RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9533
(73 letters)
>2dms_A Homeobox protein OTX2; homeobox domain, three helices with the
DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Mus musculus}
Length = 80
Score = 43.9 bits (104), Expect = 6e-08
Identities = 10/27 (37%), Positives = 19/27 (70%)
Query: 4 VWFQNRRAKWRKKEHTKKGPGRPAHNA 30
VWF+NRRAK R+++ ++ G+ ++
Sbjct: 53 VWFKNRRAKCRQQQQQQQNGGQSGPSS 79
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 43.5 bits (103), Expect = 8e-08
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 4 VWFQNRRAKWRKKEHTKKGPGRPAHNA 30
VWF NRRAKWR++E + + ++
Sbjct: 53 VWFSNRRAKWRREEKLRNQRRQSGPSS 79
>2dmq_A LIM/homeobox protein LHX9; homeobox domain, three helices with
the DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 42.1 bits (99), Expect = 3e-07
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 4 VWFQNRRAKWRKKEHTKKGPGRPAHNA 30
VWFQN RAK+R+ ++ G ++
Sbjct: 53 VWFQNARAKFRRNLLRQENGGVSGPSS 79
>3a02_A Homeobox protein aristaless; homeodomain, developmental protein,
DNA-binding, N gene regulation; 1.00A {Drosophila
melanogaster} PDB: 3lnq_A 3cmy_A
Length = 60
Score = 39.9 bits (94), Expect = 1e-06
Identities = 13/14 (92%), Positives = 14/14 (100%)
Query: 4 VWFQNRRAKWRKKE 17
VWFQNRRAKWRK+E
Sbjct: 45 VWFQNRRAKWRKQE 58
>1uhs_A HOP, homeodomain only protein; structural genomics, cardiac
development, riken structural genomics/proteomics
initiative, RSGI, transcription; NMR {Mus musculus}
SCOP: a.4.1.1
Length = 72
Score = 38.9 bits (91), Expect = 5e-06
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 4 VWFQNRRAKWRKKE 17
WF+ R A+WR+ E
Sbjct: 48 KWFKQRLAEWRRSE 61
>1fjl_A Paired protein; DNA-binding protein, paired BOX, transcription
regulation; HET: DNA; 2.00A {Drosophila melanogaster}
SCOP: a.4.1.1 PDB: 3a01_B
Length = 81
Score = 39.3 bits (92), Expect = 5e-06
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 4 VWFQNRRAKWRKKEHT 19
VWFQNRRA+ RK+ +
Sbjct: 64 VWFQNRRARLRKQHTS 79
>2k40_A Homeobox expressed in ES cells 1; thermostable homeodomain
variant, DNA binding protein, developmental protein,
disease mutation, DNA-binding; NMR {Homo sapiens}
Length = 67
Score = 38.1 bits (89), Expect = 1e-05
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 4 VWFQNRRAKWRKKEHTKK 21
+WFQNRRAK ++ +
Sbjct: 47 IWFQNRRAKLKRSHRESQ 64
>1yz8_P Pituitary homeobox 2; DNA binding protein, transcription/DNA
complex; NMR {Homo sapiens} SCOP: a.4.1.1 PDB: 2l7f_P
2lkx_A* 2l7m_P
Length = 68
Score = 38.1 bits (89), Expect = 1e-05
Identities = 12/14 (85%), Positives = 14/14 (100%)
Query: 4 VWFQNRRAKWRKKE 17
VWF+NRRAKWRK+E
Sbjct: 49 VWFKNRRAKWRKRE 62
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 38.2 bits (89), Expect = 1e-05
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 4 VWFQNRRAKWRKKEHTKKGPG 24
WF+ R A+WR+ E
Sbjct: 49 KWFKQRLAEWRRSEGLPSECR 69
>2dmu_A Homeobox protein goosecoid; homeobox domain, three helices with
the DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 70
Score = 37.3 bits (87), Expect = 2e-05
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 4 VWFQNRRAKWRKKEHT 19
VWF+NRRAKWR+ +
