_A 2lgg_A
2lgk_A* 2lgl_A 3t6r_A 3zvz_B
Length = 70
Score = 26.7 bits (59), Expect = 1.3
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 11/51 (21%)
Query: 76 CVICLAPFQPGEEVKELL---CHHKFHSECLEPWLRE-----RQHCPLCRN 118
C +C + K+L+ C FH CL+P L +CP CRN
Sbjct: 21 CHLC---GGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 68
>2akz_A Gamma enolase, neural; fluoride inhibition, negative cooperativity,
glycolysis, , isothermal titration calorimetry, lyase;
1.36A {Homo sapiens} SCOP: c.1.11.1 d.54.1.1 PDB: 2akm_A
1te6_A 2psn_A 3b97_A 2xsx_A 1pdz_A 1pdy_A
Length = 439
Score = 28.2 bits (64), Expect = 1.8
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 6/49 (12%)
Query: 136 DTTGLSHTDSYFFLTAEEFSDAEAFAEALVEAFPQVFPEDPI---DWNA 181
D S TD ++T ++ + V +P V EDP DW A
Sbjct: 257 DLDFKSPTDPSRYITGDQLGA---LYQDFVRDYPVVSIEDPFDQDDWAA 302
>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC
complex, transcription; 1.43A {Homo sapiens}
Length = 60
Score = 26.2 bits (58), Expect = 1.9
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 94 CHHKFHSECLEPWLRE----RQHCPLCRN 118
C +H +CL+P L+ CP C++
Sbjct: 23 CSRVYHLDCLDPPLKTIPKGMWICPRCQD 51
>2gjh_A Designed protein; obligate symmetric HOMO-dimer, de novo protein;
NMR {}
Length = 62
Score = 26.2 bits (57), Expect = 2.1
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 4/45 (8%)
Query: 149 LTAEEFSDAEAFAEALVEAFPQVFPED-PIDWNAENGDTVSMHSQ 192
+TA +AE FA L++ F ++ D + W +GDTV++ Q
Sbjct: 8 ITARTKKEAEKFAAILIKVFAELGYNDINVTW---DGDTVTVEGQ 49
>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced,
nucleosome, E3 ligase, transcription; NMR {Homo sapiens}
PDB: 2ke1_A 2kft_A
Length = 66
Score = 25.9 bits (57), Expect = 2.3
Identities = 12/30 (40%), Positives = 12/30 (40%), Gaps = 4/30 (13%)
Query: 94 CHHKFHSECLEPWLRE----RQHCPLCRNA 119
C FH CL P LRE C C A
Sbjct: 26 CPRAFHLACLSPPLREIPSGTWRCSSCLQA 55
>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation,
nucleus, metal BIND protein; HET: ALY; NMR {Homo
sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*
Length = 114
Score = 26.9 bits (59), Expect = 2.3
Identities = 10/49 (20%), Positives = 17/49 (34%), Gaps = 7/49 (14%)
Query: 73 AAQCVICLAPFQPGEEV---KELL----CHHKFHSECLEPWLRERQHCP 114
+ C CL ++ +EL+ C H CL+ L +
Sbjct: 1 GSYCDFCLGGSNMNKKSGRPEELVSCADCGRSGHPTCLQFTLNMTEAVK 49
Score = 25.8 bits (56), Expect = 5.1
Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 4/45 (8%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ----HCPLC 116
C++C + + C +H CL P + E C LC
Sbjct: 61 CILCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLC 105
>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta,
PHD, protein binding, peptide binding metal binding
protein; NMR {Homo sapiens}
Length = 61
Score = 25.8 bits (57), Expect = 2.6
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 4/28 (14%)
Query: 94 CHHKFHSECLEPWLRE----RQHCPLCR 117
C +H CL+P + + + CP C
Sbjct: 29 CPRAYHMVCLDPDMEKAPEGKWSCPHCE 56
>2ecv_A Tripartite motif-containing protein 5; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 85
Score = 26.1 bits (58), Expect = 3.2
