RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12776
(435 letters)
>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 = 99.8 bits (249), Expect = 4e-26
Identities = 32/64 (50%), Positives = 45/64 (70%), Gaps = 2/64 (3%)
Query: 214 DAKDDDSVGSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSE 273
D D +S + + K RR+RTTFS SQLDELE+ F+++ YP + TRE LA +T+L+E
Sbjct: 2 DISDCES--EPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTE 59
Query: 274 ARVQ 277
AR+Q
Sbjct: 60 ARIQ 63
Score = 43.1 bits (102), Expect = 7e-06
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 343 VWFSNRRAKWRRHQR 357
VWF NRRA+ R+
Sbjct: 64 VWFQNRRARLRKQHT 78
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 99.0 bits (247), Expect = 8e-26
Identities = 29/52 (55%), Positives = 38/52 (73%)
Query: 226 GSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
GS +RNRT+F+ Q++ LEKEF+++HYP V RERLAAK L EAR+Q
Sbjct: 1 GSSGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQ 52
Score = 46.6 bits (111), Expect = 4e-07
Identities = 12/27 (44%), Positives = 19/27 (70%)
Query: 343 VWFSNRRAKWRRHQRMNLLKSRRANAA 369
VWFSNRRAKWRR +++ + + ++
Sbjct: 53 VWFSNRRAKWRREEKLRNQRRQSGPSS 79
>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 = 96.3 bits (240), Expect = 6e-25
Identities = 24/52 (46%), Positives = 32/52 (61%)
Query: 226 GSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
GS RR+RT F+ QL+ LE F ++ YP V TRE+LA K L E +V+
Sbjct: 1 GSSGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVE 52
Score = 43.1 bits (102), Expect = 6e-06
Identities = 11/17 (64%), Positives = 12/17 (70%)
Query: 343 VWFSNRRAKWRRHQRMN 359
VWF NRRAKWRR +
Sbjct: 53 VWFKNRRAKWRRSGPSS 69
>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 = 94.0 bits (234), Expect = 5e-24
Identities = 26/52 (50%), Positives = 33/52 (63%)
Query: 226 GSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
GS RR RTTF+ +QLD LE F K+ YP + RE +A K +L E+RVQ
Sbjct: 1 GSSGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQ 52
Score = 44.3 bits (105), Expect = 2e-06
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 343 VWFSNRRAKWRRHQRMNLLKSRRANAA 369
VWF NRRAK R+ Q+ + ++
Sbjct: 53 VWFKNRRAKCRQQQQQQQNGGQSGPSS 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 = 92.9 bits (231), Expect = 1e-23
Identities = 17/52 (32%), Positives = 27/52 (51%)
Query: 226 GSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
GS +R RT+F QL ++ F +H P ++LA KT L++ +Q
Sbjct: 1 GSSGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQ 52
Score = 43.6 bits (103), Expect = 5e-06
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 343 VWFSNRRAKWRRHQRMNLLKSRRANAA 369
VWF N RAK+RR+ ++
Sbjct: 53 VWFQNARAKFRRNLLRQENGGVSGPSS 79
>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 = 92.4 bits (230), Expect = 1e-23
Identities = 23/47 (48%), Positives = 32/47 (68%)
Query: 231 KFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
RR RT F+ QL +LE F ++ YP +STRE +A T+L+EARV+
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVR 48
Score = 44.2 bits (105), Expect = 2e-06
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 343 VWFSNRRAKWRRHQRMNL 360
VWF NRRAKWR+ + +
Sbjct: 49 VWFKNRRAKWRKREEFIV 66
>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 = 89.7 bits (223), Expect = 1e-22
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
RR RT F+ +Q++ LE F + YP + E LA K +L R+Q
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQ 46
Score = 43.5 bits (103), Expect = 4e-06
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 343 VWFSNRRAKWRRHQRMN 359
+WF NRRAK +R R +
Sbjct: 47 IWFQNRRAKLKRSHRES 63
>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 = 88.6 bits (220), Expect = 4e-22
Identities = 16/52 (30%), Positives = 24/52 (46%)
Query: 226 GSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
GS R +RT F+ QL L+ FD + YP E+L+ +L +
Sbjct: 1 GSSGSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIV 52
Score = 40.4 bits (95), Expect = 4e-05
Identities = 7/15 (46%), Positives = 8/15 (53%)
Query: 343 VWFSNRRAKWRRHQR 357
VWF N R K R+
Sbjct: 53 VWFQNARQKARKSGP 67
>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 = 86.1 bits (214), Expect = 2e-21
Identities = 24/43 (55%), Positives = 31/43 (72%)
