RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1729
(170 letters)
>2crj_A SWI/SNF-related matrix-associated actin- dependent regulator of
chromatin subfamily...; structural DNA-binding protein
BRAF35, DNA-bending; NMR {Mus musculus}
Length = 92
Score = 55.1 bits (133), Expect = 6e-11
Identities = 24/51 (47%), Positives = 35/51 (68%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRK 102
+TK+LG EWSKL EK+ YLD AE +K++Y +EL Y++S+AY+
Sbjct: 38 ITKMLGAEWSKLQPAEKQRYLDEAEKEKQQYLKELWAYQQSEAYKVCTESG 88
Score = 45.1 bits (107), Expect = 4e-07
Identities = 20/36 (55%), Positives = 27/36 (75%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
+TK+LG EWSKL EK+ YLD AE +K++Y +EL
Sbjct: 38 ITKMLGAEWSKLQPAEKQRYLDEAEKEKQQYLKELW 73
>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box
domain, structural genomics, NPPSFA; NMR {Mus musculus}
Length = 102
Score = 55.5 bits (134), Expect = 6e-11
Identities = 17/51 (33%), Positives = 27/51 (52%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRK 102
V+K++ + W L +K+VY + E KK Y ++L YR S +SY
Sbjct: 48 VSKIVASMWDGLGEEQKQVYKKKTEAAKKEYLKQLAAYRASLVSKSYTDSG 98
Score = 44.3 bits (105), Expect = 7e-07
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
V+K++ + W L +K+VY + E KK Y ++L
Sbjct: 48 VSKIVASMWDGLGEEQKQVYKKKTEAAKKEYLKQLA 83
>3fgh_A Transcription factor A, mitochondrial; HMG domain, mitochondrial
transcription, activator, DNA- binding, mitochondrion,
phosphoprotein; 1.35A {Homo sapiens}
Length = 67
Score = 51.1 bits (123), Expect = 1e-09
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 6/52 (11%)
Query: 44 KRYREELK------VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVY 89
+E K K + W LS EK++Y+ A+ D+ RY E+K +
Sbjct: 15 AERFQEAKGDSPQEKLKTVKENWKNLSDSEKELYIQHAKEDETRYHNEMKSW 66
Score = 47.7 bits (114), Expect = 2e-08
Identities = 13/46 (28%), Positives = 23/46 (50%)
Query: 6 EKMISTTKLLVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
++ + K + W LS EK++Y+ A+ D+ RY E+K
Sbjct: 19 QEAKGDSPQEKLKTVKENWKNLSDSEKELYIQHAKEDETRYHNEMK 64
>1k99_A Upstream binding factor 1; alpha-helix, L-shape, DNA binding
protein; NMR {Homo sapiens} SCOP: a.21.1.1
Length = 99
Score = 51.6 bits (124), Expect = 1e-09
Identities = 10/59 (16%), Positives = 25/59 (42%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKSLQAN 110
+TK+L ++ +L +K Y+ + +K+ + L +R+ +K +
Sbjct: 41 LTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQNAKKLEHHHHHH 99
Score = 41.6 bits (98), Expect = 7e-06
Identities = 8/36 (22%), Positives = 19/36 (52%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
+TK+L ++ +L +K Y+ + +K+ + L
Sbjct: 41 LTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLA 76
>1cg7_A Protein (NON histone protein 6 A); HMG BOX, DNA bending, DNA
recognition, chromatin, DNA binding protein; NMR
{Saccharomyces cerevisiae} SCOP: a.21.1.1 PDB: 1j5n_A
1lwm_A
Length = 93
Score = 51.2 bits (123), Expect = 2e-09
Identities = 18/43 (41%), Positives = 26/43 (60%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDA 94
V K LG +W L+ EK+ Y +A+ DKKRY E ++Y + A
Sbjct: 51 VGKKLGEKWKALTPEEKQPYEAKAQADKKRYESEKELYNATLA 93
Score = 43.8 bits (104), Expect = 1e-06
Identities = 16/36 (44%), Positives = 22/36 (61%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
V K LG +W L+ EK+ Y +A+ DKKRY E +
Sbjct: 51 VGKKLGEKWKALTPEEKQPYEAKAQADKKRYESEKE 86
>2gzk_A Sex-determining region on Y / HMGB1; protein-DNA complex, HMG BOX,
amphoterin, DNA/structural protein complex; NMR {Homo
sapiens} SCOP: a.21.1.1 a.21.1.1
Length = 159
Score = 52.5 bits (126), Expect = 2e-09
Identities = 22/124 (17%), Positives = 41/124 (33%), Gaps = 48/124 (38%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK------------------------ 51
++K LG +W L+ EK + A+ + +RE+
Sbjct: 35 ISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRKGETKKKFKDPNAPKRPPS 94
Query: 52 ------------------------VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 87
V K LG W+ + +K+ Y +A K++Y +++