Sbjct: 53 VWFKNRRAKWRRSGPS 68
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 36.6 bits (85), Expect = 4e-05
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 4 VWFQNRRAKWRKKEHTKKGPG 24
WF +RR R + ++ GP
Sbjct: 54 KWFSDRRYHCRNLKGSRSGPS 74
>2da2_A Alpha-fetoprotein enhancer binding protein; homeobox domain,
three helices with the DNA binding helix- turn-helix
motif, structural genomics; NMR {Homo sapiens}
Length = 70
Score = 36.2 bits (84), Expect = 6e-05
Identities = 9/14 (64%), Positives = 9/14 (64%)
Query: 4 VWFQNRRAKWRKKE 17
VWFQN R K RK
Sbjct: 53 VWFQNARQKARKSG 66
>1bw5_A ISL-1HD, insulin gene enhancer protein ISL-1; DNA-binding
protein, homeodomain, LIM domain; NMR {Rattus
norvegicus} SCOP: a.4.1.1
Length = 66
Score = 35.8 bits (83), Expect = 7e-05
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 4 VWFQNRRAKWRKKEHTKK 21
VWFQN+R K +K+ K
Sbjct: 49 VWFQNKRCKDKKRSIMMK 66
>2da3_A Alpha-fetoprotein enhancer binding protein; homeobox domain,
three helices with the DNA binding helix- turn-helix
motif, structural genomics; NMR {Homo sapiens}
Length = 80
Score = 34.8 bits (80), Expect = 3e-04
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 4 VWFQNRRAKWRKKE 17
VWFQN RA+ RK
Sbjct: 63 VWFQNTRARERKSG 76
>2da1_A Alpha-fetoprotein enhancer binding protein; homeobox domain,
three helices with the DNA binding helix- turn-helix
motif, structural genomics; NMR {Homo sapiens}
Length = 70
Score = 33.9 bits (78), Expect = 5e-04
Identities = 5/14 (35%), Positives = 7/14 (50%)
Query: 4 VWFQNRRAKWRKKE 17
WF+N K R+
Sbjct: 53 HWFRNTLFKERQSG 66
>1ahd_P Antennapedia protein mutant; DNA binding protein/DNA; HET: DNA;
NMR {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 2hoa_A
1hom_A 1ftz_A
Length = 68
Score = 32.4 bits (74), Expect = 0.002
Identities = 13/21 (61%), Positives = 16/21 (76%)
Query: 4 VWFQNRRAKWRKKEHTKKGPG 24
+WFQNRR KW+K+ TK PG
Sbjct: 48 IWFQNRRMKWKKENKTKGEPG 68
>1nk2_P Homeobox protein VND; homeodomain, DNA-binding protein, embryonic
development, complex (homeodomain/DNA); HET: DNA; NMR
{Drosophila melanogaster} SCOP: a.4.1.1 PDB: 1nk3_P*
1vnd_A 1qry_A
Length = 77
Score = 32.4 bits (74), Expect = 0.002
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 4 VWFQNRRAKWRKKEHTKKGPGRP 26
+WFQN R K ++ ++ K G P
Sbjct: 55 IWFQNHRYKTKRAQNEKGYEGHP 77
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 31.9 bits (73), Expect = 0.002
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 4 VWFQNRRAKWRKK 16
WFQNRR KWR++
Sbjct: 43 TWFQNRRTKWRRQ 55
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 32.1 bits (73), Expect = 0.004
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 4 VWFQNRRAKWRKKEHTKKGPGRPAHN 29
WFQNRR KWR++ ++ R A N
Sbjct: 63 TWFQNRRTKWRRQTAEEREAERQAAN 88
>2dmt_A Homeobox protein BARH-like 1; homeobox domain, three helices with
the DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 31.7 bits (72), Expect = 0.004
Identities = 10/19 (52%), Positives = 11/19 (57%), Gaps = 1/19 (5%)
Query: 4 VWFQNRRAKWRKKEHTKKG 22
W+QNRR KW KK G
Sbjct: 63 TWYQNRRMKW-KKSGPSSG 80
>2e1o_A Homeobox protein PRH; DNA binding protein, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1