Query: 235 NRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+ TF+ QL+ELEK F ++HYP V TRE LA K L+EAR+Q
Sbjct: 2 SHMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 44
Score = 45.7 bits (109), Expect = 5e-07
Identities = 10/16 (62%), Positives = 14/16 (87%)
Query: 343 VWFSNRRAKWRRHQRM 358
VWF NRRAKWR+ +++
Sbjct: 45 VWFQNRRAKWRKQEKV 60
>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 = 85.6 bits (212), Expect = 5e-21
Identities = 17/59 (28%), Positives = 28/59 (47%)
Query: 219 DSVGSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
S G G E + +R RTT +P QL+ L +++ P + +A + L + VQ
Sbjct: 4 GSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQ 62
Score = 39.0 bits (91), Expect = 2e-04
Identities = 7/15 (46%), Positives = 9/15 (60%)
Query: 343 VWFSNRRAKWRRHQR 357
VWF N RA+ R+
Sbjct: 63 VWFQNTRARERKSGP 77
>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 = 85.1 bits (211), Expect = 6e-21
Identities = 13/47 (27%), Positives = 20/47 (42%)
Query: 231 KFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
K R RT + QL L + + P +E+L T LS ++
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIR 48
Score = 43.5 bits (103), Expect = 4e-06
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 343 VWFSNRRAKWRRHQRM 358
VWF N+R K ++ M
Sbjct: 49 VWFQNKRCKDKKRSIM 64
>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 = 78.2 bits (193), Expect = 2e-18
Identities = 14/52 (26%), Positives = 25/52 (48%)
Query: 226 GSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
GS +R RT + QL L + FD ++ P + +A K+ L + ++
Sbjct: 1 GSSGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIK 52
Score = 38.5 bits (90), Expect = 2e-04
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 343 VWFSNRRAKWRRHQR 357
WF N K R+
Sbjct: 53 HWFRNTLFKERQSGP 67
>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 = 76.7 bits (189), Expect = 8e-18
Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSH-YPCVSTRERLAAKTSLSEARVQ 277
T + Q++ LE F+K + +P +T +AA+ L+E + Q
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 47
Score = 43.5 bits (103), Expect = 3e-06
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 343 VWFSNRRAKWRRHQRMN 359
WF R A+WRR + +
Sbjct: 48 KWFKQRLAEWRRSEGLP 64
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 74.8 bits (184), Expect = 3e-17
Identities = 12/46 (26%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSH-YPCVSTRERLAAKTSLSEARVQ 277
+ + + Q++ LE F+K + +P +T +AA+ L+E + Q
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 48
Score = 43.2 bits (102), Expect = 5e-06
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 343 VWFSNRRAKWRRHQRMN 359
WF R A+WRR + +
Sbjct: 49 KWFKQRLAEWRRSEGLP 65
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 73.6 bits (181), Expect = 9e-17
Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 225 SGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
SGS +N+ + QL L+ F ++ +P S E L T LS V+
Sbjct: 3 SGSSGASIYKNKKS--HEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVR 53
Score = 37.8 bits (88), Expect = 5e-04
Identities = 6/15 (40%), Positives = 8/15 (53%)
Query: 343 VWFSNRRAKWRRHQR 357
WFS+RR R +
Sbjct: 54 KWFSDRRYHCRNLKG 68
>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 = 70.8 bits (173), Expect = 2e-15
Identities = 14/67 (20%), Positives = 26/67 (38%), Gaps = 15/67 (22%)
Query: 226 GSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTS--------------- 270
GS R +R T+ L +E F+++ YP + RE +A +
Sbjct: 1 GSSGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLER 60
Query: 271 LSEARVQ 277
++ +V
Sbjct: 61 VTSLKVY 67
Score = 38.9 bits (90), Expect = 3e-04
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 342 SVWFSNRRAKWRRHQRM 358
WF+NRR + +R +
Sbjct: 67 YNWFANRRKEIKRRANI 83
>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 = 66.0 bits (161), Expect = 4e-14
Identities = 9/46 (19%), Positives = 20/46 (43%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQF 278
+ + Q+ L+ F +S +P + RL T L+ + ++
Sbjct: 5 HHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKK 50
Score = 32.8 bits (75), Expect = 0.023
Identities = 5/14 (35%), Positives = 8/14 (57%)
Query: 343 VWFSNRRAKWRRHQ 356
WFS+ R + +R
Sbjct: 50 KWFSDHRYRCQRGI 63
