RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7971
(276 letters)
>2dk3_A E3 ubiquitin-protein ligase hectd1; MIB-HERC2 domain, HECT domain
containing protein 1, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: b.34.19.1
Length = 86
Score = 106 bits (265), Expect = 2e-29
Identities = 28/85 (32%), Positives = 39/85 (45%), Gaps = 6/85 (7%)
Query: 142 PRRKSKKISVRGIFPGARVVRGVDWQWEDQDGGNGRRGKVNEVQDWSAASPRSAAYIVWD 201
+ ++ + PGARV+RG+DW+W DQDG G V + + WD
Sbjct: 4 GSSGVRSQVLKYMVPGARVIRGLDWKWRDQDGSPQGEGTV------TGELHNGWIDVTWD 57
Query: 202 NGAKNLYRVGFEGMADLKVLNDAKA 226
G N YR+G EG DLK+
Sbjct: 58 AGGSNSYRMGAEGKFDLKLAPGYSG 82
Score = 84.6 bits (209), Expect = 2e-21
Identities = 30/78 (38%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 5 SGTRANRFAMEGVGARVIRGPDWKWGKQDGGDGHVGTVRNFESPEEVVVVWDNGTAANYR 64
SG R+ GARVIRG DWKW QDG GTV + V WD G + +YR
Sbjct: 6 SGVRSQVLKYMVPGARVIRGLDWKWRDQDGSPQGEGTVTGELHNGWIDVTWDAGGSNSYR 65
Query: 65 --CAGAFDLRILDSAPTG 80
G FDL++
Sbjct: 66 MGAEGKFDLKLAPGYSGP 83
>3dkm_A E3 ubiquitin-protein ligase hectd1; UBL conjugation, UBL
conjugation pathway, structural genomics consortium,
SGC;, ANK repeat, NPPSFA; 1.60A {Homo sapiens}
Length = 89
Score = 105 bits (264), Expect = 3e-29
Identities = 29/86 (33%), Positives = 38/86 (44%), Gaps = 6/86 (6%)
Query: 135 SERVLLEPRRKSKKISVRGIFPGARVVRGVDWQWEDQDGGNGRRGKVNEVQDWSAASPRS 194
R ++ + PGARV RG+DW+W DQDG G V +
Sbjct: 3 HHHHHSSGRENLYFQGLKYMVPGARVTRGLDWKWRDQDGSPQGEGTV------TGELHNG 56
Query: 195 AAYIVWDNGAKNLYRVGFEGMADLKV 220
+ WD G N YR+G EG DLK+
Sbjct: 57 WIDVTWDAGGSNSYRMGAEGKFDLKL 82
Score = 82.3 bits (203), Expect = 2e-20
Identities = 26/64 (40%), Positives = 31/64 (48%), Gaps = 2/64 (3%)
Query: 17 VGARVIRGPDWKWGKQDGGDGHVGTVRNFESPEEVVVVWDNGTAANYR--CAGAFDLRIL 74
GARV RG DWKW QDG GTV + V WD G + +YR G FDL++
Sbjct: 24 PGARVTRGLDWKWRDQDGSPQGEGTVTGELHNGWIDVTWDAGGSNSYRMGAEGKFDLKLA 83
Query: 75 DSAP 78
Sbjct: 84 PGYD 87
>2dip_A Zinc finger SWIM domain-containing protein 2; ZZ domain, structural
genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.44.1.6
Length = 98
Score = 103 bits (257), Expect = 3e-28
Identities = 29/96 (30%), Positives = 37/96 (38%), Gaps = 10/96 (10%)
Query: 67 GAFDLRILDSAPTGV---------KHDGTMCDFCKQQPIYGIRWKCAECSNYDLCSICYH 117
G+ L ++ V KH G C+ CKQ PI G +KC EC Y LC C+
Sbjct: 4 GSSGLEEFKNSSKLVAAAEKERLDKHLGIPCNNCKQFPIEGKCYKCTECIEYHLCQECFD 63
Query: 118 AEKHNLRHRFYRINFPGSERVLLEPRRKSKKISVRG 153
+ H L H F + LE R G
Sbjct: 64 SYCH-LSHTFTFREKRNQKWRSLEKRADEVSGPSSG 98
>2fc7_A ZZZ3 protein; structure genomics, ZZ domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.44.1.6
Length = 82
Score = 82.0 bits (202), Expect = 3e-20
Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 8/79 (10%)
Query: 66 AGAFDLRILDSAPTGVKHDGTMCDFCKQQPIYGIRWKCAEC---SNYDLCSICY----HA 118