Sbjct: 95 AFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIA 154
Query: 88 VYRK 91
YR
Sbjct: 155 AYRA 158
Score = 38.3 bits (89), Expect = 3e-04
Identities = 11/45 (24%), Positives = 21/45 (46%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQ 96
++K LG +W L+ EK + A+ + +RE+ Y+
Sbjct: 35 ISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRKGET 79
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 92
Score = 49.7 bits (119), Expect = 6e-09
Identities = 13/46 (28%), Positives = 22/46 (47%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQS 97
T + W LS EK Y ++A D +RY ++K + ++ S
Sbjct: 38 ATLQIEELWKTLSEEEKLKYEEKATKDLERYNSQMKRAIEQESQMS 83
Score = 44.0 bits (104), Expect = 8e-07
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
T + W LS EK Y ++A D +RY ++K
Sbjct: 38 ATLQIEELWKTLSEEEKLKYEEKATKDLERYNSQMK 73
>1hme_A High mobility group protein fragment-B; DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1 PDB: 1hmf_A 1nhm_A 1nhn_A
1hsm_A 1hsn_A 1j3c_A 1j3d_A 2yqi_A
Length = 77
Score = 48.8 bits (117), Expect = 9e-09
Identities = 12/40 (30%), Positives = 22/40 (55%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRK 91
V K LG W+ + +K+ Y +A K++Y +++ YR
Sbjct: 37 VAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRA 76
Score = 43.8 bits (104), Expect = 7e-07
Identities = 10/36 (27%), Positives = 20/36 (55%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
V K LG W+ + +K+ Y +A K++Y +++
Sbjct: 37 VAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIA 72
>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1
Length = 83
Score = 49.2 bits (118), Expect = 9e-09
Identities = 14/41 (34%), Positives = 19/41 (46%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 92
+K W +S EK + D A+ DK RY E+K Y
Sbjct: 40 FSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPP 80
Score = 45.0 bits (107), Expect = 3e-07
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
+K W +S EK + D A+ DK RY E+K
Sbjct: 40 FSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMK 75
>2lhj_A High mobility group protein homolog NHP1; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; NMR {Babesia bovis}
Length = 97
Score = 48.9 bits (117), Expect = 1e-08
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 92
+ K++G W+ LS EKK Y ++ D+ RY E Y +
Sbjct: 55 IGKMIGAAWNALSDEEKKPYERMSDEDRVRYEREKAEYAQR 95
Score = 43.5 bits (103), Expect = 2e-06
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
+ K++G W+ LS EKK Y ++ D+ RY E
Sbjct: 55 IGKMIGAAWNALSDEEKKPYERMSDEDRVRYEREKA 90
>2yrq_A High mobility group protein B1; HMG box domain, DNA binding,
helix-turn-helix motif, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 173
Score = 50.4 bits (120), Expect = 2e-08
Identities = 25/124 (20%), Positives = 41/124 (33%), Gaps = 48/124 (38%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRY----------------------------- 46
+K W +S EK + D A+ DK RY
Sbjct: 48 FSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPS 107
Query: 47 ---------REELK----------VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 87
R ++K V K LG W+ + +K+ Y +A K++Y +++
Sbjct: 108 AFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIA 167
Query: 88 VYRK 91
YR
Sbjct: 168 AYRA 171
Score = 26.1 bits (57), Expect = 5.4
Identities = 14/54 (25%), Positives = 20/54 (37%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVK 105
+K W +S EK + D A+ DK RY E+K Y +
Sbjct: 48 FSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGETKKKFKDPNA 101
>1v63_A Nucleolar transcription factor 1; DNA binding, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
DNA binding protein; NMR {Mus musculus} SCOP: a.21.1.1
Length = 101
Score = 48.4 bits (115), Expect = 2e-08
Identities = 14/70 (20%), Positives = 31/70 (44%)
Query: 37 DRAEVDKKRYREELKVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQ 96
+ + + + +G+ W ++S +K+ Y AE +++Y+ L ++ KS + Q
Sbjct: 22 ELLSNGELNHLPLKERMVEIGSRWQRISQSQKEHYKKLAEEQQRQYKVHLDLWVKSLSPQ 81