Length = 70
Score = 31.6 bits (72), Expect = 0.004
Identities = 10/19 (52%), Positives = 12/19 (63%), Gaps = 1/19 (5%)
Query: 4 VWFQNRRAKWRKKEHTKKG 22
WFQNRRAKW ++ G
Sbjct: 53 TWFQNRRAKW-RRSGPSSG 70
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 32.7 bits (74), Expect = 0.004
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 4 VWFQNRRAKWRKKE 17
VWF NRR K ++
Sbjct: 145 VWFCNRRQKEKRMT 158
>1e3o_C Octamer-binding transcription factor 1; transcription factor, POU
domain, dimer, DNA binding; 1.9A {Homo sapiens} SCOP:
a.4.1.1 a.35.1.1 PDB: 1gt0_C 1hf0_A* 1cqt_A* 1o4x_A
1oct_C* 1pou_A 1pog_A 1hdp_A
Length = 160
Score = 32.6 bits (74), Expect = 0.004
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 4 VWFQNRRAKWRK 15
VWF NRR K ++
Sbjct: 147 VWFSNRRQKEKR 158
>2cuf_A FLJ21616 protein; homeobox domain, hepatocyte transcription
factor, structural genomics, loop insertion, NPPSFA;
NMR {Homo sapiens} SCOP: a.4.1.1
Length = 95
Score = 31.9 bits (72), Expect = 0.005
Identities = 5/14 (35%), Positives = 9/14 (64%)
Query: 4 VWFQNRRAKWRKKE 17
WF NRR + +++
Sbjct: 68 NWFANRRKEIKRRA 81
>3l1p_A POU domain, class 5, transcription factor 1; POU, transcription
factor DNA complex, pore, stem cells; HET: DNA; 2.80A
{Mus musculus} PDB: 1ocp_A
Length = 155
Score = 32.0 bits (72), Expect = 0.006
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 4 VWFQNRRAKWRKK 16
VWF NRR K ++
Sbjct: 142 VWFSNRRQKGKRS 154
>3d1n_I POU domain, class 6, transcription factor 1; protein-DNA complex,
helix-turn-helix (HTH), DNA-binding, homeobox, nucleus,
transcription regulation; 2.51A {Homo sapiens}
Length = 151
Score = 31.9 bits (72), Expect = 0.006
Identities = 6/12 (50%), Positives = 7/12 (58%)
Query: 4 VWFQNRRAKWRK 15
VWF NRR +
Sbjct: 139 VWFSNRRQTLKN 150
>1au7_A Protein PIT-1, GHF-1; complex (DNA-binding protein/DNA), pituitary,
CPHD, POU domain, transcription factor,
transcription/DNA complex; HET: DNA; 2.30A {Rattus
norvegicus} SCOP: a.4.1.1 a.35.1.1
Length = 146
Score = 31.9 bits (72), Expect = 0.007
Identities = 6/12 (50%), Positives = 9/12 (75%)
Query: 4 VWFQNRRAKWRK 15
VWF NRR + ++
Sbjct: 133 VWFCNRRQREKR 144
>1b72_A Protein (homeobox protein HOX-B1); homeodomain, DNA, complex,
DNA-binding protein, protein/DNA complex; HET: DNA;
2.35A {Homo sapiens} SCOP: a.4.1.1
Length = 97
Score = 31.0 bits (70), Expect = 0.008
Identities = 10/19 (52%), Positives = 12/19 (63%), Gaps = 1/19 (5%)
Query: 4 VWFQNRRAKWRKKEHTKKG 22
+WFQNRR K KK + G
Sbjct: 80 IWFQNRRMKQ-KKREREGG 97
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Homo sapiens}
Length = 69
Score = 30.4 bits (69), Expect = 0.011
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 4 VWFQNRRAKWRKKEHTKK 21
+WFQNRR K ++K+ + +
Sbjct: 50 IWFQNRRYKTKRKQLSSE 67
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 30.4 bits (69), Expect = 0.011
Identities = 9/19 (47%), Positives = 12/19 (63%), Gaps = 1/19 (5%)
Query: 4 VWFQNRRAKWRKKEHTKKG 22
+WFQN+R+K KK G
Sbjct: 53 IWFQNKRSKI-KKSGPSSG 70
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 29.9 bits (68), Expect = 0.011
Identities = 8/12 (66%), Positives = 11/12 (91%)