+G+ ++ + V+H G CD C +PI G+RW C +C + D C C
Sbjct: 3 SGSSGQQMQAESG-FVQHVGFKCDNCGIEPIQGVRWHCQDCPPEMSLDFCDSCSDCLHET 61
Query: 119 EKHNLRHRFYRINFPGSER 137
+ H H+ I
Sbjct: 62 DIHKEDHQLEPIYRSSGPS 80
>2e5r_A Dystrobrevin alpha; ZZ domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 63
Score = 76.8 bits (189), Expect = 1e-18
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 5/59 (8%)
Query: 76 SAPTGVKHDGTMCDFCKQQPIYGIRWKCAECSNYDLCSICY----HAEKHNLRHRFYRI 130
S +GV H C +C + + G R++C +C NY LC C+ H+ +H+
Sbjct: 3 SGSSGVFH-PVECSYCHSESMMGFRYRCQQCHNYQLCQDCFWRGHAGGSHSNQHQMKEY 60
>1tot_A CREB-binding protein; zinc binding, CBP, TAZ2, transferase; NMR
{Mus musculus} SCOP: g.44.1.6
Length = 52
Score = 64.0 bits (156), Expect = 6e-14
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 88 CDFCKQQPIYGIRWKCAECSNYDLCSICYHAEKHNLRHRFYRINFP 133
C+ CK RW C C +YDLC CY+ + H H+ +
Sbjct: 9 CNECK--HHVETRWHCTVCEDYDLCINCYNTKSH--THKMVKWGLG 50
>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 = 38.5 bits (89), Expect = 0.002
Identities = 38/214 (17%), Positives = 57/214 (26%), Gaps = 63/214 (29%)
Query: 21 VIRGPDWKWGKQDGGDGHVGTVRNFESPEE--VVVVWDNGTAANYRCAG-AFDLRILDSA 77
I Q+ +V N P V + NG A N +G L L+
Sbjct: 340 SISNLT-----QEQVQDYVNKT-NSHLPAGKQVEISLVNG-AKNLVVSGPPQSLYGLNLT 392
Query: 78 PTGVKHDGTMCDFCKQQPIYGIRWKCAECSNYDLCSICYHAEKHNLRHRFYRINFP-GSE 136
+R A S D I + K +RF + P S
Sbjct: 393 ---------------------LRKAKAP-SGLDQSRIPFSERKLKFSNRFLPVASPFHSH 430
Query: 137 RVLLEPRRKSKKISVRGIFPGARVVRGVDWQWED--------QDGGNGRRGKVNEVQ--- 185
LL P + V V + +D DG + R + +
Sbjct: 431 --LLVP--------ASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIV 480
Query: 186 --------DWSAASPRSAAYIVWDNGAKNLYRVG 211
W + A +I+ D G +G
Sbjct: 481 DCIIRLPVKWETTTQFKATHIL-DFGPGGASGLG 513
Score = 33.5 bits (76), Expect = 0.075
Identities = 23/97 (23%), Positives = 32/97 (32%), Gaps = 29/97 (29%)
Query: 22 IRG-------PDWKWGKQDGG-----DGHVGTVRNFESPEEVVVVWDNGT-----AANYR 64
RG P + G+ + G G V + E+ + VV T NY
Sbjct: 1788 YRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYN 1847
Query: 65 CAG-----AFDLRILDSAPTGVKHDGTMCDFCKQQPI 96
A DLR LD+ + +F K Q I
Sbjct: 1848 VENQQYVAAGDLRALDTV-------TNVLNFIKLQKI 1877
Score = 31.6 bits (71), Expect = 0.31
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 14/41 (34%)
Query: 3 GSSG----TRANRFAMEGVGARVI------RGPDWKWG-KQ 32
G+SG T N+ +G G RVI PD +G KQ
Sbjct: 508 GASGLGVLTHRNK---DGTGVRVIVAGTLDINPDDDYGFKQ 545
>2yqq_A Zinc finger HIT domain-containing protein 3; structure genomics,
ZF-HIT domain, TRIP-3, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 56
Score = 30.0 bits (67), Expect = 0.10
Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 6/48 (12%)
Query: 76 SAPTGVKHDGTMCDFCKQQPIYGIRWKCAECSNYDLCSI-CYHAEKHN 122
S +G+K +C C ++P Y +C C CS+ C+ K