Query: 97 SYLRRKRVKS 106
K S
Sbjct: 82 DRAAYKEYIS 91
Score = 39.5 bits (92), Expect = 5e-05
Identities = 18/79 (22%), Positives = 32/79 (40%), Gaps = 17/79 (21%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVTKLLGNEWSKLSLPEKKVYLDRA 75
+G+ W ++S +K+ Y AE +++Y+ L W K P+
Sbjct: 37 RMVEIGSRWQRISQSQKEHYKKLAEEQQRQYKVHLD-------LWVKSLSPQ-------- 81
Query: 76 EVDKKRYREELKVYRKSDA 94
D+ Y+E + RKS
Sbjct: 82 --DRAAYKEYISNKRKSGP 98
>2eqz_A High mobility group protein B3; HMG-box domain, mobility group
protein 2A, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 86
Score = 47.0 bits (112), Expect = 6e-08
Identities = 13/38 (34%), Positives = 19/38 (50%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVY 89
+K W +S EK + + A+ DK RY E+K Y
Sbjct: 48 FSKKCSERWKTMSGKEKSKFDEMAKADKVRYDREMKDY 85
Score = 44.3 bits (105), Expect = 6e-07
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
+K W +S EK + + A+ DK RY E+K
Sbjct: 48 FSKKCSERWKTMSGKEKSKFDEMAKADKVRYDREMK 83
>1wxl_A Single-strand recognition protein; FACT, SSRP1, HMG, DNA binding
protein; NMR {Drosophila melanogaster}
Length = 73
Score = 46.1 bits (110), Expect = 1e-07
Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 92
+ K G W +L +K + D A DK+RY +E++ Y+
Sbjct: 34 IAKKGGEMWKELK--DKSKWEDAAAKDKQRYHDEMRNYKPE 72
Score = 41.1 bits (97), Expect = 8e-06
Identities = 12/36 (33%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
+ K G W +L +K + D A DK+RY +E++
Sbjct: 34 IAKKGGEMWKELK--DKSKWEDAAAKDKQRYHDEMR 67
>3nm9_A HMG-D, high mobility group protein D; DNA bending,
non-sequence-specific, HMG chromosomal protein; HET:
DNA; 2.85A {Drosophila melanogaster} PDB: 1e7j_A*
1hma_A 1qrv_A*
Length = 73
Score = 46.1 bits (110), Expect = 1e-07
Identities = 9/41 (21%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 92
V K G W + +K + +A K Y +K + +
Sbjct: 34 VAKRGGELWRAMK--DKSEWEAKAAKAKDDYDRAVKEFEAN 72
Score = 40.0 bits (94), Expect = 2e-05
Identities = 9/36 (25%), Positives = 14/36 (38%), Gaps = 2/36 (5%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
V K G W + +K + +A K Y +K
Sbjct: 34 VAKRGGELWRAMK--DKSEWEAKAAKAKDDYDRAVK 67
>3tmm_A Transcription factor A, mitochondrial; HMG, high mobility group,
transcription, LSP1, mitochon transcription-DNA complex;
HET: DNA; 2.50A {Homo sapiens}
Length = 238
Score = 48.7 bits (115), Expect = 1e-07
Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 51 KVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS--DAYQSYLRRKRVKSLQ 108
+ K + W LS EK++Y+ A+ D+ RY E+K + + + + L R+ +K +
Sbjct: 172 EKLKTVKENWKNLSDSEKELYIQHAKEDETRYHNEMKSWEEQMIEVGRKDLLRRTIKKQR 231
Query: 109 ANGTEE 114
G EE
Sbjct: 232 KYGAEE 237
Score = 39.8 bits (92), Expect = 1e-04
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
K + W LS EK++Y+ A+ D+ RY E+K
Sbjct: 173 KLKTVKENWKNLSDSEKELYIQHAKEDETRYHNEMK 208
Score = 38.3 bits (88), Expect = 6e-04
Identities = 19/117 (16%), Positives = 45/117 (38%), Gaps = 3/117 (2%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVTKLLGNEWSKLSLPEKKVYLDRA 75
+ + + W +L +KK+Y D + + Y+EE+ K +SL ++ +
Sbjct: 72 LIRRIAQRWRELPDSKKKIYQDAYRAEWQVYKEEISRFKEQLTPSQIMSLEKEIMDKHLK 131
Query: 76 EVDKKRYREELKVY---RKSDAYQSYLRRKRVKSLQANGTEESDIATDATDEIDEEE 129
+ +E + R AY Y+ + ++ + E+ + + + E
Sbjct: 132 RKAMTKKKELTLLGKPKRPRSAYNVYVAERFQEAKGDSPQEKLKTVKENWKNLSDSE 188
>1ckt_A High mobility group 1 protein; high-mobility group domain, BENT
DNA, protein-drug-DNA compl regulation-DNA complex;
HET: DNA 5IU; 2.50A {Rattus norvegicus} SCOP: a.21.1.1
PDB: 1j3x_A
Length = 71
Score = 45.5 bits (108), Expect = 1e-07
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVY 89
+K W +S EK + D A+ DK RY E+K Y
Sbjct: 34 FSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTY 71
Score = 43.1 bits (102), Expect = 1e-06
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
+K W +S EK + D A+ DK RY E+K
Sbjct: 34 FSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMK 69