Query: 4 VWFQNRRAKWRK 15
+WFQNRRAK ++
Sbjct: 46 IWFQNRRAKAKR 57
>1zq3_P PRD-4, homeotic bicoid protein; protein-DNA complex, double
helix, helix-turn-helix; NMR {Drosophila melanogaster}
SCOP: a.4.1.1
Length = 68
Score = 30.1 bits (68), Expect = 0.014
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 4 VWFQNRRAKWRKKEHTKK 21
+WF+NRR + + + K
Sbjct: 48 IWFKNRRRRHKIQSDQHK 65
>2hdd_A Protein (engrailed homeodomain Q50K); DNA binding, complex (DNA
binding protein/DNA), transcription/DNA complex; HET:
DNA; 1.90A {Drosophila melanogaster} SCOP: a.4.1.1 PDB:
1hdd_C* 2jwt_A 3hdd_A 1p7j_A* 1p7i_A* 2hos_A 2hot_A
1du0_A* 1ztr_A 1enh_A 2p81_A
Length = 61
Score = 29.6 bits (67), Expect = 0.019
Identities = 7/12 (58%), Positives = 11/12 (91%)
Query: 4 VWFQNRRAKWRK 15
+WF+N+RAK +K
Sbjct: 49 IWFKNKRAKIKK 60
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein,
transcription regulation, NUC homeobox; 2.6A {Mus
musculus}
Length = 62
Score = 29.6 bits (67), Expect = 0.020
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 4 VWFQNRRAKWRKKE 17
WFQN+R K ++ +
Sbjct: 49 TWFQNQRMKCKRWQ 62
>1akh_A Protein (mating-type protein A-1); complex (TWO DNA-binding
proteins/DNA), complex, DNA- binding protein, DNA; HET:
DNA; 2.50A {Saccharomyces cerevisiae} SCOP: a.4.1.1
PDB: 1f43_A 1yrn_A*
Length = 61
Score = 29.1 bits (66), Expect = 0.031
Identities = 5/11 (45%), Positives = 8/11 (72%)
Query: 4 VWFQNRRAKWR 14
VWF N+R + +
Sbjct: 51 VWFINKRMRSK 61
>2cra_A Homeobox protein HOX-B13; DNA-binding, transcription regulation,
helix-turn-helix, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: a.4.1.1
Length = 70
Score = 29.0 bits (65), Expect = 0.041
Identities = 10/19 (52%), Positives = 11/19 (57%), Gaps = 1/19 (5%)
Query: 4 VWFQNRRAKWRKKEHTKKG 22
+WFQNRR K KK G
Sbjct: 53 IWFQNRRVKE-KKSGPSSG 70
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 28.9 bits (65), Expect = 0.044
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 4 VWFQNRRAKWRKKEHTKKG 22
+WFQN R K +++ K
Sbjct: 48 IWFQNHRYKMKRQAKDKAA 66
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 28.4 bits (64), Expect = 0.056
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 4 VWFQNRRAKWR 14
+WFQNRR K +
Sbjct: 48 IWFQNRRYKSK 58
>1wi3_A DNA-binding protein SATB2; homeodomain, helix-turn-helix, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; NMR {Homo sapiens} SCOP: a.4.1.1
Length = 71
Score = 28.6 bits (64), Expect = 0.056
Identities = 4/12 (33%), Positives = 7/12 (58%)
Query: 4 VWFQNRRAKWRK 15
+FQN+R +
Sbjct: 54 KFFQNQRYHVKH 65
>1jgg_A Segmentation protein EVEN-skipped; homeodomain, protein-DNA
complex, transcription/DNA complex; 2.00A {Drosophila
melanogaster} SCOP: a.4.1.1
Length = 60
Score = 28.1 bits (63), Expect = 0.072
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 4 VWFQNRRAKWRK 15
VWFQNRR K ++
Sbjct: 47 VWFQNRRMKDKR 58
>2da5_A Zinc fingers and homeoboxes protein 3; homeobox domain, three
helices with the DNA binding helix- turn-helix motif,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 75
Score = 28.3 bits (63), Expect = 0.075
Identities = 9/21 (42%), Positives = 10/21 (47%)