>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 = 67.0 bits (163), Expect = 2e-13
Identities = 14/65 (21%), Positives = 29/65 (44%)
Query: 214 DAKDDDSVGSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSE 273
+ + ++ G E K R+ RT+F+P ++ L F+K+ P +A + +
Sbjct: 75 NQEGQQNLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDR 134
Query: 274 ARVQF 278
V+
Sbjct: 135 EVVRV 139
Score = 35.4 bits (81), Expect = 0.013
Identities = 7/12 (58%), Positives = 8/12 (66%)
Query: 343 VWFSNRRAKWRR 354
VWFSNRR +
Sbjct: 139 VWFSNRRQTLKN 150
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 64.8 bits (157), Expect = 3e-13
Identities = 20/130 (15%), Positives = 40/130 (30%), Gaps = 44/130 (33%)
Query: 230 PKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQFLTIIPTPSHTY 289
K RRNR + P+ L + +++ P RE L + + +E + + +PS
Sbjct: 7 KKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGV----SPSQAQ 62
Query: 290 LPRIERNSTFMYFIFYLILVLFTTHCGKFLTIIPTPSHTWDLRIGRTDGHFKSVWFSNRR 349
+ ++R+ WF+NRR
Sbjct: 63 GLGSNLVT--------------------------------EVRV--------YNWFANRR 82
Query: 350 AKWRRHQRMN 359
+ ++
Sbjct: 83 KEEAFRHKLA 92
>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 = 65.5 bits (159), Expect = 5e-13
Identities = 15/67 (22%), Positives = 26/67 (38%)
Query: 211 SDGDAKDDDSVGSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTS 270
+ D ++ S S + +R RT+ LE F KS P + +A +
Sbjct: 75 EEADNNENLQEISKSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLG 134
Query: 271 LSEARVQ 277
L + V+
Sbjct: 135 LEKDVVR 141
Score = 36.2 bits (83), Expect = 0.006
Identities = 9/12 (75%), Positives = 10/12 (83%)
Query: 343 VWFSNRRAKWRR 354
VWFSNRR K +R
Sbjct: 142 VWFSNRRQKGKR 153
>1ic8_A Hepatocyte nuclear factor 1-alpha; transcription regulation,
DNA-binding, POU domain, diabetes, disease mutation,
MODY3, transcription/DNA comple; 2.60A {Homo sapiens}
SCOP: a.4.1.1 a.35.1.1
Length = 194
Score = 64.9 bits (157), Expect = 2e-12
Identities = 15/77 (19%), Positives = 29/77 (37%), Gaps = 1/77 (1%)
Query: 201 EHTPITPCFVSDGDAKDDDSVGSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVS 260
+ + F G + +G K RRNR + P+ L + +++ P
Sbjct: 85 KQREVAQQFTHAGQGGLIEE-PTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKE 143
Query: 261 TRERLAAKTSLSEARVQ 277
RE L + + +E +
Sbjct: 144 ERETLVEECNRAECIQR 160
Score = 31.0 bits (69), Expect = 0.45
Identities = 11/66 (16%), Positives = 20/66 (30%), Gaps = 3/66 (4%)
Query: 88 KIIEGVCTNATAPSVSSINRILRNRAAERAAAEFARAAGYGIYHTAHPYASFHWPNPGIW 147
I + + T + S +++ L RAA Y Y + + + G
Sbjct: 43 NIPQREVVDTTGLNQSHLSQHLNK---GTPMKTQKRAALYTWYVRKQREVAQQFTHAGQG 99
Query: 148 NPNNPP 153
P
Sbjct: 100 GLIEEP 105
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 63.9 bits (155), Expect = 3e-12
Identities = 14/69 (20%), Positives = 24/69 (34%)
Query: 209 FVSDGDAKDDDSVGSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAK 268
++ + D+ + Q + R+ RT+ LE F K P LA
Sbjct: 76 WLEETDSSSGSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADS 135
Query: 269 TSLSEARVQ 277
L + V+
Sbjct: 136 LQLEKEVVR 144
Score = 35.8 bits (82), Expect = 0.009
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 343 VWFSNRRAKWRRHQR 357
VWF NRR K +R
Sbjct: 145 VWFCNRRQKEKRMTP 159
>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 = 63.1 bits (153), Expect = 3e-12
Identities = 19/104 (18%), Positives = 38/104 (36%), Gaps = 4/104 (3%)
Query: 178 RLFVPFGHCYSFSPTSDHVHIN----NEHTPITPCFVSDGDAKDDDSVGSGSGSEQPKFR 233
L G +S + ++ N +A+ ++ + + R
Sbjct: 29 ALAAVHGSEFSQTTICRFENLQLSFKNACKLKAILSKWLEEAEQVGALYNEKVGANERKR 88
Query: 234 RNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+ RTT S + D LE+ F + P R+A + +L + V+
Sbjct: 89 KRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVR 132
Score = 35.7 bits (82), Expect = 0.009
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 343 VWFSNRRAKWRR 354
VWF NRR + +R
Sbjct: 133 VWFCNRRQREKR 144
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 60.2 bits (146), Expect = 7e-12
Identities = 17/66 (25%), Positives = 28/66 (42%)
Query: 211 SDGDAKDDDSVGSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTS 270
S ++SV K ++ RT FS +QL L F + Y + + L+ +
Sbjct: 1 SKQPTSAENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILN 60