>3tq6_A Transcription factor A, mitochondrial; transcription, transcription
regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo
sapiens}
Length = 214
Score = 46.7 bits (110), Expect = 5e-07
Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 2/67 (2%)
Query: 51 KVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS--DAYQSYLRRKRVKSLQ 108
+ K + W LS EK++Y+ A+ D+ RY E+K + + + + L R+ +K +
Sbjct: 140 EKLKTVKENWKNLSDSEKELYIQHAKEDETRYHNEMKSWEEQMIEVGRKDLLRRTIKKQR 199
Query: 109 ANGTEES 115
G EE
Sbjct: 200 KYGAEEC 206
Score = 40.1 bits (93), Expect = 1e-04
Identities = 16/82 (19%), Positives = 35/82 (42%), Gaps = 12/82 (14%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVTKLLGNEWSKLSLPEKKVYLDRA 75
K + W LS EK++Y+ A+ D+ RY E+K + E+ + + R
Sbjct: 141 KLKTVKENWKNLSDSEKELYIQHAKEDETRYHNEMKSWE------------EQMIEVGRK 188
Query: 76 EVDKKRYREELKVYRKSDAYQS 97
++ ++ +++ K +
Sbjct: 189 DLLRRTIKKQRKYGAEECLQHH 210
Score = 39.7 bits (92), Expect = 2e-04
Identities = 9/47 (19%), Positives = 22/47 (46%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSY 98
+ + + W +L +KK+Y D + + Y+EE+ +++
Sbjct: 40 LIRRIAQRWRELPDSKKKIYQDAYRAEWQVYKEEISRFKEQLTPSQI 86
Score = 39.4 bits (91), Expect = 2e-04
Identities = 21/117 (17%), Positives = 41/117 (35%), Gaps = 3/117 (2%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKV---TKLLGNEWSKLSLPEKKVYL 72
+ + + W +L +KK+Y D + + Y+EE+ S K
Sbjct: 40 LIRRIAQRWRELPDSKKKIYQDAYRAEWQVYKEEISRFKEQLTPSQIMSLEKEIMDKHLK 99
Query: 73 DRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKSLQANGTEESDIATDATDEIDEEE 129
+A KK K R AY Y+ + ++ + E+ + + + E
Sbjct: 100 RKAMTKKKELTLLGKPKRPRSAYNVYVAERFQEAKGDSPQEKLKTVKENWKNLSDSE 156
>1v64_A Nucleolar transcription factor 1; DNA binding, structural genomics,
riken structural genomics/proteomics initiative, RSGI;
NMR {Mus musculus} SCOP: a.21.1.1
Length = 108
Score = 44.2 bits (104), Expect = 1e-06
Identities = 17/62 (27%), Positives = 24/62 (38%), Gaps = 1/62 (1%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLR-RKRVKSLQAN 110
L +W LS EK Y + + KK Y EL + +S + R K L +
Sbjct: 44 RMVLCSQQWKLLSQKEKDAYHKKCDQKKKDYEVELLRFLESLPEEEQQRVLGEEKMLNIS 103
Query: 111 GT 112
G
Sbjct: 104 GP 105
Score = 36.9 bits (85), Expect = 5e-04
Identities = 12/36 (33%), Positives = 15/36 (41%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 51
L +W LS EK Y + + KK Y EL
Sbjct: 44 RMVLCSQQWKLLSQKEKDAYHKKCDQKKKDYEVELL 79
>1wgf_A Upstream binding factor 1; transcription factor, DNA binding,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus
musculus} SCOP: a.21.1.1
Length = 90
Score = 42.0 bits (99), Expect = 5e-06
Identities = 10/39 (25%), Positives = 16/39 (41%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYR 90
+T+LL W+ LS +K Y R K + +
Sbjct: 51 LTRLLARMWNDLSEKKKAKYKAREAALKAQSERKSGPSS 89
Score = 40.1 bits (94), Expect = 2e-05
Identities = 10/34 (29%), Positives = 16/34 (47%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 49
+T+LL W+ LS +K Y R K + +
Sbjct: 51 LTRLLARMWNDLSEKKKAKYKAREAALKAQSERK 84
>1zu1_A DSRBP-ZFA, RNA binding protein ZFA; zinc finger protein,
helix-loop-helix, helix-turn-helix; NMR {Xenopus laevis}
SCOP: g.37.1.4 g.37.1.4
Length = 127
Score = 36.1 bits (82), Expect = 0.001
Identities = 14/75 (18%), Positives = 25/75 (33%), Gaps = 2/75 (2%)
Query: 95 YQSYLRRKRVKSLQANGTEES--DIATDATDEIDEEEEDNEELYCRVCDQWFTTLHNKRE 152
YQS +V+ A E + + ++ C VC+ F++
Sbjct: 52 YQSRKHANKVRRYMAINQGEDSVPAKKFKAAPAEISDGEDRSKCCPVCNMTFSSPVVAES 111
Query: 153 HLNGRQHFQRFDRRN 167
H G+ H + R
Sbjct: 112 HYIGKTHIKNLRLRE 126
Score = 32.6 bits (73), Expect = 0.020
Identities = 10/62 (16%), Positives = 20/62 (32%), Gaps = 3/62 (4%)
Query: 108 QANGTEESDIATDATDEIDEEEEDNE---ELYCRVCDQWFTTLHNKREHLNGRQHFQRFD 164
+ + D+ E++ + C+VC + K H R+H +
Sbjct: 3 EFGNGDALDLPVGKDAVNSLIRENSHIFSDTQCKVCSAVLISESQKLAHYQSRKHANKVR 62
Query: 165 RR 166
R
Sbjct: 63 RY 64
>2e6o_A HMG box-containing protein 1; HMG-box domain, HMG-box