Sbjct: 3 SGSSGLKCSTVVCVICLEKPKY----RCPACRVP-YCSVVCFRKHKEQ 45
>2bvb_A Micronemal protein 1; microneme, invasion, adhesion; NMR
{Toxoplasma gondii} PDB: 2k2s_A
Length = 137
Score = 30.5 bits (68), Expect = 0.24
Identities = 16/44 (36%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 174 GNGRRGKVNEVQDWS--AASPRSAAYIVWDNGAKNLYRVGFEGM 215
G G +G++ V D++ A+ SAAY+V D+G + V F+G+
Sbjct: 74 GLGHKGRLAVVLDYTRLNAALGSAAYVVEDSGCSSSEEVSFQGV 117
>3nis_A E3 ubiquitin-protein ligase UBR1; E3 ubiquitin ligase, UBR BOX,
zinc-binding protein, N-END RU ligase, metal binding
protein; 1.68A {Saccharomyces cerevisiae} PDB: 3nii_A
3nij_A 3nih_A 3nik_A 3nim_A 3nin_A 3nil_A 3nit_A
Length = 82
Score = 29.2 bits (65), Expect = 0.29
Identities = 17/60 (28%), Positives = 23/60 (38%), Gaps = 10/60 (16%)
Query: 82 KHDGTMCD--FCKQQPIYGIRWKCAECSNYD---LCSICYHAEKH-NLRHRFYRINFPGS 135
KH G C F +P+Y +C EC D LC C++ + H N S
Sbjct: 5 KHTGRNCGRKFKIGEPLY----RCHECGCDDTCVLCIHCFNPKDHVNHHVCTDICTEFTS 60
>1wg2_A Zinc finger (AN1-like) family protein; riken structural
genomics/proteomics initiative, RSGI, structural
genomics, DNA binding protein; NMR {Arabidopsis
thaliana} SCOP: g.80.1.1
Length = 64
Score = 28.6 bits (64), Expect = 0.33
Identities = 11/49 (22%), Positives = 17/49 (34%), Gaps = 5/49 (10%)
Query: 75 DSAPTGVKHDGTMCDFCKQQ-PIYGIRWKCAECSNYDLCSICYHAEKHN 122
S P+ C C ++ + G + KC C + EKH
Sbjct: 5 SSGPSRPVRPNNRCFSCNKKVGVMGFKCKC----GSTFCGSHRYPEKHE 49
>1wfh_A Zinc finger (AN1-like) family protein; ZF-AN1 domain, zinc binding,
structural genomics, riken structural
genomics/proteomics initiative; NMR {Arabidopsis
thaliana} SCOP: g.80.1.1
Length = 64
Score = 27.9 bits (62), Expect = 0.80
Identities = 7/36 (19%), Positives = 13/36 (36%), Gaps = 5/36 (13%)
Query: 88 CDFCKQQ-PIYGIRWKCAECSNYDLCSICYHAEKHN 122
C C+++ + G +C C + E H
Sbjct: 18 CTVCRKRVGLTGFMCRC----GTTFCGSHRYPEVHG 49
>3ny3_A E3 ubiquitin-protein ligase UBR2; zinc finger-like, ubiquitin
ligase, protein binding, lygase,; 1.60A {Homo sapiens}
PDB: 3ny2_A 3ny1_A
Length = 75
Score = 28.0 bits (62), Expect = 0.95
Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 10/52 (19%)
Query: 85 GTMC--DFCKQQPIYGIRWKCAECSNYD---LCSICYHAEKHNLRHRFYRIN 131
G++C F +P Y C +C+ LC C+ H HR+
Sbjct: 4 GSLCGRVFKVGEPTY----SCRDCAVDPTCVLCMECFLGSIHR-DHRYRMTT 50
>1wfl_A Zinc finger protein 216; ZF-AN1 domain, zinc binding, structural
genomics, riken structural genomics/proteomics
initiative, RSGI; NMR {Mus musculus} SCOP: g.80.1.1
Length = 74
Score = 27.6 bits (61), Expect = 1.2
Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 5/49 (10%)
Query: 75 DSAPTGVKHDGTMCDFC-KQQPIYGIRWKCAECSNYDLCSICYHAEKHN 122
+ AP K C C K+ + G +C C + +++KHN
Sbjct: 15 EKAPELPKPKKNRCFMCRKKVGLTGFDCRC----GNLFCGLHRYSDKHN 59