Identities = 14/51 (27%), Positives = 18/51 (35%), Gaps = 15/51 (29%)
Query: 76 CVICLAPFQPGEEVKE---LLCHHKFHSECLEPWLRERQ------HCPLCR 117
C ICL + L C H F CL ++ CP+CR
Sbjct: 22 CPICLELL------TQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCR 66
>3qtp_A Enolase 1; glycolysis, lyase; HET: 2PG; 1.90A {Entamoeba
histolytica}
Length = 441
Score = 27.5 bits (62), Expect = 3.5
Identities = 11/64 (17%), Positives = 15/64 (23%), Gaps = 11/64 (17%)
Query: 126 SSE-----NGSSWLSDTTGLSHTDSYFFLTAEEFSDAEAFAEALVEAFPQVFPEDPI--- 177
+SE L D + + +P EDP
Sbjct: 251 ASEFYNEETKKYDLGKKIPADKKDPSLVKDVDGLIA---EYVDYGKHYPIASIEDPFAED 307
Query: 178 DWNA 181
DW A
Sbjct: 308 DWAA 311
>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain,
-structure, transcription; NMR {Homo sapiens} SCOP:
g.50.1.2
Length = 88
Score = 26.1 bits (57), Expect = 3.6
Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 4/46 (8%)
Query: 94 CHHKFHSECLEPWLRE----RQHCPLCRNAVSVGSISSENGSSWLS 135
C FH +C P L++ C LC + + + L+
Sbjct: 43 CEFCFHLDCHLPALQDVPGEEWSCSLCHVLPDLKEEDVDLQACKLN 88
>2ptz_A Enolase; lyase, glycolysis,His-TAG; 1.65A {Trypanosoma brucei}
SCOP: c.1.11.1 d.54.1.1 PDB: 2ptx_A 2pty_A* 2ptw_A
2pu0_A 2pu1_A* 1oep_A
Length = 432
Score = 27.1 bits (61), Expect = 3.8
Identities = 9/36 (25%), Positives = 14/36 (38%), Gaps = 6/36 (16%)
Query: 149 LTAEEFSDAEAFAEALVEAFPQVFPEDPI---DWNA 181
+TAE+ + +P V EDP D+
Sbjct: 272 VTAEQLRE---TYCKWAHDYPIVSIEDPYDQDDFAG 304
>3otr_A Enolase; structural genomics, center for structural genomics of
infec diseases, csgid, alpha-beta barrel, TIM barrel;
2.75A {Toxoplasma gondii}
Length = 452
Score = 27.1 bits (61), Expect = 4.1
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 6/36 (16%)
Query: 149 LTAEEFSDAEAFAEALVEAFPQVFPEDPI---DWNA 181
LT E+ + E ++ +P + EDP D+ +
Sbjct: 281 LTGEKLKE---VYEGWLKKYPIISVEDPFDQDDFAS 313
>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 = 25.3 bits (56), Expect = 4.8
Identities = 13/52 (25%), Positives = 16/52 (30%), Gaps = 16/52 (30%)
Query: 76 CVICLAPFQPGEEVKE---LLCHHKFHSECLEPWLRERQ-------HCPLCR 117
C ICL E L C H C+ +E CP+C
Sbjct: 15 CPICLELL------TEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCG 60
>2pa6_A Enolase; glycolysis, lyase, magnesium, metal-binding, structural
GENO NPPSFA; 1.85A {Methanocaldococcus jannaschii}
Length = 427
Score = 26.7 bits (60), Expect = 5.2
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 6/34 (17%)
Query: 149 LTAEEFSDAEAFAEALVEAFPQVFPEDPI---DW 179
LT EE D + +ALV+ +P V EDP D+
Sbjct: 267 LTREELLD---YYKALVDEYPIVSIEDPFHEEDF 297
>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 = 26.6 bits (58), Expect = 5.5
Identities = 5/14 (35%), Positives = 6/14 (42%)
Query: 104 EPWLRERQHCPLCR 117
P L CP C+
Sbjct: 15 GPNLNIVLTCPECK 28
>3ryc_A Tubulin alpha chain; alpha-tubulin, beta-tubulin, GTPase,
microtubule, tubulin, cell cycle; HET: GTP GDP; 2.10A
{Ovis aries} PDB: 3ryf_A* 3ryh_A* 3ryi_A* 3hke_A*
3hkc_A* 3hkd_A* 3hkb_A* 3n2g_A* 3n2k_A* 1sa0_A* 1sa1_A*
3edl_F* 1ffx_A* 1ia0_A* 2hxf_A* 2hxh_A* 2p4n_A* 1jff_A*
2wbe_A* 3dco_A* ...