transcription factor 1, high mobility group box
transcription factor 1, structural genomics; NMR {Homo
sapiens}
Length = 87
Score = 33.9 bits (78), Expect = 0.004
Identities = 7/34 (20%), Positives = 18/34 (52%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 49
++ +LG+ W K+ E+++Y A+ + +
Sbjct: 48 ISVILGDRWKKMKNEERRMYTLEAKALAEEQKRL 81
Score = 33.9 bits (78), Expect = 0.004
Identities = 7/34 (20%), Positives = 18/34 (52%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 85
++ +LG+ W K+ E+++Y A+ + +
Sbjct: 48 ISVILGDRWKKMKNEERRMYTLEAKALAEEQKRL 81
>1zr9_A Zinc finger protein 593; DNA binding, structural genomics, PSI,
protein structure initiative, center for eukaryotic
structural genomics, CESG; NMR {Homo sapiens} SCOP:
g.37.1.4
Length = 124
Score = 33.9 bits (77), Expect = 0.008
Identities = 10/50 (20%), Positives = 17/50 (34%)
Query: 113 EESDIATDATDEIDEEEEDNEELYCRVCDQWFTTLHNKREHLNGRQHFQR 162
+ D E D + C C ++F N + H + H +R
Sbjct: 29 GSARPQPDPNAEFDPDLPGGGLHRCLACARYFIDSTNLKTHFRSKDHKKR 78
>4a3n_A Transcription factor SOX-17; 2.40A {Homo sapiens}
Length = 71
Score = 32.9 bits (76), Expect = 0.008
Identities = 10/34 (29%), Positives = 23/34 (67%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 49
++K+LG W L+L EK+ +++ AE + ++ ++
Sbjct: 33 LSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQD 66
Score = 32.9 bits (76), Expect = 0.008
Identities = 10/34 (29%), Positives = 23/34 (67%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 85
++K+LG W L+L EK+ +++ AE + ++ ++
Sbjct: 33 LSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQD 66
>4dgw_A PRE-mRNA-splicing factor PRP9; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 402
Score = 34.8 bits (79), Expect = 0.008
Identities = 22/100 (22%), Positives = 41/100 (41%), Gaps = 11/100 (11%)
Query: 78 DKKRYREELKVYRKSDAYQSYLRR---------KRVKSLQANGTEESDIATD--ATDEID 126
D ++Y + RK+D Y ++L + + +L E+ I +D +
Sbjct: 225 DDEKYLLTPPMDRKNDRYMAFLLKLSKYVETFFFKSYALLDAAAVENLIKSDFEHSYCRG 284
Query: 127 EEEEDNEELYCRVCDQWFTTLHNKREHLNGRQHFQRFDRR 166
+ + +YC C +WF T HL G+ H + +R
Sbjct: 285 SLRSEAKGIYCPFCSRWFKTSSVFESHLVGKIHKKNESKR 324
>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 = 35.0 bits (80), Expect = 0.010
Identities = 16/70 (22%), Positives = 27/70 (38%), Gaps = 19/70 (27%)
Query: 82 YREELKVYRKSDAYQSYLRRKRVKSLQANGTEESDIATDATDEIDEEEEDNEELYCRVCD 141
Y EEL+ D YQ+Y V L + + E+ D E+++ + +
Sbjct: 169 YFEELR-----DLYQTY--HVLVGDL-------IKFSAETLSELIRTTLDAEKVFTQGLN 214
Query: 142 --QWFTTLHN 149
+W L N
Sbjct: 215 ILEW---LEN 221
Score = 26.9 bits (59), Expect = 4.4
Identities = 10/45 (22%), Positives = 15/45 (33%), Gaps = 11/45 (24%)
Query: 94 AYQSYLRRKRVKSLQANGTEESDIATDATDEIDEEEEDNEELYCR 138
A Q L+ + K L T+ D+E EL +
Sbjct: 30 ASQ--LQEQFNKILPE--------PTEGFAA-DDEPTTPAELVGK 63
>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 = 0.013
Identities = 26/177 (14%), Positives = 58/177 (32%), Gaps = 39/177 (22%)
Query: 2 DIESEKMISTTKLLVTKLLGNEWSK---LSLPEKKVYLD-RAEVDK-----KRYREELKV 52
D+ ++ L L + K +S+P +YL+ + +++ + + +
Sbjct: 398 DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS--IYLELKVKLENEYALHRSIVDHYNI 455
Query: 53 TKLLGNEWSKLSLPEKKVY--------LDRAEVDKKRYREELKVYRKSDAYQSY--LRRK 102
K + L P Y L E E + ++R + + L +K
Sbjct: 456 PKTF--DSDDLIPPYLDQYFYSHIGHHLKNIEHP-----ERMTLFRM--VFLDFRFLEQK 506
Query: 103 RVKSLQANGTEESDIATDATDEIDEEE-----EDNEELYCRVCDQWFTTLHNKREHL 154
++ + T + + + DN+ Y R+ + L E+L
Sbjct: 507 ----IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL 559
Score = 30.2 bits (67), Expect = 0.39
Identities = 23/147 (15%), Positives = 44/147 (29%), Gaps = 39/147 (26%)
Query: 36 LDRAEVDKKRY------REELKVT-KLLGNEWSKLSLPEKKVYLDR------AEVDKKRY 82
L+ AE +K + + LL W + + V +++ E K
Sbjct: 366 LEPAEY-RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES 424
Query: 83 REEL----KVYRKSDAYQSYLRRKRVKSLQANGTEESDIATDATDEIDEEEEDNEELYCR 138
+ + + L R V T +SD ++ D Y