Query: 4 VWFQNRRAKWRKKEHTKKGPG 24
WF RR K +E K GP
Sbjct: 53 SWFSERRKKVNAEETKKSGPS 73
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain;
protein-DNA complex, transcription/DNA complex; 2.42A
{Mesocricetus auratus}
Length = 63
Score = 28.1 bits (63), Expect = 0.077
Identities = 10/14 (71%), Positives = 13/14 (92%)
Query: 4 VWFQNRRAKWRKKE 17
+WFQNRR KW+K+E
Sbjct: 49 IWFQNRRMKWKKEE 62
>1puf_A HOX-1.7, homeobox protein HOX-A9; homeodomian, protein-DNA
complex, HOX hexapeptide, TALE homeodomain, homeodomain
interaction; 1.90A {Mus musculus} SCOP: a.4.1.1 PDB:
1san_A
Length = 77
Score = 28.3 bits (63), Expect = 0.083
Identities = 9/19 (47%), Positives = 12/19 (63%), Gaps = 1/19 (5%)
Query: 4 VWFQNRRAKWRKKEHTKKG 22
+WFQNRR K KK + +
Sbjct: 59 IWFQNRRMKM-KKINKDRA 76
>1b8i_A Ultrabithorax, protein (ultrabithorax homeotic protein IV); DNA
binding, homeodomain, homeotic proteins, development,
specificity; HET: DNA; 2.40A {Drosophila melanogaster}
SCOP: a.4.1.1 PDB: 9ant_A*
Length = 81
Score = 28.2 bits (63), Expect = 0.091
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 4 VWFQNRRAKWRK 15
+WFQNRR K +K
Sbjct: 66 IWFQNRRMKLKK 77
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for
eukaryotic structural genomics; NMR {Homo sapiens}
Length = 84
Score = 28.2 bits (63), Expect = 0.098
Identities = 6/13 (46%), Positives = 9/13 (69%)
Query: 4 VWFQNRRAKWRKK 16
WFQN+R K ++
Sbjct: 68 TWFQNQRMKSKRW 80
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 28.3 bits (63), Expect = 0.10
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 4 VWFQNRRAKWRKKE 17
+WFQNRR KW+K+
Sbjct: 74 IWFQNRRMKWKKEH 87
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens}
PDB: 2ld5_A*
Length = 73
Score = 27.5 bits (61), Expect = 0.14
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 4 VWFQNRRAKWRKKEHTKKGP 23
+WFQNRR K +K + K
Sbjct: 53 IWFQNRRVKEKKVINKLKTT 72
>2dmp_A Zinc fingers and homeoboxes protein 2; homeobox domain, three
helices with the DNA binding helix- turn-helix motif,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 89
Score = 27.6 bits (61), Expect = 0.18
Identities = 5/21 (23%), Positives = 5/21 (23%)
Query: 4 VWFQNRRAKWRKKEHTKKGPG 24
WF RR E
Sbjct: 59 SWFSERRKLRDSMEQAVLDSM 79
>3nau_A Zinc fingers and homeoboxes protein 2; ZHX2, corepressor,
homeodomain, domain swapping, structural oxford protein
production facility, OPPF; 2.70A {Homo sapiens}
Length = 66
Score = 27.1 bits (60), Expect = 0.19
Identities = 3/12 (25%), Positives = 7/12 (58%)
Query: 4 VWFQNRRAKWRK 15
WF + R + ++
Sbjct: 50 KWFSDHRYRCQR 61
>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 = 27.6 bits (60), Expect = 0.27
Identities = 5/23 (21%), Positives = 11/23 (47%), Gaps = 3/23 (13%)
Query: 54 QKKLMKSLERQV---GPLTTPIL 73
+K+ +K L+ + + P L
Sbjct: 18 EKQALKKLQASLKLYADDSAPAL 40
>2qq9_A Diphtheria toxin repressor; regulator, DTXR, helix-turn-helix,
metal ION, ACT DNA-binding, ferrous iron, transcription;
1.71A {Corynebacterium diphtheriae} PDB: 2tdx_A 1ddn_A
1g3t_A 1g3s_A 1g3w_A 2qqa_A 2qqb_A 2dtr_A 1bi0_A 1bi2_A
1bi3_A 1dpr_A 1bi1_A 1fwz_A 1g3y_A 1c0w_A* 3glx_A 1p92_A
1xcv_A 1f5t_A ...
