RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1990
(382 letters)
>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 = 67.9 bits (166), Expect = 6e-14
Identities = 25/124 (20%), Positives = 45/124 (36%), Gaps = 30/124 (24%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLILL--------- 51
++K LG +W L+ EK + A+ + +RE+ Y+
Sbjct: 35 ISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRKGETKKKFKDPNAPKRPPS 94
Query: 52 -FF--------------------QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 90
FF V K LG W+ + +K+ Y +A K++Y +++
Sbjct: 95 AFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIA 154
Query: 91 VYRK 94
YR
Sbjct: 155 AYRA 158
Score = 42.5 bits (100), Expect = 5e-05
Identities = 11/48 (22%), Positives = 22/48 (45%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQ 99
+++K LG +W L+ EK + A+ + +RE+ Y+
Sbjct: 32 NSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRKGET 79
>3tq6_A Transcription factor A, mitochondrial; transcription, transcription
regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo
sapiens}
Length = 214
Score = 69.0 bits (168), Expect = 9e-14
Identities = 26/158 (16%), Positives = 55/158 (34%), Gaps = 49/158 (31%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLI----------- 49
+ + + W +L +KK+Y D + + Y+EE+ +++ +
Sbjct: 40 LIRRIAQRWRELPDSKKKIYQDAYRAEWQVYKEEISRFKEQLTPSQIMSLEKEIMDKHLK 99
Query: 50 -----------------------LLFFQ-------------VTKLLGNEWSKLSLPEKKV 73
++ K + W LS EK++
Sbjct: 100 RKAMTKKKELTLLGKPKRPRSAYNVYVAERFQEAKGDSPQEKLKTVKENWKNLSDSEKEL 159
Query: 74 YLDRAEVDKKRYREELKVYRKS--DAYQSYLRRKRVKK 109
Y+ A+ D+ RY E+K + + + + L R+ +KK
Sbjct: 160 YIQHAKEDETRYHNEMKSWEEQMIEVGRKDLLRRTIKK 197
Score = 45.5 bits (107), Expect = 7e-06
Identities = 10/62 (16%), Positives = 28/62 (45%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKKIQ 111
++ + + W +L +KK+Y D + + Y+EE+ +++ + ++ +
Sbjct: 37 TTELIRRIAQRWRELPDSKKKIYQDAYRAEWQVYKEEISRFKEQLTPSQIMSLEKEIMDK 96
Query: 112 HH 113
H
Sbjct: 97 HL 98
>1k99_A Upstream binding factor 1; alpha-helix, L-shape, DNA binding
protein; NMR {Homo sapiens} SCOP: a.21.1.1
Length = 99
Score = 62.4 bits (152), Expect = 1e-12
Identities = 12/62 (19%), Positives = 26/62 (41%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKKIQ 111
+TK+L ++ +L +K Y+ + +K+ + L +R+ +K
Sbjct: 38 NLDLTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQNAKKLEHHHH 97
Query: 112 HH 113
HH
Sbjct: 98 HH 99
Score = 52.8 bits (127), Expect = 4e-09
Identities = 9/47 (19%), Positives = 22/47 (46%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSY 47
+TK+L ++ +L +K Y+ + +K+ + L +R+
Sbjct: 41 LTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQ 87
>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 = 65.6 bits (159), Expect = 2e-12
Identities = 26/158 (16%), Positives = 55/158 (34%), Gaps = 49/158 (31%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLI----------- 49
+ + + W +L +KK+Y D + + Y+EE+ +++ +
Sbjct: 72 LIRRIAQRWRELPDSKKKIYQDAYRAEWQVYKEEISRFKEQLTPSQIMSLEKEIMDKHLK 131
Query: 50 -----------------------LLFFQ-------------VTKLLGNEWSKLSLPEKKV 73
++ K + W LS EK++
Sbjct: 132 RKAMTKKKELTLLGKPKRPRSAYNVYVAERFQEAKGDSPQEKLKTVKENWKNLSDSEKEL 191
Query: 74 YLDRAEVDKKRYREELKVYRKS--DAYQSYLRRKRVKK 109
Y+ A+ D+ RY E+K + + + + L R+ +KK
Sbjct: 192 YIQHAKEDETRYHNEMKSWEEQMIEVGRKDLLRRTIKK 229
Score = 41.7 bits (97), Expect = 2e-04
Identities = 10/62 (16%), Positives = 28/62 (45%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKKIQ 111
++ + + W +L +KK+Y D + + Y+EE+ +++ + ++ +
Sbjct: 69 TTELIRRIAQRWRELPDSKKKIYQDAYRAEWQVYKEEISRFKEQLTPSQIMSLEKEIMDK 128
Query: 112 HH 113
H
Sbjct: 129 HL 130
>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box
domain, structural genomics, NPPSFA; NMR {Mus musculus}
Length = 102
Score = 59.7 bits (145), Expect = 1e-11
Identities = 18/54 (33%), Positives = 29/54 (53%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRK 105
F +V+K++ + W L +K+VY + E KK Y ++L YR S +SY
Sbjct: 45 FGEVSKIVASMWDGLGEEQKQVYKKKTEAAKKEYLKQLAAYRASLVSKSYTDSG 98
Score = 58.6 bits (142), Expect = 3e-11
Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSY 47
V+K++ + W L +K+VY + E KK Y ++L YR S +SY
Sbjct: 48 VSKIVASMWDGLGEEQKQVYKKKTEAAKKEYLKQLAAYRASLVSKSY 94
>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 = 61.9 bits (150), Expect = 1e-11
Identities = 28/124 (22%), Positives = 43/124 (34%), Gaps = 30/124 (24%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLI----------- 49