Sbjct: 425 TISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSD-------DLIPPYLDQ---Y-- 472
Query: 139 VCDQWFTTL-HNKREHLNGRQHFQRFD 164
+++ + H HL +H +R
Sbjct: 473 ----FYSHIGH----HLKNIEHPERMT 491
>1wz6_A HMG-box transcription factor BBX; bobby SOX homolog, HMG_BOX
domain, structural genomics, NPPSFA, riken structural
genomics/proteomics initiative; NMR {Mus musculus}
Length = 82
Score = 32.2 bits (74), Expect = 0.015
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 49
TK+L + W+ L EK+ Y D A+ K + +
Sbjct: 38 ATKILADWWAVLDPKEKQKYTDMAKEYKDAFMKA 71
Score = 32.2 bits (74), Expect = 0.015
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 85
TK+L + W+ L EK+ Y D A+ K + +
Sbjct: 38 ATKILADWWAVLDPKEKQKYTDMAKEYKDAFMKA 71
>2lef_A LEF-1 HMG, protein (lymphoid enhancer-binding factor); LEF1, HMG,
TCR-A, transcription factor; HET: DNA; NMR {Mus
musculus} SCOP: a.21.1.1
Length = 86
Score = 32.2 bits (74), Expect = 0.015
Identities = 14/54 (25%), Positives = 26/54 (48%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVK 105
+ ++LG W LS E+ Y + A +++ + + + D Y +RKR K
Sbjct: 33 INQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK 86
Score = 29.9 bits (68), Expect = 0.10
Identities = 8/34 (23%), Positives = 18/34 (52%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 49
+ ++LG W LS E+ Y + A +++ + +
Sbjct: 33 INQILGRRWHALSREEQAKYYELARKERQLHMQL 66
>3u2b_C Transcription factor SOX-4; HMG domain, transcriptional regulation,
transcription-DNA CO; HET: DNA; 2.40A {Mus musculus}
Length = 79
Score = 32.2 bits (74), Expect = 0.017
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 7/52 (13%)
Query: 54 KLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVK 105
K LG W L +K ++ AE + ++ + Y+ Y RK+VK
Sbjct: 35 KRLGKRWKLLKDSDKIPFIQEAERLRLKHMADYPDYK-------YRPRKKVK 79
Score = 30.6 bits (70), Expect = 0.050
Identities = 8/32 (25%), Positives = 15/32 (46%)
Query: 18 KLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 49
K LG W L +K ++ AE + ++ +
Sbjct: 35 KRLGKRWKLLKDSDKIPFIQEAERLRLKHMAD 66
>1gt0_D Transcription factor SOX-2; POU factors, SOX proteins; 2.6A {Mus
musculus} SCOP: a.21.1.1 PDB: 2le4_A 1o4x_B
Length = 80
Score = 31.8 bits (73), Expect = 0.020
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 7/53 (13%)
Query: 54 KLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKS 106
K LG EW LS EK+ ++D A+ + + +E Y+ Y R++ K+
Sbjct: 35 KRLGAEWKLLSETEKRPFIDEAKRLRALHMKEHPDYK-------YRPRRKTKT 80
Score = 30.2 bits (69), Expect = 0.066
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 18 KLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 49
K LG EW LS EK+ ++D A+ + + +E
Sbjct: 35 KRLGAEWKLLSETEKRPFIDEAKRLRALHMKE 66
>1i11_A Transcription factor SOX-5; HMG BOX, DNA bending, DNA recognition,
chromatin, DNA binding protein, DNA sequence specific,
testis determining.; NMR {Mus musculus} SCOP: a.21.1.1
Length = 81
Score = 31.4 bits (72), Expect = 0.032
Identities = 14/50 (28%), Positives = 25/50 (50%), Gaps = 6/50 (12%)
Query: 54 KLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKR 103
K+LG+ W ++ EK+ Y + K++ E+ Y+ Y+ R KR
Sbjct: 37 KILGSRWKAMTNLEKQPYYEEQARLSKQHLEKYPDYK----YKP--RPKR 80
Score = 30.6 bits (70), Expect = 0.057
Identities = 9/32 (28%), Positives = 18/32 (56%)
Query: 18 KLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 49
K+LG+ W ++ EK+ Y + K++ E+
Sbjct: 37 KILGSRWKAMTNLEKQPYYEEQARLSKQHLEK 68
>3cw1_L U1 small nuclear ribonucleoprotein C; PRE-mRNA splicing,
spliceosome, RNA-binding domain, SM fold, finger, RNA
recognition motif, 5' splice site; 5.49A {Homo sapiens}
PDB: 1uw2_A 2vrd_A
Length = 77
Score = 30.7 bits (69), Expect = 0.043
Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 136 YCRVCDQWFT--TLHNKREHLNGRQH 159
YC CD + T + ++ H +GR+H
Sbjct: 5 YCDYCDTYLTHDSPSVRKTHCSGRKH 30
>1j46_A SRY, sex-determining region Y protein; MALE sex determining factor,
SRY, sex-reversal mutation; NMR {Homo sapiens} SCOP:
a.21.1.1 PDB: 1j47_A
Length = 85