>1wff_A Riken cDNA 2810002D23 protein; ZF-AN1 domain, zinc binding,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: g.80.1.1
Length = 85
Score = 27.2 bits (60), Expect = 1.7
Identities = 10/48 (20%), Positives = 17/48 (35%), Gaps = 2/48 (4%)
Query: 75 DSAPTGVKHDGTMCDFCKQQPIYGIRWKCAECSNYDLCSICYHAEKHN 122
+ K C C ++ ++C C N C+ +AE H
Sbjct: 15 KAPLQTKKKIMKHCFLCGKKTGLATSFEC-RCGNN-FCASHRYAEAHG 60
>1rfh_A RAS association (ralgds/AF-6) domain family 5; zinc, signal
transduction, apoptosis, cysteine rich domain, metal
binding protein; NMR {Mus musculus}
Length = 59
Score = 26.8 bits (59), Expect = 1.7
Identities = 6/30 (20%), Positives = 12/30 (40%), Gaps = 1/30 (3%)
Query: 78 PTGVKHDGTMCDFCKQQPIYGIRWKCAECS 107
++ CD C ++ + +CA C
Sbjct: 15 ELALRGGPGWCDLCGRE-VLRQALRCANCK 43
>2fnf_X Putative RAS effector NORE1; zinc, signal transduction, apoptosis,
cysteine rich domain; NMR {Mus musculus}
Length = 72
Score = 26.8 bits (59), Expect = 1.9
Identities = 6/30 (20%), Positives = 12/30 (40%), Gaps = 1/30 (3%)
Query: 78 PTGVKHDGTMCDFCKQQPIYGIRWKCAECS 107
++ CD C ++ + +CA C
Sbjct: 28 ELALRGGPGWCDLCGRE-VLRQALRCANCK 56
>1wfp_A Zinc finger (AN1-like) family protein; ZF-AN1 domain, zinc binding,
structural genomics, riken structural
genomics/proteomics initiative; NMR {Arabidopsis
thaliana} SCOP: g.80.1.1
Length = 74
Score = 26.8 bits (59), Expect = 2.0
Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 5/49 (10%)
Query: 75 DSAPTGVKHDGTMCDFC-KQQPIYGIRWKCAECSNYDLCSICYHAEKHN 122
+ K T C C K+ + G + +C C + E H
Sbjct: 15 AAPLDPPKSTATRCLSCNKKVGVTGFKCRC----GSTFCGTHRYPESHE 59
>1nz8_A Transcription antitermination protein NUSG; transcription
elongation, riken structural genomics/proteomics
initiative, RSGI; NMR {Thermus thermophilus} SCOP:
d.58.42.1
Length = 119
Score = 27.6 bits (62), Expect = 2.3
Identities = 8/40 (20%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 118 AEKHNLRHRFYRINFPGSERVLLEPRRKSKKISVRGIFPG 157
+ L+ + +++ P +E V+ K++ + +FPG
Sbjct: 25 IKAFGLQDKIFQVLIP-TEEVVELREGGKKEVVRKKLFPG 63
>2jvv_A Transcription antitermination protein NUSG; transcription factor,
transcription regulation, transcription termination; NMR
{Escherichia coli} PDB: 2k06_A 2kvq_G
Length = 181
Score = 27.5 bits (62), Expect = 3.5
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 118 AEKHNLRHRFYRINFPGSERVLLEPRRKSKKISVRGIFPG 157
+ HN+ F + P +E V+ E R ++ S R FPG
Sbjct: 30 IKLHNMEDLFGEVMVP-TEEVV-EIRGGQRRKSERKFFPG 67
>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90,
transferase-transferase inhibitor; HET: SFG; 1.80A {Mus
musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A*
3tg4_A* 3tg5_A* 3rib_A*
Length = 433
Score = 27.9 bits (61), Expect = 3.7
Identities = 8/53 (15%), Positives = 16/53 (30%), Gaps = 3/53 (5%)
Query: 81 VKHDGTMCDFCKQQPIYGIRWKCAECSNYDLCSICYHAEKHNLRHRFYRINFP 133