+K W +S EK + D A+ DK RY E+K Y
Sbjct: 48 FSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPS 107
Query: 50 --LLFFQ-----------------VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELK 90
LF V K LG W+ + +K+ Y +A K++Y +++
Sbjct: 108 AFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIA 167
Query: 91 VYRK 94
YR
Sbjct: 168 AYRA 171
Score = 28.8 bits (64), Expect = 2.2
Identities = 15/57 (26%), Positives = 22/57 (38%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVK 108
F + +K W +S EK + D A+ DK RY E+K Y +
Sbjct: 45 FSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGETKKKFKDPNA 101
>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 = 58.9 bits (143), Expect = 2e-11
Identities = 25/54 (46%), Positives = 37/54 (68%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRK 105
F ++TK+LG EWSKL EK+ YLD AE +K++Y +EL Y++S+AY+
Sbjct: 35 FPEITKMLGAEWSKLQPAEKQRYLDEAEKEKQQYLKELWAYQQSEAYKVCTESG 88
Score = 57.8 bits (140), Expect = 5e-11
Identities = 24/47 (51%), Positives = 35/47 (74%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSY 47
+TK+LG EWSKL EK+ YLD AE +K++Y +EL Y++S+AY+
Sbjct: 38 ITKMLGAEWSKLQPAEKQRYLDEAEKEKQQYLKELWAYQQSEAYKVC 84
>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 = 55.8 bits (135), Expect = 2e-10
Identities = 19/44 (43%), Positives = 27/44 (61%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDA 97
QV K LG +W L+ EK+ Y +A+ DKKRY E ++Y + A
Sbjct: 50 QVGKKLGEKWKALTPEEKQPYEAKAQADKKRYESEKELYNATLA 93
Score = 55.4 bits (134), Expect = 4e-10
Identities = 18/43 (41%), Positives = 26/43 (60%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDA 43
V K LG +W L+ EK+ Y +A+ DKKRY E ++Y + A
Sbjct: 51 VGKKLGEKWKALTPEEKQPYEAKAQADKKRYESEKELYNATLA 93
>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1
Length = 83
Score = 53.8 bits (130), Expect = 8e-10
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 95
F + +K W +S EK + D A+ DK RY E+K Y
Sbjct: 37 FSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPP 80
Score = 53.1 bits (128), Expect = 2e-09
Identities = 14/41 (34%), Positives = 19/41 (46%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 41
+K W +S EK + D A+ DK RY E+K Y
Sbjct: 40 FSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPP 80
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 92
Score = 54.4 bits (131), Expect = 9e-10
Identities = 13/49 (26%), Positives = 22/49 (44%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQS 100
T + W LS EK Y ++A D +RY ++K + ++ S
Sbjct: 35 LEDATLQIEELWKTLSEEEKLKYEEKATKDLERYNSQMKRAIEQESQMS 83
Score = 52.8 bits (127), Expect = 2e-09
Identities = 13/46 (28%), Positives = 22/46 (47%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQS 46
T + W LS EK Y ++A D +RY ++K + ++ S
Sbjct: 38 ATLQIEELWKTLSEEEKLKYEEKATKDLERYNSQMKRAIEQESQMS 83
>3fgh_A Transcription factor A, mitochondrial; HMG domain, mitochondrial
transcription, activator, DNA- binding, mitochondrion,
phosphoprotein; 1.35A {Homo sapiens}
Length = 67
Score = 53.4 bits (129), Expect = 9e-10
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVY 92
+ K + W LS EK++Y+ A+ D+ RY E+K +
Sbjct: 28 EKLKTVKENWKNLSDSEKELYIQHAKEDETRYHNEMKSW 66
Score = 53.4 bits (129), Expect = 9e-10
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVY 38
K + W LS EK++Y+ A+ D+ RY E+K +
Sbjct: 29 KLKTVKENWKNLSDSEKELYIQHAKEDETRYHNEMKSW 66
>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 = 53.4 bits (129), Expect = 1e-09
Identities = 12/41 (29%), Positives = 22/41 (53%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRK 94
V K LG W+ + +K+ Y +A K++Y +++ YR
Sbjct: 36 DVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRA 76
Score = 52.6 bits (127), Expect = 2e-09
Identities = 12/40 (30%), Positives = 22/40 (55%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRK 40
V K LG W+ + +K+ Y +A K++Y +++ YR
Sbjct: 37 VAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRA 76
>2lhj_A High mobility group protein homolog NHP1; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; NMR {Babesia bovis}
Length = 97
Score = 53.5 bits (129), Expect = 2e-09
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 95
+ K++G W+ LS EKK Y ++ D+ RY E Y +
Sbjct: 52 VAAIGKMIGAAWNALSDEEKKPYERMSDEDRVRYEREKAEYAQR 95
Score = 52.8 bits (127), Expect = 3e-09
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 41