Length = 226
Score = 27.1 bits (60), Expect = 0.41
Identities = 4/41 (9%), Positives = 10/41 (24%), Gaps = 1/41 (2%)
Query: 31 HPVTC-SGDPIPAEELKRKERARRQKKLMKSLERQVGPLTT 70
G+PIP + + + ++
Sbjct: 122 DVSRSPFGNPIPGLDELGVGNSDAAAPGTRVIDAATSMPRK 162
>2e0c_A 409AA long hypothetical NADP-dependent isocitrate dehydrogenase;
homedimer, oxidoreductase; 2.00A {Sulfolobus tokodaii
str} PDB: 2dht_A 2e5m_A*
Length = 409
Score = 26.8 bits (60), Expect = 0.52
Identities = 11/36 (30%), Positives = 15/36 (41%), Gaps = 9/36 (25%)
Query: 37 GDPIPAEELKRKERARRQKKLMKSLERQVGPLTTPI 72
D P E E + + ++K GPL TPI
Sbjct: 77 NDRFPKETQ---EMLLKYRVVLK------GPLETPI 103
>1lfb_A Liver transcription factor (LFB1); transcription regulation;
2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 26.3 bits (57), Expect = 0.53
Identities = 5/14 (35%), Positives = 7/14 (50%)
Query: 4 VWFQNRRAKWRKKE 17
WF NRR + +
Sbjct: 76 NWFANRRKEEAFRH 89
>2iv0_A Isocitrate dehydrogenase; oxidoreductase, tricarboxylic acid cycle,
domain swapping, phosphorylation, aromatic cluster,
NADP; 2.5A {Archaeoglobus fulgidus}
Length = 412
Score = 26.5 bits (59), Expect = 0.77
Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 9/36 (25%)
Query: 37 GDPIPAEELKRKERARRQKKLMKSLERQVGPLTTPI 72
G+ +P + L + + +K GPLTTP+
Sbjct: 77 GNYLPDDTL---NAIKEFRVALK------GPLTTPV 103
>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain,
transcription factor, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: a.4.1.1
Length = 89
Score = 25.7 bits (56), Expect = 0.97
Identities = 4/20 (20%), Positives = 7/20 (35%)
Query: 4 VWFQNRRAKWRKKEHTKKGP 23
WF ++ KE +
Sbjct: 57 AWFTEKKKSKALKEEKMEID 76
>2nzz_A Penetratin conjugated GAS (374-394) peptide; conformational
analysis, G protein, GAS subunit, A2A adenosine
receptor, cell-penetrating peptides; NMR {Synthetic}
PDB: 2o00_A
Length = 37
Score = 24.6 bits (53), Expect = 1.2
Identities = 9/13 (69%), Positives = 12/13 (92%)
Query: 4 VWFQNRRAKWRKK 16
+WFQNRR KW+K+
Sbjct: 5 IWFQNRRMKWKKR 17
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 25.6 bits (55), Expect = 1.2
Identities = 4/18 (22%), Positives = 6/18 (33%)
Query: 4 VWFQNRRAKWRKKEHTKK 21
+F N R + K
Sbjct: 143 NFFMNARRRSLDKWLEHH 160
>1tyo_A Isocitrate dehydrogenase; enzyme-ethenonadp complex,
oxidoreductase; HET: ENP; 2.15A {Aeropyrum pernix} PDB:
1v94_A 1xgv_A 1xkd_A*
Length = 435
Score = 25.8 bits (57), Expect = 1.3
Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 9/36 (25%)
Query: 37 GDPIPAEELKRKERARRQKKLMKSLERQVGPLTTPI 72
G+ +P L E R + +K GPL TP+
Sbjct: 88 GELLPKATL---EGIRLARVALK------GPLETPV 114
>1fft_A Ubiquinol oxidase; electron transport, cytochrome oxidase, membrane
protein, oxidoreductase; HET: HEM HEO; 3.50A
{Escherichia coli} SCOP: f.24.1.1
Length = 663
Score = 25.0 bits (55), Expect = 2.1
Identities = 3/16 (18%), Positives = 8/16 (50%)