Query: 271 LSEARV 276
LS +V
Sbjct: 61 LSYKQV 66
Score = 33.6 bits (77), Expect = 0.016
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 343 VWFSNRRAKWRRHQRMN 359
WF N+R K +R Q+ N
Sbjct: 68 TWFQNQRMKSKRWQKNN 84
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 58.2 bits (141), Expect = 3e-11
Identities = 18/51 (35%), Positives = 27/51 (52%)
Query: 226 GSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
GS R+ RT +S QL L++ F K+ Y + R LAA L++ +V
Sbjct: 1 GSSGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQV 51
Score = 31.6 bits (72), Expect = 0.060
Identities = 5/15 (33%), Positives = 10/15 (66%)
Query: 343 VWFSNRRAKWRRHQR 357
+WF N+R+K ++
Sbjct: 53 IWFQNKRSKIKKSGP 67
>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 = 58.3 bits (141), Expect = 3e-11
Identities = 23/58 (39%), Positives = 30/58 (51%)
Query: 219 DSVGSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
S G G++ K RR+RT F+ QL LEK F+K Y R LA LS+ +V
Sbjct: 4 GSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQV 61
Score = 32.1 bits (73), Expect = 0.061
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 343 VWFSNRRAKWRRHQR 357
W+ NRR KW++
Sbjct: 63 TWYQNRRMKWKKSGP 77
>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 = 58.5 bits (141), Expect = 4e-11
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 1/57 (1%)
Query: 223 SGSGSEQPKFRRNR-TTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQF 278
SGS P F + + Q+ LE F KS +P + +RL +T LS +
Sbjct: 3 SGSSGAYPDFAPQKFKEKTQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDS 59
Score = 31.9 bits (72), Expect = 0.066
Identities = 8/32 (25%), Positives = 11/32 (34%)
Query: 342 SVWFSNRRAKWRRHQRMNLLKSRRANAANVSG 373
WFS RR ++ L + SG
Sbjct: 58 DSWFSERRKLRDSMEQAVLDSMGSGKSGPSSG 89
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 61.6 bits (148), Expect = 4e-11
Identities = 17/86 (19%), Positives = 29/86 (33%)
Query: 190 SPTSDHVHINNEHTPITPCFVSDGDAKDDDSVGSGSGSEQPKFRRNRTTFSPSQLDELEK 249
S + + + S S + S K RRNR + P+ L +
Sbjct: 100 SSGNMTDKSSQDQLLFLFPEFSQQSHGPGQSDDACSEPTNKKMRRNRFKWGPASQQILYQ 159
Query: 250 EFDKSHYPCVSTRERLAAKTSLSEAR 275
+D+ P RE L + + +E
Sbjct: 160 AYDRQKNPSKEEREALVEECNRAECL 185
>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 = 57.5 bits (139), Expect = 6e-11
Identities = 17/53 (32%), Positives = 25/53 (47%)
Query: 224 GSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
S K R+ R F+ +Q ELE+ F + Y RE LA+ L+ +V
Sbjct: 1 ASDGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQV 53
Score = 31.7 bits (72), Expect = 0.075
Identities = 7/15 (46%), Positives = 9/15 (60%)
Query: 343 VWFSNRRAKWRRHQR 357
+WF N R K +R Q
Sbjct: 55 IWFQNHRYKTKRAQN 69
>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 = 56.8 bits (137), Expect = 9e-11
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 4/57 (7%)
Query: 222 GSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQF 278
GS S K++ +P QL LE F ++ P +RL ++T ++ +
Sbjct: 1 GSSGSSGPTKYKE----RAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDS 53
Score = 28.7 bits (64), Expect = 0.64
Identities = 6/15 (40%), Positives = 7/15 (46%)
Query: 342 SVWFSNRRAKWRRHQ 356
WFS RR K +
Sbjct: 52 DSWFSERRKKVNAEE 66
>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 = 55.5 bits (134), Expect = 2e-10
Identities = 19/51 (37%), Positives = 25/51 (49%)
Query: 226 GSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
GS + + FS Q ELEK+F+ Y R+RLA LSE +V
Sbjct: 1 GSSGSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQV 51
Score = 32.0 bits (73), Expect = 0.049
Identities = 10/15 (66%), Positives = 10/15 (66%)
Query: 343 VWFSNRRAKWRRHQR 357
WF NRRAKWRR
Sbjct: 53 TWFQNRRAKWRRSGP 67
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 55.1 bits (133), Expect = 3e-10
Identities = 13/46 (28%), Positives = 21/46 (45%)
Query: 231 KFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
+ + S +Q+ ELE++F Y R LA L+E +V
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQV 48
Score = 32.3 bits (74), Expect = 0.028
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 343 VWFSNRRAKWRRHQR 357
+WF NRR K +R Q
Sbjct: 50 IWFQNRRYKTKRKQL 64
>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 = 57.7 bits (139), Expect = 3e-10