+ K++G W+ LS EKK Y ++ D+ RY E Y +
Sbjct: 55 IGKMIGAAWNALSDEEKKPYERMSDEDRVRYEREKAEYAQR 95
>2eqz_A High mobility group protein B3; HMG-box domain, mobility group
protein 2A, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 86
Score = 52.0 bits (125), Expect = 5e-09
Identities = 14/41 (34%), Positives = 21/41 (51%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVY 92
F + +K W +S EK + + A+ DK RY E+K Y
Sbjct: 45 FAEFSKKCSERWKTMSGKEKSKFDEMAKADKVRYDREMKDY 85
Score = 50.8 bits (122), Expect = 1e-08
Identities = 13/38 (34%), Positives = 19/38 (50%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVY 38
+K W +S EK + + A+ DK RY E+K Y
Sbjct: 48 FSKKCSERWKTMSGKEKSKFDEMAKADKVRYDREMKDY 85
>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 = 51.8 bits (124), Expect = 9e-09
Identities = 13/56 (23%), Positives = 27/56 (48%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKK 109
+ +G+ W ++S +K+ Y AE +++Y+ L ++ KS + Q K
Sbjct: 36 ERMVEIGSRWQRISQSQKEHYKKLAEEQQRQYKVHLDLWVKSLSPQDRAAYKEYIS 91
Score = 49.9 bits (119), Expect = 4e-08
Identities = 12/51 (23%), Positives = 25/51 (49%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLILL 51
+G+ W ++S +K+ Y AE +++Y+ L ++ KS + Q
Sbjct: 37 RMVEIGSRWQRISQSQKEHYKKLAEEQQRQYKVHLDLWVKSLSPQDRAAYK 87
>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 = 50.8 bits (122), Expect = 9e-09
Identities = 15/41 (36%), Positives = 21/41 (51%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVY 92
F + +K W +S EK + D A+ DK RY E+K Y
Sbjct: 31 FSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTY 71
Score = 49.7 bits (119), Expect = 2e-08
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVY 38
+K W +S EK + D A+ DK RY E+K Y
Sbjct: 34 FSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTY 71
>1wxl_A Single-strand recognition protein; FACT, SSRP1, HMG, DNA binding
protein; NMR {Drosophila melanogaster}
Length = 73
Score = 50.4 bits (121), Expect = 1e-08
Identities = 13/44 (29%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 FFQVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 95
++ K G W +L +K + D A DK+RY +E++ Y+
Sbjct: 31 VTEIAKKGGEMWKELK--DKSKWEDAAAKDKQRYHDEMRNYKPE 72
Score = 49.2 bits (118), Expect = 3e-08
Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 41
+ K G W +L +K + D A DK+RY +E++ Y+
Sbjct: 34 IAKKGGEMWKELK--DKSKWEDAAAKDKQRYHDEMRNYKPE 72
>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 = 50.0 bits (120), Expect = 2e-08
Identities = 9/42 (21%), Positives = 17/42 (40%), Gaps = 2/42 (4%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 95
+V K G W + +K + +A K Y +K + +
Sbjct: 33 EVAKRGGELWRAMK--DKSEWEAKAAKAKDDYDRAVKEFEAN 72
Score = 49.2 bits (118), Expect = 3e-08
Identities = 9/41 (21%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 41
V K G W + +K + +A K Y +K + +
Sbjct: 34 VAKRGGELWRAMK--DKSEWEAKAAKAKDDYDRAVKEFEAN 72
>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 = 48.8 bits (116), Expect = 9e-08
Identities = 15/60 (25%), Positives = 25/60 (41%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKKIQHH 113
+ L +W LS EK Y + + KK Y EL + +S + R +K+ +
Sbjct: 43 ERMVLCSQQWKLLSQKEKDAYHKKCDQKKKDYEVELLRFLESLPEEEQQRVLGEEKMLNI 102
Score = 45.7 bits (108), Expect = 1e-06
Identities = 14/51 (27%), Positives = 21/51 (41%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLILL 51
L +W LS EK Y + + KK Y EL + +S + +L
Sbjct: 44 RMVLCSQQWKLLSQKEKDAYHKKCDQKKKDYEVELLRFLESLPEEEQQRVL 94
>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 = 52.4 bits (125), Expect = 2e-07
Identities = 79/490 (16%), Positives = 146/490 (29%), Gaps = 207/490 (42%)
Query: 10 SKLSLPEKKVYLD--RAEVDKK---RYREELKVYRKSDAYQSYLILLFFQVTKLLGNEWS 64
+ L K +L + V+ ++ + L L L F+ L GN+
Sbjct: 56 TPAELVGK--FLGYVSSLVEPSKVGQFDQVLN-----------LCLTEFENCYLEGNDIH 102
Query: 65 KL--SLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKKIQHHCLTAKVFSG 122
L L ++ + + K +E +K Y + + KR + + +F
Sbjct: 103 ALAAKLLQE----NDTTLVKT--KELIKNY-----ITARIMAKRPFDKKS---NSALFRA 148
Query: 123 TSEGRDSGTYKTRGGLQANGT---EE------------SDIATDATD---EIDEEEEDNE 164
EG ++ GG Q N EE D+ + + E+ D E
Sbjct: 149 VGEG-NAQLVAIFGG-QGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAE 206
Query: 165 ELYCRVCD--QWFTTLHNKREH--------------LNG--------------------- 187
+++ + + +W L N L G
Sbjct: 207 KVFTQGLNILEW---LENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGEL 263