V G C+ C + + C C C + ++ H+ +
Sbjct: 45 VGERGHHCECCFARKEGLSK--CGRCKQAFYCDVE-CQKEDWPLHKLECSSMV 94
>1kbe_A Kinase suppressor of RAS; KSR, cysteine-rich domain, zinc- binding
protein, signaling protein; NMR {Mus musculus} SCOP:
g.49.1.1 PDB: 1kbf_A
Length = 49
Score = 24.9 bits (54), Expect = 5.4
Identities = 7/21 (33%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 86 TMCDFCKQQPIYGIRWKCAEC 106
+C+ C++ I+G+ KC C
Sbjct: 15 QVCNVCQKSMIFGV--KCKHC 33
>1vqy_A Hypothetical protein AGR_PAT_315; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI; 2.40A {Agrobacterium tumefaciens str} SCOP:
d.58.4.13
Length = 116
Score = 26.0 bits (57), Expect = 6.6
Identities = 13/34 (38%), Positives = 16/34 (47%)
Query: 166 WQWEDQDGGNGRRGKVNEVQDWSAASPRSAAYIV 199
W + D RRGK+ E Q W A PR + I
Sbjct: 67 WGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIE 100
>1zxf_A CALC; SELF-sacrificing resistance protein, structural genomics,
PSI, protein structure initiative; NMR {Micromonospora
echinospora} SCOP: d.129.3.5 PDB: 2gkc_A* 2gkd_A
2l65_A*
Length = 155
Score = 26.6 bits (58), Expect = 7.1
Identities = 8/35 (22%), Positives = 15/35 (42%)
Query: 24 GPDWKWGKQDGGDGHVGTVRNFESPEEVVVVWDNG 58
G W + G + G +R + P+ +V+ W
Sbjct: 50 GGRWYEIDEQGEEHTFGLIRKVDEPDTLVIGWRLN 84
>2pyt_A Ethanolamine utilization protein EUTQ; structural genomics, joint
center for structural genomics, J protein structure
initiative; 1.90A {Salmonella typhimurium LT2} SCOP:
b.82.1.24
Length = 133
Score = 26.1 bits (57), Expect = 7.9
Identities = 10/48 (20%), Positives = 20/48 (41%)
Query: 156 PGARVVRGVDWQWEDQDGGNGRRGKVNEVQDWSAASPRSAAYIVWDNG 203
G +V+ G ++ DG + ++ S +A ++ WDN
Sbjct: 20 GGVKVIDGSSVKFGRFDGAEPHCVGLTDLVTEQDGSSMAAGFMQWDNA 67
>1m1h_A Transcription antitermination protein NUSG; transcription
termination, RNP motif, immunoglobulin fold, nucleic
acid interaction; 1.95A {Aquifex aeolicus} SCOP:
b.114.1.1 d.58.42.1 PDB: 1m1g_A 1npp_A 1npr_A
Length = 248
Score = 26.6 bits (59), Expect = 8.3
Identities = 8/42 (19%), Positives = 15/42 (35%), Gaps = 4/42 (9%)
Query: 120 KHNLRHRFYRINF----PGSERVLLEPRRKSKKISVRGIFPG 157
++ PG + E + ++K + IFPG
Sbjct: 96 VESVEGDTCVNAPPISKPGQKITCKENKTEAKIVLDNKIFPG 137
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
0.320 0.137 0.444
Gapped
Lambda K H
0.267 0.0519 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,564,031
Number of extensions: 282417
Number of successful extensions: 485
Number of sequences better than 10.0: 1
Number of HSP's gapped: 475
Number of HSP's successfully gapped: 34
Length of query: 276
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 184
Effective length of database: 4,133,061
Effective search space: 760483224
Effective search space used: 760483224
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)