Identities = 12/67 (17%), Positives = 27/67 (40%)
Query: 211 SDGDAKDDDSVGSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTS 270
SD ++ S + R+ RT+ + LEK F ++ P +A + +
Sbjct: 80 SDSSLSSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLN 139
Query: 271 LSEARVQ 277
+ + ++
Sbjct: 140 MEKEVIR 146
Score = 34.6 bits (79), Expect = 0.026
Identities = 9/12 (75%), Positives = 10/12 (83%)
Query: 343 VWFSNRRAKWRR 354
VWFSNRR K +R
Sbjct: 147 VWFSNRRQKEKR 158
>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 = 54.8 bits (132), Expect = 4e-10
Identities = 14/54 (25%), Positives = 20/54 (37%), Gaps = 1/54 (1%)
Query: 226 GSEQPKFRRNRTTFSPSQLDELEKEF-DKSHYPCVSTRERLAAKTSLSEARVQF 278
GS R+RT S L L+ D YP L+A+ L + +
Sbjct: 1 GSSGSSGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIK 54
Score = 32.5 bits (74), Expect = 0.033
Identities = 3/13 (23%), Positives = 6/13 (46%)
Query: 343 VWFSNRRAKWRRH 355
+F N+R +
Sbjct: 54 KFFQNQRYHVKHS 66
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 54.2 bits (131), Expect = 5e-10
Identities = 15/44 (34%), Positives = 27/44 (61%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
R+ RT F+ +QL LE++F + Y ++ R ++ SL+E +V
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQV 44
Score = 31.1 bits (71), Expect = 0.068
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 343 VWFSNRRAKWRR 354
+WF NRRAK +R
Sbjct: 46 IWFQNRRAKAKR 57
>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 = 55.0 bits (132), Expect = 5e-10
Identities = 15/55 (27%), Positives = 21/55 (38%), Gaps = 1/55 (1%)
Query: 225 SGSEQPKFRRNRT-TFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQF 278
SGS P F + + QL L+ F S RL A+T L+ +
Sbjct: 3 SGSSGPDFTPQKFKEKTAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDA 57
Score = 28.0 bits (62), Expect = 1.5
Identities = 3/28 (10%), Positives = 10/28 (35%)
Query: 342 SVWFSNRRAKWRRHQRMNLLKSRRANAA 369
WF+ ++ + + A ++
Sbjct: 56 DAWFTEKKKSKALKEEKMEIDESNAGSS 83
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 53.9 bits (130), Expect = 8e-10
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
R+ R FS +Q+ ELE+ F + Y RE LA+ L+ +V
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQV 46
Score = 31.9 bits (73), Expect = 0.041
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 343 VWFSNRRAKWRRHQRMNLLK 362
+WF N R K +R + +
Sbjct: 48 IWFQNHRYKMKRQAKDKAAQ 67
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 54.5 bits (131), Expect = 8e-10
Identities = 18/54 (33%), Positives = 28/54 (51%)
Query: 223 SGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
PK ++ RT+F+ Q+ ELEK F K Y + R LA +++A+V
Sbjct: 8 PYQNRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQV 61
Score = 34.8 bits (80), Expect = 0.008
Identities = 11/24 (45%), Positives = 12/24 (50%)
Query: 343 VWFSNRRAKWRRHQRMNLLKSRRA 366
WF NRR KWRR R+A
Sbjct: 63 TWFQNRRTKWRRQTAEEREAERQA 86
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 53.4 bits (129), Expect = 9e-10
Identities = 15/44 (34%), Positives = 25/44 (56%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
R+ R FS +Q+ ELE+ F + Y R++LA+ L+ +V
Sbjct: 3 RKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQV 46
Score = 28.4 bits (64), Expect = 0.71
Identities = 6/11 (54%), Positives = 8/11 (72%)
Query: 343 VWFSNRRAKWR 353
+WF NRR K +
Sbjct: 48 IWFQNRRYKSK 58
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 53.4 bits (129), Expect = 9e-10
Identities = 14/46 (30%), Positives = 24/46 (52%)
Query: 231 KFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
++ RT FS +QL L+ F K Y + + L++ +LS +V
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQV 47
Score = 33.0 bits (76), Expect = 0.013
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 343 VWFSNRRAKWRRHQ 356
WF N+R K +R Q
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 = 53.4 bits (129), Expect = 1e-09
Identities = 10/50 (20%), Positives = 24/50 (48%)
Query: 228 EQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
++ K + +++ SP LE+ F + +E +A K ++ +V+
Sbjct: 1 KKEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVR 50
Score = 31.0 bits (71), Expect = 0.078
Identities = 5/11 (45%), Positives = 8/11 (72%)
Query: 343 VWFSNRRAKWR 353
VWF N+R + +
Sbjct: 51 VWFINKRMRSK 61