Query: 188 RQHFQAVEQSGH-------LAVNESNSCLSLDESSLDA--------------APSRTLPN 226
R + + +GH +A+ E++S S S A P+ +LP
Sbjct: 264 RSYLKGA--TGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPP 321
Query: 227 QL----------PPSPPPLTMEDNIASVVRTMIDQNKEIQLLRSKMKSLQEKRLKK-NAY 275
+ PSP M S+ + +E Q+ + + K N++
Sbjct: 322 SILEDSLENNEGVPSP----M----LSI----SNLTQE-QV---------QDYVNKTNSH 359
Query: 276 VYFFPFLSRPEQR-------NS------TAP---LQNEKSARETAQAEKGIRSAQATGIE 319
+ P + N + P L A+A G+ ++
Sbjct: 360 L--------PAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRI---- 407
Query: 320 PVSKSSEDFALNRGDRKVH----------PVH---LERAC-LVLTHRVRNVTRWVSESSS 365
P S+ RK+ P H L A L+ V+N + ++
Sbjct: 408 PFSE-----------RKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSF---NAK 453
Query: 366 NLEYFPSYRT 375
+++ P Y T
Sbjct: 454 DIQ-IPVYDT 462
Score = 40.4 bits (94), Expect = 9e-04
Identities = 76/449 (16%), Positives = 120/449 (26%), Gaps = 186/449 (41%)
Query: 31 YREEL-KVYRKSDAYQSYLILLFFQVTKLLGNEWSKLSLPEKKVY---------LDRAEV 80
Y EEL +Y Y + L + L +E + +L +KV+ L+
Sbjct: 169 YFEELRDLY---QTYHVLVGDLIKFSAETL-SELIRTTLDAEKVFTQGLNILEWLENPS- 223
Query: 81 DKKRYREELKVYRKSDAYQSYLRRKRV--KKI---Q--HHCLTAKVFSGTSEG--RD--S 129
D + YL + I Q H+ +TAK+ G + G R
Sbjct: 224 ------------NTPD--KDYLLSIPISCPLIGVIQLAHYVVTAKL-LGFTPGELRSYLK 268
Query: 130 GTYKTRGGL------QANGTEES--DIATDA--------------------TDEIDEEEE 161
G GL + ES A I E+
Sbjct: 269 GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSL 328
Query: 162 DNEE------LYCRVCDQWFTTLH----NKR----EHL-----NGRQHFQAVEQSGHLAV 202
+N E L Q + N + + NG ++ V SG
Sbjct: 329 ENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNL-VV--SGPPQ- 384
Query: 203 NESNSCLSLDESSLDAAPSRTLPNQL--PPSPPPLTMEDNIASVVRTMIDQNKEIQLLRS 260
SL L L +P L DQ++ + S
Sbjct: 385 ------------SLYG-----LNLTLRKAKAPSGL--------------DQSR---IPFS 410
Query: 261 KMKSLQEKRLKKNAYVYFFPFLSRPEQRNSTAP-----LQNEKSARETAQAEKGIR-SAQ 314
+ K R FL P +P L + + +A+
Sbjct: 411 ERKLKFSNR-----------FL--P----VASPFHSHLLVPASDLINKDLVKNNVSFNAK 453
Query: 315 ATGIEPV--SKSSEDFALNRGD--RKV------HPVHLERACL----------------- 347
I PV + D + G ++ PV E
Sbjct: 454 DIQI-PVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGL 512
Query: 348 -VLTHRVRNVT--RWVS----ESSSNLEY 369
VLTHR ++ T R + + + + +Y
Sbjct: 513 GVLTHRNKDGTGVRVIVAGTLDINPDDDY 541
Score = 36.6 bits (84), Expect = 0.017
Identities = 40/259 (15%), Positives = 82/259 (31%), Gaps = 93/259 (35%)
Query: 146 SDIATDATDEI--DEEEEDNEELYCRVCDQWFTTLHNKREHLNGRQHFQAVEQSGHLAVN 203
+ I + T+ D+E EL + F L +++ VE S V
Sbjct: 38 NKILPEPTEGFAADDEPTTPAELVGK-----F--LG----YVS-----SLVEPS---KVG 78
Query: 204 ESNSCLSLDESSLDAAPSRTLPNQLPPSPPPLTMEDNIASVVRTMIDQNKEIQLLRSKMK 263
+ + L+L L + L ++I ++ + Q + L+++K
Sbjct: 79 QFDQVLNL---CLTEFENCYLEG------------NDIHALAAKL-LQENDTTLVKTK-- 120
Query: 264 SLQEKRLKKNAYVYFFPFLSRPEQRNSTAPL---QNEKSAR------------------- 301
+ +K Y+ RP + S + L E +A+
Sbjct: 121 ----ELIK--NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELR 174
Query: 302 ---ETAQAEKG--IRSAQATGIEPVSKSSEDFALNRGDRKVHPVHLERACLVLTHRVRNV 356
+T G I+ + T + + +++ D KV + N+
Sbjct: 175 DLYQTYHVLVGDLIKFSAET-LSELIRTTLDA------EKVFT------------QGLNI 215
Query: 357 TRWVSESSS--NLEYFPSY 373
W+ S+ + +Y S
Sbjct: 216 LEWLENPSNTPDKDYLLSI 234
>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 = 44.3 bits (105), Expect = 3e-06
Identities = 10/40 (25%), Positives = 17/40 (42%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYR 93
++T+LL W+ LS +K Y R K + +
Sbjct: 50 ELTRLLARMWNDLSEKKKAKYKAREAALKAQSERKSGPSS 89
Score = 43.5 bits (103), Expect = 5e-06
Identities = 10/39 (25%), Positives = 16/39 (41%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYR 39
+T+LL W+ LS +K Y R K + +
Sbjct: 51 LTRLLARMWNDLSEKKKAKYKAREAALKAQSERKSGPSS 89
>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 = 37.7 bits (87), Expect = 4e-04
Identities = 17/73 (23%), Positives = 31/73 (42%), Gaps = 3/73 (4%)
Query: 167 YCRVCDQWFT--TLHNKREHLNGRQHFQAVEQSGHLAVNESNSCLSLDESSLDAAPSRTL 224
YC CD + T + ++ H +GR+H + V+ + E L +D+++ +
Sbjct: 5 YCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYCKWMEEQAQSL-IDKTTAAFQQGKIP 63
Query: 225 PNQLPPSPPPLTM 237
P PP M
Sbjct: 64 PTPFSAPPPAGAM 76
>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 = 39.1 bits (90), Expect = 0.003
Identities = 55/304 (18%), Positives = 100/304 (32%), Gaps = 73/304 (24%)
Query: 40 KS----DAYQSYLIL--LFFQVTKL-LGNEWSKLSLPEK--KVYLDRAEVDKKRYREELK 90