Length = 451
Score = 26.7 bits (59), Expect = 5.7
Identities = 9/34 (26%), Positives = 15/34 (44%)
Query: 152 EEFSDAEAFAEALVEAFPQVFPEDPIDWNAENGD 185
EFS+A AL + + +V + E G+
Sbjct: 416 GEFSEAREDMAALEKDYEEVGVDSVEGEGEEEGE 449
>3o2g_A Gamma-butyrobetaine dioxygenase; gamma-butyrobetaine hydroxylase,
2-OXOG dioxygenase 1, oxidoreductase, structural
genomics; HET: OGA NM2; 1.78A {Homo sapiens} PDB:
3ms5_A* 3n6w_A
Length = 388
Score = 26.7 bits (58), Expect = 6.5
Identities = 5/16 (31%), Positives = 7/16 (43%)
Query: 106 WLRERQHCPLCRNAVS 121
WLR+ C C +
Sbjct: 34 WLRDNCPCSDCYLDSA 49
>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural
protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A
Length = 142
Score = 25.9 bits (56), Expect = 6.5
Identities = 7/35 (20%), Positives = 14/35 (40%), Gaps = 11/35 (31%)
Query: 94 CHHKFHSECLEPWLRERQ-----------HCPLCR 117
CH+ F +C+ L ++ +C +C
Sbjct: 81 CHNAFCKKCILRNLGRKELSTIMDENNQWYCYICH 115
>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein;
NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A
Length = 61
Score = 24.7 bits (54), Expect = 6.5
Identities = 10/28 (35%), Positives = 11/28 (39%), Gaps = 4/28 (14%)
Query: 94 CHHKFHSECLEPWLRE----RQHCPLCR 117
C +H CL P L E CP C
Sbjct: 27 CPSSYHIHCLNPPLPEIPNGEWLCPRCT 54
>2khd_A Uncharacterized protein VC_A0919; alpha beta, structural genomics,
unknown function, PSI-2, protein structure initiative;
NMR {Vibrio cholerae o1 biovar el tor str}
Length = 108
Score = 25.4 bits (55), Expect = 6.6
Identities = 13/86 (15%), Positives = 25/86 (29%), Gaps = 12/86 (13%)
Query: 109 ERQHCPLCRNAVSVGSISSENGSSWLSDTTGLSHTDSYFFLTAEEFSDAEAFAEALVEAF 168
E + C C A +G I E D + L + + E +
Sbjct: 8 ENEVCEACGCAGEIGFIIRE------GDDV------AEVSLFGSDKAHLEGKLAEYISLA 55
Query: 169 PQVFPEDPIDWNAENGDTVSMHSQHT 194
QV+ + + +H++
Sbjct: 56 KQVYANVEYEVAPVADNATELHARFK 81
>1jq5_A Glycerol dehydrogenase; oxidoreductase, NAD, glycerol metabolism;
HET: NAD; 1.70A {Geobacillus stearothermophilus} SCOP:
e.22.1.2 PDB: 1jpu_A* 1jqa_A*
Length = 370
Score = 26.2 bits (58), Expect = 7.3
Identities = 6/13 (46%), Positives = 9/13 (69%)
Query: 36 IPSIASTDSELSP 48
+P+ ASTD+ S
Sbjct: 116 VPTAASTDAPTSA 128
>1kq3_A Glycerol dehydrogenase; structural genomics, joint center FO
structural genomics, JCSG, protein structure initiative,
PS oxidoreductase; 1.50A {Thermotoga maritima} SCOP:
e.22.1.2
Length = 376
Score = 26.2 bits (58), Expect = 7.6
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 36 IPSIASTDSELSP 48
+P+IASTD+ S
Sbjct: 124 VPTIASTDAPCSA 136
>1x6a_A LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc finger domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 81
Score = 24.7 bits (54), Expect = 8.7
Identities = 4/27 (14%), Positives = 10/27 (37%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSEC 102
C+ C + G+ + + +C
Sbjct: 44 CMSCKVIIEDGDAYALVQHATLYCGKC 70
>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 = 24.4 bits (53), Expect = 9.2
Identities = 17/66 (25%), Positives = 23/66 (34%), Gaps = 12/66 (18%)
Query: 59 GQIPSIAFPADEAPAAQCVICLAPFQPGEEVKELL--CHHKFH-SECLEPWLRERQHCPL 115
G S E + CV+C V +L C H C++ Q CP+
Sbjct: 1 GSSGSSGVEPSEENSKDCVVCQN-----GTVNWVLLPCRHTCLCDGCVK----YFQQCPM 51
Query: 116 CRNAVS 121
CR V
Sbjct: 52 CRQFVQ 57
>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 = 24.7 bits (54), Expect = 9.2
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 14/49 (28%)
Query: 76 CVICLAPFQPGEEVKELL---CHHKFH-SECLEPWLRERQHCPLCRNAV 120
C++C EE C H C + Q CP+CR+ V
Sbjct: 21 CMVCC------EEEINSTFCPCGHTVCCESCAA----QLQSCPVCRSRV 59
>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 = 25.7 bits (55), Expect = 9.3
Identities = 8/44 (18%), Positives = 11/44 (25%), Gaps = 23/44 (52%)
Query: 38 SIASTDSELSPPRAPFSTRRFGQIPSIAFPADEAPAAQCVICLA 81
++ + L A D APA LA
Sbjct: 21 ALKKLQASLKL-YAD----------------DSAPA------LA 41
>3uhj_A Probable glycerol dehydrogenase; structural genomics, PSI-biology,
NEW YORK structural genomi research consortium, nysgrc;
2.34A {Sinorhizobium meliloti}
Length = 387
Score = 25.9 bits (57), Expect = 9.8
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 36 IPSIASTDSELSP 48
P+IASTD+ S
Sbjct: 136 APTIASTDAPCSA 148
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 0.133 0.421
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: 3,047,072
Number of extensions: 173598
Number of successful extensions: 790
Number of sequences better than 10.0: 1
Number of HSP's gapped: 750
Number of HSP's successfully gapped: 119
Length of query: 195
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 106
Effective length of database: 4,216,824
Effective search space: 446983344
Effective search space used: 446983344
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: 55 (25.4 bits)