>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 = 50.4 bits (121), Expect = 9e-09
Identities = 16/44 (36%), Positives = 30/44 (68%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
+R RT FS QL L++EF+++ Y R++L+++ L+EA++
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 47
Score = 29.2 bits (66), Expect = 0.30
Identities = 6/12 (50%), Positives = 10/12 (83%)
Query: 343 VWFSNRRAKWRR 354
+WF N+RAK ++
Sbjct: 49 IWFKNKRAKIKK 60
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 50.0 bits (120), Expect = 1e-08
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 237 TTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
T+FS SQ+ ELE+ F + Y + R LA +++A+V
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQV 41
Score = 32.3 bits (74), Expect = 0.024
Identities = 9/13 (69%), Positives = 9/13 (69%)
Query: 343 VWFSNRRAKWRRH 355
WF NRR KWRR
Sbjct: 43 TWFQNRRTKWRRQ 55
>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 = 48.5 bits (116), Expect = 5e-08
Identities = 20/44 (45%), Positives = 26/44 (59%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
RR RT F+ QL LEKEF K +Y R LAA+ +L E+ +
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTI 45
Score = 30.4 bits (69), Expect = 0.13
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 343 VWFSNRRAKWRRHQ 356
VWF NRR K +R +
Sbjct: 47 VWFQNRRMKDKRQR 60
>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 = 48.6 bits (116), Expect = 5e-08
Identities = 19/44 (43%), Positives = 26/44 (59%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
RR RTTF+ SQ+ ELE+ F + Y L+AK +L A+V
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQV 46
Score = 30.1 bits (68), Expect = 0.19
Identities = 6/21 (28%), Positives = 11/21 (52%)
Query: 343 VWFSNRRAKWRRHQRMNLLKS 363
+WF NRR + + + +S
Sbjct: 48 IWFKNRRRRHKIQSDQHKDQS 68
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 48.7 bits (115), Expect = 4e-07
Identities = 8/50 (16%), Positives = 18/50 (36%)
Query: 228 EQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
++ R F+ Q L F ++ P + ++ + L + V
Sbjct: 93 RGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVS 142
Score = 27.1 bits (59), Expect = 9.0
Identities = 4/16 (25%), Positives = 6/16 (37%)
Query: 342 SVWFSNRRAKWRRHQR 357
S +F N R +
Sbjct: 142 SNFFMNARRRSLDKWL 157
>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 = 46.4 bits (110), Expect = 4e-07
Identities = 18/51 (35%), Positives = 29/51 (56%)
Query: 226 GSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
GS R+ R +S QL ELE+E+ + + R +++A TSLSE ++
Sbjct: 1 GSSGSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQI 51
Score = 29.4 bits (66), Expect = 0.42
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 343 VWFSNRRAKWRRHQRMN 359
+WF NRR K ++ +
Sbjct: 53 IWFQNRRVKEKKSGPSS 69
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 45.6 bits (108), Expect = 6e-07
Identities = 17/50 (34%), Positives = 29/50 (58%)
Query: 227 SEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
S + R+ R ++ QL ELE+E+ + + R R++A T+LSE +V
Sbjct: 2 SHMLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQV 51
Score = 28.3 bits (63), Expect = 1.0
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 343 VWFSNRRAKWRRHQRMNLLKS 363
+WF NRR K ++ S
Sbjct: 53 IWFQNRRVKEKKVINKLKTTS 73
>3nar_A ZHX1, zinc fingers and homeoboxes protein 1; corepressor,
homeodomain, structural genomics, oxford production
facility, OPPF, transcription; 2.60A {Homo sapiens}
Length = 96
Score = 45.9 bits (108), Expect = 1e-06
Identities = 10/61 (16%), Positives = 23/61 (37%)
Query: 217 DDDSVGSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
V + + +P QL L+ F ++ +P ++LA ++ L+ +
Sbjct: 10 SGLEVLFQGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDI 69
Query: 277 Q 277
Sbjct: 70 V 70
Score = 26.7 bits (58), Expect = 6.6
Identities = 6/26 (23%), Positives = 10/26 (38%)
Query: 343 VWFSNRRAKWRRHQRMNLLKSRRANA 368
WF + R W+ + AN+
Sbjct: 71 SWFGDTRYAWKNGNLKWYYYYQSANS 96
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 44.7 bits (106), Expect = 1e-06
Identities = 17/44 (38%), Positives = 25/44 (56%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
+R RT ++ +QL ELEKEF + Y R LA +L+E +
Sbjct: 4 KRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHI 47