K+ D SY + + F++ L L N S ++ E K+ R
Sbjct: 163 KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN 222
Query: 91 VYRKSDAYQSYLRRKRVKKIQHHCL----------TAKVFSG------TSEGRDSGTYKT 134
+ + + Q+ LRR K +CL F+ T+ R
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT--RFKQVTD- 279
Query: 135 RGGLQANGTEESDIATDATDEIDEEEEDNEELYCRVCDQWFTTL---------------- 178
+ + I+ D +E + L + D L
Sbjct: 280 ----FLSAATTTHISLDHHSMTLTPDE-VKSLLLKYLDCRPQDLPREVLTTNPRRLSIIA 334
Query: 179 HNKREHLNGRQHFQAVEQSGHLAVNESNSCLSLDESSLDAAPSRTLPNQL---PPSP--P 233
+ R+ L +++ V + ES SL+ L+ A R + ++L PPS P
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTIIES----SLN--VLEPAEYRKMFDRLSVFPPSAHIP 388
Query: 234 PLTME----DNIASVVRTMIDQNKEIQLLRSKMKSLQEKRLKKNAY-VYFFPFLSRPEQR 288
+ + D I S V ++++ L + SL EK+ K++ + + +
Sbjct: 389 TILLSLIWFDVIKSDVMVVVNK-----LHK---YSLVEKQPKESTISIPSIYLELKVKLE 440
Query: 289 NSTA 292
N A
Sbjct: 441 NEYA 444
Score = 34.4 bits (78), Expect = 0.063
Identities = 43/368 (11%), Positives = 101/368 (27%), Gaps = 89/368 (24%)
Query: 74 YLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKKIQHHCLTAKVFSGTSEGRDSGTYK 133
Y D V + + + D +S L ++ + I + S SGT +
Sbjct: 18 YKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHI--------IMSKD---AVSGTLR 66
Query: 134 TRGGLQANGTEESDIATDATDEID------------EEEEDNEELYCRVCD------QWF 175
L + E + I+ + +Y D Q F
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126
Query: 176 TTLHNKRE--HLNGRQHFQAVEQSGHLAVN----ESNSCLSLDESSLDAAPSRTLPNQL- 228
+ R +L RQ + + ++ ++ + ++L + L + ++
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVAL-DVCLSYKVQCKMDFKIF 185
Query: 229 ------PPSPPPL---------TMEDNIASVVRTMIDQNKEIQLLRSKMKSLQEKRLKKN 273
SP + ++ N S + I ++++++ L + + +N
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN 245
Query: 274 AY-----VY------FFPF------LSRPEQRNSTAPLQNEKSARETA-QAEKGIRSAQA 315
V F +R + T L + + + +
Sbjct: 246 CLLVLLNVQNAKAWNAFNLSCKILLTTR--FKQVTDFLSAATTTHISLDHHSMTLTPDEV 303
Query: 316 TGIEPVSK--SSEDFALNRGDRKVHPVHLERACLVLTHRVRN-VTRWVSESSSNLEYFPS 372
+ + K L R +P L ++ +R+ + W + +
Sbjct: 304 KSL--LLKYLDCRPQDLPREVLTTNPRRLS----IIAESIRDGLATW--------DNWKH 349
Query: 373 YRTQPFQR 380
Sbjct: 350 VNCDKLTT 357
Score = 31.4 bits (70), Expect = 0.63
Identities = 36/249 (14%), Positives = 80/249 (32%), Gaps = 54/249 (21%)
Query: 7 NEWSKLSLPEKKV-------YLDRAEVDKKRYREELKVYRKSDA---YQSYLIL---LFF 53
+ W ++ + L+ AE +K + + L V+ A ++ +
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEY-RKMF-DRLSVFPP-SAHIPTILLSLIWFDVIK 401
Query: 54 QVTKLLGNEWSKLSLPEKK----------VYLD-RAEVDKKRY--REELKVYRKSDAYQS 100
++ N+ K SL EK+ +YL+ + +++ + R + Y + S
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461
Query: 101 -YLRRKRVKK-----IQHHCLTAKVFSGTSEGRDSGTY--------KTR-GGLQANGTEE 145
L + + I HH + + R + K R N +
Sbjct: 462 DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRM--VFLDFRFLEQKIRHDSTAWNAS-- 517
Query: 146 SDIATDATDEIDEEE--EDNEELYCRVCDQWFTTLHNKREHLNGRQHFQAVEQSGHLAVN 203
I + DN+ Y R+ + L E+L ++ + +A+
Sbjct: 518 GSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL----RIALM 573
Query: 204 ESNSCLSLD 212
+ + +
Sbjct: 574 AEDEAIFEE 582
>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 = 36.2 bits (83), Expect = 0.004
Identities = 10/53 (18%), Positives = 19/53 (35%)
Query: 144 EESDIATDATDEIDEEEEDNEELYCRVCDQWFTTLHNKREHLNGRQHFQAVEQ 196
+ D E D + C C ++F N + H + H + ++Q
Sbjct: 29 GSARPQPDPNAEFDPDLPGGGLHRCLACARYFIDSTNLKTHFRSKDHKKRLKQ 81
>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 = 35.5 bits (82), Expect = 0.004
Identities = 7/35 (20%), Positives = 18/35 (51%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 88
++ +LG+ W K+ E+++Y A+ + +
Sbjct: 47 AISVILGDRWKKMKNEERRMYTLEAKALAEEQKRL 81
Score = 35.1 bits (81), Expect = 0.005
Identities = 7/34 (20%), Positives = 18/34 (52%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 34
++ +LG+ W K+ E+++Y A+ + +
Sbjct: 48 ISVILGDRWKKMKNEERRMYTLEAKALAEEQKRL 81
>4a3n_A Transcription factor SOX-17; 2.40A {Homo sapiens}
Length = 71
Score = 34.5 bits (80), Expect = 0.005
Identities = 10/35 (28%), Positives = 24/35 (68%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 88
+++K+LG W L+L EK+ +++ AE + ++ ++
Sbjct: 32 ELSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQD 66
Score = 34.1 bits (79), Expect = 0.008
Identities = 10/34 (29%), Positives = 23/34 (67%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 34