Query: 40 IPAEELKRKERARRQK 55
+P E+++ E +
Sbjct: 638 VPVAEIEKLENQHFDE 653
>1hqs_A Isocitrate dehydrogenase; glyoxylate bypass, bsidh, tricarboxylic
acid cycle, oxidoreductase, protein phosphorylation,
NADP; HET: CME CIT; 1.55A {Bacillus subtilis} SCOP:
c.77.1.1
Length = 423
Score = 25.0 bits (55), Expect = 2.8
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 9/36 (25%)
Query: 37 GDPIPAEELKRKERARRQKKLMKSLERQVGPLTTPI 72
G+ +PAE L + R +K GPLTTP+
Sbjct: 72 GEWLPAETL---DVIREYFIAIK------GPLTTPV 98
>3ps0_A Crispr-associated protein, CSA2; viral resistance, CAS, CASS, RNA-
RNA-recognition motif, nucleic-acid binding; 2.00A
{Sulfolobus solfataricus}
Length = 328
Score = 24.8 bits (53), Expect = 2.9
Identities = 8/31 (25%), Positives = 17/31 (54%)
Query: 36 SGDPIPAEELKRKERARRQKKLMKSLERQVG 66
G+ + EE +++A+R K +K+L +
Sbjct: 208 FGEKVKGEEELERQKAKRVKSAIKALYSLLS 238
>2d1c_A Isocitrate dehydrogenase; structural genomics, NPPSFA, national
project protein structural and functional analyses;
HET: NAP CIT; 1.80A {Thermus thermophilus}
Length = 496
Score = 23.9 bits (52), Expect = 5.6
Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 9/36 (25%)
Query: 37 GDPIPAEELKRKERARRQKKLMKSLERQVGPLTTPI 72
+P E + E R+ + ++K GPL TP+
Sbjct: 66 ASGVPQETI---ESIRKTRVVLK------GPLETPV 92
>16vp_A Protein (VP16, VMW65, ATIF); transcriptional regulatory protein;
2.10A {Human herpesvirus 1} SCOP: d.180.1.1
Length = 366
Score = 23.9 bits (51), Expect = 5.7
Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 4/47 (8%)
Query: 29 NAHPVTCSGDPIPAEELKRKERARRQKKL----MKSLERQVGPLTTP 71
+T G PI A L+ R L + E PLTTP
Sbjct: 230 VNGALTVRGVPIEARRLRELNHIREHLNLPLVRSAATEEPGAPLTTP 276
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 22.7 bits (48), Expect = 8.6
Identities = 3/16 (18%), Positives = 7/16 (43%)
Query: 4 VWFQNRRAKWRKKEHT 19
WF+ +A + +
Sbjct: 49 KWFEKMQAGQISVQSS 64
>2cqx_A LAG1 longevity assurance homolog 5; homeodomain, DNA binding
domain, transcription, structural genomics, NPPSFA; NMR
{Mus musculus} SCOP: a.4.1.1
Length = 72
Score = 22.8 bits (49), Expect = 9.9
Identities = 4/12 (33%), Positives = 8/12 (66%)
Query: 4 VWFQNRRAKWRK 15
WF++RR + +
Sbjct: 55 CWFRHRRNQDKP 66
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
0.318 0.132 0.416
Gapped
Lambda K H
0.267 0.0525 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,132,647
Number of extensions: 51710
Number of successful extensions: 214
Number of sequences better than 10.0: 1
Number of HSP's gapped: 211
Number of HSP's successfully gapped: 78
Length of query: 73
Length of database: 6,701,793
Length adjustment: 43
Effective length of query: 30
Effective length of database: 5,501,190
Effective search space: 165035700
Effective search space used: 165035700
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.9 bits)