Score = 27.7 bits (62), Expect = 1.1
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 343 VWFSNRRAKWRRHQ 356
+WF NRR KW++ +
Sbjct: 49 IWFQNRRMKWKKEE 62
>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 = 45.3 bits (107), Expect = 1e-06
Identities = 19/61 (31%), Positives = 27/61 (44%)
Query: 216 KDDDSVGSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEAR 275
++ S RT F+ QL ELEKEF + Y + R +AA L+E +
Sbjct: 18 RNPPKTAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQ 77
Query: 276 V 276
V
Sbjct: 78 V 78
Score = 29.1 bits (65), Expect = 0.77
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 343 VWFSNRRAKWRRHQR 357
+WF NRR K ++ +R
Sbjct: 80 IWFQNRRMKQKKRER 94
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription
factor, transcription/DNA complex; 2.25A {Homo sapiens}
SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
Length = 149
Score = 46.3 bits (109), Expect = 2e-06
Identities = 15/29 (51%), Positives = 19/29 (65%)
Query: 89 IIEGVCTNATAPSVSSINRILRNRAAERA 117
+ E VC N T PSVSSINRI+R + +
Sbjct: 119 LAERVCDNDTVPSVSSINRIIRTKVQQPP 147
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 44.1 bits (104), Expect = 4e-06
Identities = 17/56 (30%), Positives = 31/56 (55%)
Query: 221 VGSGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
+G+ + + + +R RT+++ Q ELEKEF + Y R +A SL+E ++
Sbjct: 17 LGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 72
Score = 29.0 bits (65), Expect = 0.68
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 343 VWFSNRRAKWRRHQR 357
+WF NRR KW++ +
Sbjct: 74 IWFQNRRMKWKKEHK 88
>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple
frequency, 3D NMR, induced FIT, alternative splicing,
developmental protein; NMR {Homo sapiens}
Length = 159
Score = 46.0 bits (108), Expect = 4e-06
Identities = 20/48 (41%), Positives = 25/48 (52%)
Query: 89 IIEGVCTNATAPSVSSINRILRNRAAERAAAEFARAAGYGIYHTAHPY 136
+ EGVC N T PSVSSINRI+R + + A G H H +
Sbjct: 112 LAEGVCDNDTVPSVSSINRIIRTKVQQPFNLPMDSGAPGGGSHHHHHH 159
>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 = 43.2 bits (102), Expect = 4e-06
Identities = 16/46 (34%), Positives = 25/46 (54%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQF 278
+R R T++ Q ELEKEF + Y R +A SL+E +++
Sbjct: 3 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKI 48
Score = 28.5 bits (64), Expect = 0.64
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 343 VWFSNRRAKWRRHQR 357
+WF NRR KW++ +
Sbjct: 48 IWFQNRRMKWKKENK 62
>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX,
paired domain, DNA-binding protein, gene regulation/DNA
complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP:
a.4.1.5
Length = 128
Score = 43.9 bits (103), Expect = 9e-06
Identities = 15/24 (62%), Positives = 20/24 (83%)
Query: 89 IIEGVCTNATAPSVSSINRILRNR 112
I EGVC +TAPSVS+I+R++R R
Sbjct: 104 IREGVCDRSTAPSVSAISRLVRGR 127
>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 = 42.1 bits (99), Expect = 2e-05
Identities = 18/44 (40%), Positives = 25/44 (56%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
RR R T++ Q ELEKEF +HY R +A SL+E ++
Sbjct: 21 RRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQI 64
Score = 29.0 bits (65), Expect = 0.56
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 343 VWFSNRRAKWRRHQR 357
+WF NRR K ++ +
Sbjct: 66 IWFQNRRMKLKKEIQ 80
>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 = 40.6 bits (95), Expect = 4e-05
Identities = 15/54 (27%), Positives = 25/54 (46%)
Query: 223 SGSGSEQPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
+ + R+ R ++ Q ELEKEF + Y R +A +L+E +V
Sbjct: 4 AANWLHARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQV 57
Score = 28.7 bits (64), Expect = 0.84
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 343 VWFSNRRAKWRRHQR 357
+WF NRR K ++ +
Sbjct: 59 IWFQNRRMKMKKINK 73
>2ecc_A Homeobox and leucine zipper protein homez; homeobox domain,
transcription factor, leucine zipper- containing factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 76
Score = 40.4 bits (94), Expect = 6e-05
Identities = 7/44 (15%), Positives = 15/44 (34%)
Query: 234 RNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+ + QL L+ F + + ++L T L +
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEII 48