++K+LG W L+L EK+ +++ AE + ++ ++
Sbjct: 33 LSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQD 66
>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 = 34.1 bits (79), Expect = 0.009
Identities = 14/55 (25%), Positives = 26/55 (47%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVK 108
+ ++LG W LS E+ Y + A +++ + + + D Y +RKR K
Sbjct: 32 AINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK 86
Score = 31.4 bits (72), Expect = 0.089
Identities = 8/34 (23%), Positives = 18/34 (52%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 34
+ ++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 = 33.7 bits (78), Expect = 0.011
Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 7/55 (12%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVK 108
+++K LG W L +K ++ AE + ++ + Y+ Y RK+VK
Sbjct: 32 EISKRLGKRWKLLKDSDKIPFIQEAERLRLKHMADYPDYK-------YRPRKKVK 79
Score = 31.8 bits (73), Expect = 0.059
Identities = 8/32 (25%), Positives = 15/32 (46%)
Query: 3 KLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 34
K LG W L +K ++ AE + ++ +
Sbjct: 35 KRLGKRWKLLKDSDKIPFIQEAERLRLKHMAD 66
>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 = 33.7 bits (78), Expect = 0.013
Identities = 14/58 (24%), Positives = 28/58 (48%), Gaps = 7/58 (12%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKKIQ 111
+++K LG +W L+ EK + A+ + +RE+ Y+ Y R++ K +
Sbjct: 34 EISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYK-------YRPRRKAKMLP 84
Score = 32.2 bits (74), Expect = 0.049
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 34
++K LG +W L+ EK + A+ + +RE+
Sbjct: 35 ISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREK 68
>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 = 33.3 bits (77), Expect = 0.014
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 88
TK+L + W+ L EK+ Y D A+ K + +
Sbjct: 37 GATKILADWWAVLDPKEKQKYTDMAKEYKDAFMKA 71
Score = 33.0 bits (76), Expect = 0.019
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 34
TK+L + W+ L EK+ Y D A+ K + +
Sbjct: 38 ATKILADWWAVLDPKEKQKYTDMAKEYKDAFMKA 71
>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 = 32.9 bits (76), Expect = 0.026
Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 6/53 (11%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKR 106
++K+LG+ W ++ EK+ Y + K++ E+ Y+ Y+ R KR
Sbjct: 34 NISKILGSRWKAMTNLEKQPYYEEQARLSKQHLEKYPDYK----YKP--RPKR 80
Score = 31.4 bits (72), Expect = 0.072
Identities = 9/32 (28%), Positives = 18/32 (56%)
Query: 3 KLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 34
K+LG+ W ++ EK+ Y + K++ E+
Sbjct: 37 KILGSRWKAMTNLEKQPYYEEQARLSKQHLEK 68
>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 = 33.4 bits (75), Expect = 0.033
Identities = 10/61 (16%), Positives = 20/61 (32%), Gaps = 3/61 (4%)
Query: 139 QANGTEESDIATDATDEIDEEEEDNE---ELYCRVCDQWFTTLHNKREHLNGRQHFQAVE 195
+ + D+ E++ + C+VC + K H R+H V
Sbjct: 3 EFGNGDALDLPVGKDAVNSLIRENSHIFSDTQCKVCSAVLISESQKLAHYQSRKHANKVR 62
Query: 196 Q 196
+
Sbjct: 63 R 63
Score = 33.4 bits (75), Expect = 0.035
Identities = 13/66 (19%), Positives = 25/66 (37%), Gaps = 1/66 (1%)
Query: 132 YKTRGGLQANGTEESDIATDATDEI-DEEEEDNEELYCRVCDQWFTTLHNKREHLNGRQH 190
K R + N E+S A + + ++ C VC+ F++ H G+ H
Sbjct: 59 NKVRRYMAINQGEDSVPAKKFKAAPAEISDGEDRSKCCPVCNMTFSSPVVAESHYIGKTH 118
Query: 191 FQAVEQ 196
+ +
Sbjct: 119 IKNLRL 124
>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 = 32.2 bits (74), Expect = 0.039
Identities = 10/35 (28%), Positives = 24/35 (68%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 88
+++K+LG W L+L EK+ +++ AE + ++ ++
Sbjct: 36 ELSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQD 70
Score = 31.4 bits (72), Expect = 0.077
Identities = 10/34 (29%), Positives = 23/34 (67%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 34
++K+LG W L+L EK+ +++ AE + ++ ++
Sbjct: 37 LSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQD 70
>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 = 32.2 bits (74), Expect = 0.041
Identities = 12/35 (34%), Positives = 22/35 (62%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 88
+++K LG EW LS EK+ ++D A+ + + +E
Sbjct: 32 EISKRLGAEWKLLSETEKRPFIDEAKRLRALHMKE 66
Score = 31.4 bits (72), Expect = 0.077
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 3 KLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 34
K LG EW LS EK+ ++D A+ + + +E
Sbjct: 35 KRLGAEWKLLSETEKRPFIDEAKRLRALHMKE 66