Score = 31.0 bits (71), Expect = 0.043
Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKSLQ 108
++K LG +W L+ EK + A+ + +RE+ Y+ Y R++ K L
Sbjct: 35 ISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYK-------YRPRRKAKMLP 84
Score = 31.0 bits (71), Expect = 0.047
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 49
++K LG +W L+ EK + A+ + +RE+
Sbjct: 35 ISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREK 68
>1hry_A Human SRY; DNA, DNA-binding protein, DNA binding protein/DNA
complex; HET: DNA; NMR {Homo sapiens} SCOP: a.21.1.1
PDB: 1hrz_A*
Length = 76
Score = 30.6 bits (70), Expect = 0.049
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 18 KLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 49
K LG +W L+ EK + A+ + +RE+
Sbjct: 37 KQLGYQWKMLTEAEKWPFFQEAQKLQAMHREK 68
Score = 30.6 bits (70), Expect = 0.049
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 54 KLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 85
K LG +W L+ EK + A+ + +RE+
Sbjct: 37 KQLGYQWKMLTEAEKWPFFQEAQKLQAMHREK 68
>2dmi_A Teashirt homolog 3; zinc finger protein 537, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 115
Score = 31.3 bits (70), Expect = 0.055
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 127 EEEEDNEELY-CRVCDQWFTTLHNKREHLNGRQHFQ 161
E +ED +++ C C F +L + H+ +H+Q
Sbjct: 72 EGKEDAQKVLKCMYCGHSFESLQDLSVHMIKTKHYQ 107
Score = 26.7 bits (58), Expect = 2.2
Identities = 8/34 (23%), Positives = 14/34 (41%)
Query: 137 CRVCDQWFTTLHNKREHLNGRQHFQRFDRRNCNC 170
C+ C + TL H+N H++ + N
Sbjct: 22 CKDCSAAYDTLVELTVHMNETGHYRDDNHETDNN 55
>3f27_D Transcription factor SOX-17; protein-DNA complex, HMG domain,
endodermal, activator, DNA- nucleus, transcription
regulation, transcrip complex; HET: DNA; 2.75A {Mus
musculus} PDB: 2yul_A
Length = 83
Score = 30.6 bits (70), Expect = 0.060
Identities = 10/34 (29%), Positives = 23/34 (67%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 49
++K+LG W L+L EK+ +++ AE + ++ ++
Sbjct: 37 LSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQD 70
Score = 30.6 bits (70), Expect = 0.060
Identities = 10/34 (29%), Positives = 23/34 (67%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 85
++K+LG W L+L EK+ +++ AE + ++ ++
Sbjct: 37 LSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQD 70
>2ywl_A Thioredoxin reductase related protein; uncharacterized conserved
protein, rossmann fold, structural genomics, NPPSFA;
HET: FAD; 1.60A {Thermus thermophilus} PDB: 2cvj_A*
Length = 180
Score = 31.7 bits (73), Expect = 0.067
Identities = 6/51 (11%), Positives = 14/51 (27%), Gaps = 6/51 (11%)
Query: 100 RRKRVKSLQANGTEESD---IATDAT-DEIDEEEEDNEELYCRVCDQWFTT 146
V++ G E+++ + T Y + T+
Sbjct: 86 GVFEVET--EEGVEKAERLLLCTHKDPTLPSLLGLTRRGAYIDTDEGGRTS 134
>4euw_A Transcription factor SOX-9; protein-DNA complex, HMG domain,
activator, DNA-binding, NUC transcription; HET: DNA;
2.77A {Homo sapiens}
Length = 106
Score = 30.4 bits (69), Expect = 0.085
Identities = 9/34 (26%), Positives = 22/34 (64%)
Query: 16 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 49
++K LG W L+ EK+ +++ AE + +++++
Sbjct: 60 LSKTLGKLWRLLNESEKRPFVEEAERLRVQHKKD 93
Score = 30.4 bits (69), Expect = 0.085
Identities = 9/34 (26%), Positives = 22/34 (64%)
Query: 52 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 85
++K LG W L+ EK+ +++ AE + +++++
Sbjct: 60 LSKTLGKLWRLLNESEKRPFVEEAERLRVQHKKD 93
>2k0r_A Thiol:disulfide interchange protein DSBD; immunoglobulin, mutant,
N-terminal domain, disulfide bond reductase; NMR
{Neisseria meningitidis serogroup B} PDB: 2k9f_B
Length = 128
Score = 29.3 bits (65), Expect = 0.35
Identities = 6/43 (13%), Positives = 15/43 (34%)
Query: 46 YREELKVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKV 88
Y+ ++ + + S + + D + Y E +V
Sbjct: 39 YQAKIVGKTNPADLLGQPSFSKGEEKEDEFFGRQTVYHHEAQV 81
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.0 bits (61), Expect = 0.99
Identities = 10/48 (20%), Positives = 16/48 (33%), Gaps = 18/48 (37%)