>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 = 32.1 bits (74), Expect = 0.041
Identities = 10/35 (28%), Positives = 20/35 (57%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 88
+++K LG +W L+ EK + A+ + +RE+
Sbjct: 34 EISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREK 68
Score = 31.4 bits (72), Expect = 0.063
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 3 KLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 34
K LG +W L+ EK + A+ + +RE+
Sbjct: 37 KQLGYQWKMLTEAEKWPFFQEAQKLQAMHREK 68
>4dgw_A PRE-mRNA-splicing factor PRP9; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 402
Score = 34.8 bits (79), Expect = 0.042
Identities = 11/54 (20%), Positives = 22/54 (40%)
Query: 151 DATDEIDEEEEDNEELYCRVCDQWFTTLHNKREHLNGRQHFQAVEQSGHLAVNE 204
+ + + + +YC C +WF T HL G+ H + + + +E
Sbjct: 278 EHSYCRGSLRSEAKGIYCPFCSRWFKTSSVFESHLVGKIHKKNESKRRNFVYSE 331
>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 = 32.0 bits (73), Expect = 0.081
Identities = 9/35 (25%), Positives = 23/35 (65%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 88
+++K LG W L+ EK+ +++ AE + +++++
Sbjct: 59 ELSKTLGKLWRLLNESEKRPFVEEAERLRVQHKKD 93
Score = 31.2 bits (71), Expect = 0.13
Identities = 9/34 (26%), Positives = 22/34 (64%)
Query: 1 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREE 34
++K LG W L+ EK+ +++ AE + +++++
Sbjct: 60 LSKTLGKLWRLLNESEKRPFVEEAERLRVQHKKD 93
>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 = 31.7 bits (71), Expect = 0.11
Identities = 11/38 (28%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 158 EEEEDNEELY-CRVCDQWFTTLHNKREHLNGRQHFQAV 194
E +ED +++ C C F +L + H+ +H+Q V
Sbjct: 72 EGKEDAQKVLKCMYCGHSFESLQDLSVHMIKTKHYQKV 109
Score = 27.0 bits (59), Expect = 5.3
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 168 CRVCDQWFTTLHNKREHLNGRQHFQ 192
C+ C + TL H+N H++
Sbjct: 22 CKDCSAAYDTLVELTVHMNETGHYR 46
>3q6k_A 43.2 kDa salivary protein; beta propeller, binding protein,
serotonin, salivary gland, binding, ligand binging
protein; HET: CIT SRO; 2.52A {Lutzomyia longipalpis}
PDB: 3q6p_A* 3q6t_A*
Length = 381
Score = 33.2 bits (75), Expect = 0.15
Identities = 9/74 (12%), Positives = 23/74 (31%)
Query: 264 SLQEKRLKKNAYVYFFPFLSRPEQRNSTAPLQNEKSARETAQAEKGIRSAQATGIEPVSK 323
+L ++ + N Y+ + +T L+ + + A + K
Sbjct: 226 TLGDRDSEGNRPAYYLAGSAIKVYSVNTKELKQKGGKLNPELLGNRGKYNDAIALAYDPK 285
Query: 324 SSEDFALNRGDRKV 337
+ F ++V
Sbjct: 286 TKVIFFAEANTKQV 299
>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 = 29.4 bits (66), Expect = 0.32
Identities = 5/22 (22%), Positives = 10/22 (45%)
Query: 152 ATDEIDEEEEDNEELYCRVCDQ 173
A + +E N+ C C++
Sbjct: 5 AMAYVIRDEWGNQIWICPGCNK 26
>2d7l_A WD repeat and HMG-box DNA binding protein 1; high mobility group
box domain, helix-turn-helix, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 29.8 bits (66), Expect = 0.35
Identities = 9/41 (21%), Positives = 18/41 (43%)
Query: 55 VTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKS 95
+ K + LS E+KV+ ++A+ + E K +
Sbjct: 37 IIKEGMIRFRVLSTEERKVWANKAKGETASEGTEAKKRKSG 77
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.1 bits (69), Expect = 0.36
Identities = 11/41 (26%), Positives = 15/41 (36%), Gaps = 17/41 (41%)
Query: 204 ESNSCLSLDESSLDAAPSRTLPNQL--PPSPPPL----TME 238
E + L ++SL +L S P L TME
Sbjct: 18 EKQALKKL-QASL----------KLYADDSAPALAIKATME 47
>1fsh_A Dishevelled-1; three-helix bundle, beta-ARM, signaling protein; NMR
{Mus musculus} SCOP: a.4.5.31
Length = 105
Score = 29.9 bits (67), Expect = 0.49
Identities = 7/38 (18%), Positives = 21/38 (55%)
Query: 221 SRTLPNQLPPSPPPLTMEDNIASVVRTMIDQNKEIQLL 258
+ ++P PLT++ +++++VR M + +++
Sbjct: 1 TSSVPGAPQLEEAPLTVKSDMSAIVRVMQLPDSGLEIR 38
>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 = 30.2 bits (69), Expect = 0.80
Identities = 6/51 (11%), Positives = 10/51 (19%), Gaps = 10/51 (19%)
Query: 128 DSGTYKTRGGLQANGTEESDIATDAT-DEIDEEEEDNEELYCRVCDQWFTT 177
+ G K L + T Y + T+
Sbjct: 93 EEGVEKAERLL---------LCTHKDPTLPSLLGLTRRGAYIDTDEGGRTS 134
>2qpt_A EH domain-containing protein-2; protein-nucleotide complex,
membrane protein, endocytosis; HET: ANP; 3.10A {Mus
musculus}
Length = 550
Score = 30.5 bits (68), Expect = 1.00
Identities = 27/225 (12%), Positives = 59/225 (26%), Gaps = 23/225 (10%)
Query: 29 KRYREELKVYRKSDAYQSYLILLFFQVTKLLGNEW--SKLSLPEKKVYLDRAEVDKKRYR 86
++E+ + + LIL + + E S P+ + +
Sbjct: 319 SYLKKEMPTVFGKENKKKQLILKLPVIFAKIQLEHHISPGDFPDCQKMQELLMAHDFTKF 378
Query: 87 EELKVYRKSDAYQSYLRRKRVKKIQHHCLTAKVFSGTSEGRDSGTYKTRGGLQANGTEES 146
LK + + G + ++ E
Sbjct: 379 HSLKPKLLEALDDMLAQDIAKLMPLLRQEELESVEAGVAGGAFEGTRMGPFVERGPDEAI 438
Query: 147 DIATDATDEIDEEEEDNEELYCRVCDQWFTTLHNKREHLNGRQHFQAVEQSG-------- 198
+ + +++ E ++ D+ F L L+G + + +
Sbjct: 439 EDGEEGSEDDAEWVVTKDKSKY---DEIFYNLAPADGKLSGSKAKTWMVGTKLPNSVLGR 495
Query: 199 --HLAVNESNSCLSLDESSL------DAAPSRTLPNQLPPS--PP 233
L+ + + L +E +L LP LP PP
Sbjct: 496 IWKLSDVDRDGMLDDEEFALASHLIEAKLEGHGLPTNLPRRLVPP 540
>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 = 28.2 bits (62), Expect = 1.4
Identities = 10/44 (22%), Positives = 19/44 (43%), Gaps = 1/44 (2%)
Query: 130 GTYKTRGGLQANGTEESDIATDATDEIDEEEEDNEELYCRVCDQ 173
G+ + G + + + +D +D + NE YC +C Q
Sbjct: 1 GSSGSSGSPEYGMPSVTFGSVHPSDVLDMPVDPNEPTYC-LCHQ 43
>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 = 28.0 bits (61), Expect = 1.9
Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 54 QVTKLLGNEWSKLSLPEKKVYLDRAEVDKKRYREELKVYRKSDAYQSYLRRKRVKKIQHH 113
+ K + W+ + EK +++ +A D+KRY EL R A + K+++ HH
Sbjct: 33 KALKAMEMTWNNMEKKEKLMWIKKAAEDQKRYERELSEMRAPPAATN--SSKKLEHHHHH 90
>4ex5_A Lysine--tRNA ligase; structural genomics, niaid, national institute
of allergy AN infectious diseases; HET: LYS; 2.40A
{Burkholderia thailandensis}
Length = 529
Score = 29.1 bits (66), Expect = 2.6
Identities = 11/60 (18%), Positives = 24/60 (40%), Gaps = 3/60 (5%)
Query: 221 SRTLPNQLPPSPPPLTMEDNIASVVRTMIDQNKEIQLLRSKMKSLQEKRLKKNAYVYFFP 280
+ + P +M + I D+N+ + R K+++L++ + AY F
Sbjct: 6 HHHMGTLEAQTQGPGSMTEPIQPQAAVAADENQIVAERRDKLRALRD---QGIAYPNDFQ 62
>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 = 27.6 bits (61), Expect = 3.0
Identities = 7/38 (18%), Positives = 10/38 (26%)
Query: 154 DEIDEEEEDNEELYCRVCDQWFTTLHNKREHLNGRQHF 191
E + C CD+ F + H F
Sbjct: 4 GSSGEPAHGRQHTPCLFCDRLFASAEETFSHCKLEHQF 41
>2jmi_A Protein YNG1, ING1 homolog 1; PHD, histone, recognition, yeast,
protein binding; NMR {Saccharomyces cerevisiae} PDB:
2jmj_A*
Length = 90
Score = 27.0 bits (59), Expect = 3.0
Identities = 9/34 (26%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 142 GTEESDIATDATDE--IDEEEEDNEELYCRVCDQ 173
G S +A++ ++ + E + EE+YC C
Sbjct: 1 GPLGSHMASEFINQGDVTEGNNNQEEVYC-FCRN 33
>3i5p_A Nucleoporin NUP170; helical stack, membrane, mRNA transport,
nuclear pore complex, nucleus, phosphoprotein, protein
transport; 3.20A {Saccharomyces cerevisiae}
Length = 525
Score = 28.5 bits (63), Expect = 4.1
Identities = 21/156 (13%), Positives = 39/156 (25%), Gaps = 26/156 (16%)
Query: 20 YLDRAEVDKKRYREEL-KVYRKSDAYQSYLILLFFQVTKLLGNEWSKLSLPEKKVYLDRA 78
YL + L Y + + +L+ L ++L E+ +L RA
Sbjct: 208 YLMEKAGSSLKISNILWVYYSRRSKFFESAEILY-----RLATSNFDITLFERIEFLSRA 262
Query: 79 EVDKKRYREELKVYRKSDAYQSYLRRKRVKKIQHHCLTAKVFSGTSEGRDSGTYKTRGGL 138
+ R V IQ L+ +
Sbjct: 263 NGFCNSVSPLSQKQRIVQLASRIQDACEVAGIQGDILSL--------------------V 302
Query: 139 QANGTEESDIATDATDEIDEEEEDNEELYCRVCDQW 174
+ +S I + +D + EL+
Sbjct: 303 YTDARIDSAIKDELIKTLDGKILSTSELFNDFAVPL 338
>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 = 8.1
Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 13/55 (23%)
Query: 157 DEEEEDNEELYCR------------VCDQWFTTLHNKREHLNGRQHFQAVEQSGH 199
+ +EL C+ CD+ F+T+H H+ +H EQ+ H
Sbjct: 5 SSGQPIKQELSCKWIDEAQLSRPKKSCDRTFSTMHELVTHVT-MEHVGGPEQNNH 58
>1ykh_B RNA polymerase II holoenzyme component SRB7; gene regulation; 3.00A
{Saccharomyces cerevisiae} SCOP: a.252.1.1
Length = 132
Score = 26.5 bits (58), Expect = 8.5
Identities = 7/61 (11%), Positives = 20/61 (32%), Gaps = 6/61 (9%)
Query: 218 AAPSRTLPNQLPPSPPPLTMEDNIASVVRTMIDQNKEIQLLRSKM------KSLQEKRLK 271
+ ++ PP + I + +I + ++I L + Q +++
Sbjct: 36 TVNEPQMSDKHATVVPPEEFSNTIDELSTDIILKTRQINKLIDSLPGVDVSAEEQLRKID 95
Query: 272 K 272
Sbjct: 96 M 96
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
0.313 0.129 0.366
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,537,459
Number of extensions: 313042
Number of successful extensions: 720
Number of sequences better than 10.0: 1
Number of HSP's gapped: 706
Number of HSP's successfully gapped: 114
Length of query: 382
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 287
Effective length of database: 4,049,298
Effective search space: 1162148526
Effective search space used: 1162148526
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: 58 (26.0 bits)