Query: 67 EKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKSLQANGTEE 114
EK+ + K+ + LK+Y A +L T E
Sbjct: 18 EKQ------AL--KKLQASLKLYADDSA----------PALAIKATME 47
>2k16_A Transcription initiation factor TFIID subunit 3; protein,
alternative splicing, metal-binding, nucleus,
phosphoprotein, transcription regulation; NMR {Mus
musculus} PDB: 2k17_A*
Length = 75
Score = 26.7 bits (59), Expect = 1.1
Identities = 5/22 (22%), Positives = 10/22 (45%)
Query: 121 ATDEIDEEEEDNEELYCRVCDQ 142
A + +E N+ C C++
Sbjct: 5 AMAYVIRDEWGNQIWICPGCNK 26
>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD
domain, ING1-like protein, DNA binding protein, NPPSFA;
NMR {Mus musculus} SCOP: g.50.1.2
Length = 91
Score = 26.6 bits (58), Expect = 2.1
Identities = 8/25 (32%), Positives = 13/25 (52%), Gaps = 1/25 (4%)
Query: 118 ATDATDEIDEEEEDNEELYCRVCDQ 142
+ +D +D + NE YC +C Q
Sbjct: 20 SVHPSDVLDMPVDPNEPTYC-LCHQ 43
>2ej4_A Zinc finger protein ZIC 3; ZF-C2H2 domain, zinc binding, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 95
Score = 26.1 bits (57), Expect = 3.0
Identities = 12/57 (21%), Positives = 22/57 (38%), Gaps = 13/57 (22%)
Query: 126 DEEEEDNEELYCR------------VCDQWFTTLHNKREHLNGRQHFQRFDRRNCNC 170
+ +EL C+ CD+ F+T+H H+ +H ++ N C
Sbjct: 5 SSGQPIKQELSCKWIDEAQLSRPKKSCDRTFSTMHELVTHVT-MEHVGGPEQNNHVC 60
>1wir_A Protein arginine N-methyltransferase 3; C2H2 zinc finger domain,
PRMT3, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: g.37.1.5
Length = 121
Score = 26.1 bits (57), Expect = 4.4
Identities = 7/38 (18%), Positives = 10/38 (26%)
Query: 123 DEIDEEEEDNEELYCRVCDQWFTTLHNKREHLNGRQHF 160
E + C CD+ F + H F
Sbjct: 4 GSSGEPAHGRQHTPCLFCDRLFASAEETFSHCKLEHQF 41
>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS),
leukemia, transcription regulation; NMR {Homo sapiens}
SCOP: g.44.1.1
Length = 56
Score = 24.6 bits (54), Expect = 5.5
Identities = 5/17 (29%), Positives = 8/17 (47%)
Query: 129 EEDNEELYCRVCDQWFT 145
EE+ + L C+ C
Sbjct: 1 EEEFQFLRCQQCQAEAK 17
>1l8y_A Upstream binding factor 1; HUBF, HMG box 5, DNA binding domain, DNA
binding protein; NMR {Homo sapiens} SCOP: a.21.1.1 PDB:
1l8z_A 2hdz_A
Length = 91
Score = 25.3 bits (54), Expect = 6.5
Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 6/69 (8%)
Query: 35 YLDRAEVDKKRYREELKVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDA 94
YL R + D+ + + +++T W+ + EK +++ +A D+KRY EL R A
Sbjct: 23 YLARFKNDRVKALKAMEMT------WNNMEKKEKLMWIKKAAEDQKRYERELSEMRAPPA 76
Query: 95 YQSYLRRKR 103
+ ++
Sbjct: 77 ATNSSKKLE 85
>1izm_A Hypothetical protein HI0817; structural genomics, YGFB, structure 2
function project, S2F, unknown function; 1.95A
{Haemophilus influenzae} SCOP: a.199.1.1
Length = 184
Score = 25.4 bits (55), Expect = 8.8
Identities = 11/40 (27%), Positives = 16/40 (40%), Gaps = 2/40 (5%)
Query: 115 SDIATDATDEIDEEEEDNEEL--YCRVCDQWFTTLHNKRE 152
+ D D +E E EE+ Y R F + N+ E
Sbjct: 137 CQLGYDEDDNEEELAEALEEIIEYVRTIAMLFYSHFNEGE 176
>1g5h_A Mitochondrial DNA polymerase accessory subunit; intermolecular four
helix bundle, DNA binding protein; 1.95A {Mus musculus}
SCOP: c.51.1.1 d.104.1.1 PDB: 1g5i_A 2g4c_A* 3ikm_B*
Length = 454
Score = 25.8 bits (56), Expect = 9.1
Identities = 3/45 (6%), Positives = 9/45 (20%)
Query: 126 DEEEEDNEELYCRVCDQWFTTLHNKREHLNGRQHFQRFDRRNCNC 170
+ + R W+ + + R+
Sbjct: 203 TRTSSQWLDFWLRHRLLWWRKFAMSPSNFSSADCQDELGRKGSKL 247
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
0.314 0.131 0.376
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,614,114
Number of extensions: 147189
Number of successful extensions: 462
Number of sequences better than 10.0: 1
Number of HSP's gapped: 452
Number of HSP's successfully gapped: 123
Length of query: 170
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 83
Effective length of database: 4,272,666
Effective search space: 354631278
Effective search space used: 354631278
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (24.6 bits)