>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 = 41.6 bits (97), Expect = 6e-04
Identities = 32/207 (15%), Positives = 60/207 (28%), Gaps = 62/207 (29%)
Query: 259 VSTRERLAAKTSLSEARVQFLTIIPTPSHTYLPRIERNST------FMYFI--------- 303
V T A S+ + QF I+P P+ + E + F+ ++
Sbjct: 22 VPTASFFIA----SQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKV 77
Query: 304 --FYLILVL----FTT--------HC--GKFLTIIPTPSHTWDLRIGRTDGHFKSVWFSN 347
F +L L F H K L T I + + + +
Sbjct: 78 GQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELI-KN--YITARIMAK 134
Query: 348 RRAKWRRHQRMNLLKSRRANAANV----SGQG---------QVTSDSSSPSTPSLWRHMG 394
R + + L ++ A + GQG + + L +
Sbjct: 135 R--PFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIK--- 189
Query: 395 GENSAFKSLSHLSYNNNNIDDADQHYP 421
+ ++LS L DA++ +
Sbjct: 190 ---FSAETLSELIRTT---LDAEKVFT 210
Score = 41.2 bits (96), Expect = 7e-04
Identities = 57/352 (16%), Positives = 98/352 (27%), Gaps = 122/352 (34%)
Query: 7 DFPEEQYWILRHLTLFNKLIVFIPTYNFIMDSDINEGTEDPVCRNLFTDYYPSTWRKHLG 66
+ P++ Y L + + LI I ++++ + L + P R +L
Sbjct: 224 NTPDKDY--LLSIPISCPLIGVIQLAHYVV-----------TAKLL--GFTPGELRSYLK 268
Query: 67 NFLKCNRTLPVLETVPHIFPMKIIEGVCTNATAPSVSSINRILRNRAAERAAAEF---AR 123
++ ++ V A S S +R A F R
Sbjct: 269 GATGHSQG--------------LVTAVAI-AETDSWESFFVSVRK--AITVL--FFIGVR 309
Query: 124 AAGYGIYHTAHPYASFHWPNPGIWNPNNPPVV---SNQGPGTTPSSGAAGSP----RGL- 175
+ A+P S PP + S + PS P L
Sbjct: 310 C------YEAYPNTSL------------PPSILEDSLENNEGVPS------PMLSISNLT 345
Query: 176 MPRLFVPFGHCYSFSPTSDHVHIN--NEHTPITPCFVSDGDAKDDDSVGSGSGSEQPKFR 233
++ S P V I+ N V G + + R
Sbjct: 346 QEQVQDYVNKTNSHLPAGKQVEISLVNGAK----NLVVSGPPQSLYGL-------NLTLR 394
Query: 234 RNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQFLTIIPTPSHT-YL-- 290
+ + +PS LD+ F ER K S +FL + +P H+ L
Sbjct: 395 KAK---APSGLDQSRIPF----------SER---KLKFS---NRFLPVA-SPFHSHLLVP 434
Query: 291 --PRIERNSTFMYFIF---YLILVLFTTHCGKFLTIIPTPSHTWDLRIGRTD 337
I ++ F + + ++ T G DLR+
Sbjct: 435 ASDLINKDLVKNNVSFNAKDIQIPVYDTFDGS------------DLRVLSGS 474
>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 = 35.2 bits (81), Expect = 0.003
Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 1/46 (2%)
Query: 234 RNRTTFSPSQLDELEKEFDK-SHYPCVSTRERLAAKTSLSEARVQF 278
++ D LEK F + YP + L+ + S ++Q
Sbjct: 10 KDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQC 55
>2da4_A Hypothetical protein DKFZP686K21156; homeobox domain, three helices
with the DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 34.6 bits (78), Expect = 0.007
Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 4/55 (7%)
Query: 227 SEQPKFRRNRTTFSPSQLDELEKEFDKS----HYPCVSTRERLAAKTSLSEARVQ 277
S ++RT FS L L+K +D C E +A + ++ V+
Sbjct: 3 SGSSGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVR 57
>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 = 36.0 bits (82), Expect = 0.027
Identities = 29/224 (12%), Positives = 60/224 (26%), Gaps = 57/224 (25%)
Query: 244 LDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQFLTIIPTPSHTYLPRIERNSTFMYFI 303
D FD C ++ K+ LS+ + + + + +
Sbjct: 26 EDAFVDNFD-----CKDVQDMP--KSILSKEEIDHIIMSKD-------AVSG----TLRL 67
Query: 304 FYLILVLFTTHCGKFLTIIPTPSHTW---DLRIGRTDGHFKSVWFSNRRAK--------- 351
F+ +L KF+ + ++ + ++ + + + +R +
Sbjct: 68 FWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA 127
Query: 352 ----WRRHQ----RMNLLKSRRANAANVSGQG---------QVTSDSSSPSTPS---LWR 391
R R LL+ R A + G V W
Sbjct: 128 KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWL 187
Query: 392 HMGGENSA---FKSLSHLSY----NNNNIDDADQHYPSSDESEE 428
++ NS + L L Y N + D + S +
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ 231
Score = 32.1 bits (72), Expect = 0.40
Identities = 63/434 (14%), Positives = 111/434 (25%), Gaps = 152/434 (35%)
Query: 9 PEEQ----YWILRHLTLFNKLIV--FI-----PTYNFIMDSDINEGTEDPVCRNLFTDYY 57
+W L + +V F+ Y F+M I P ++ T Y
Sbjct: 60 AVSGTLRLFWTLL---SKQEEMVQKFVEEVLRINYKFLMSP-IKTEQRQP---SMMTRMY 112
Query: 58 PSTWRKHLGN----FLKCN--RTLPVLETVPHIFPMKIIEGVCTNATAPSVSSINRILRN 111
R L N F K N R P L+ + ++ + V + S + +
Sbjct: 113 IEQ-RDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT---WV-- 166
Query: 112 RAAERAAAE-FARAAGYGIYHTAHPYASFHWPNPGIWNPNNPPVVSNQGPGTTPSSGAAG 170
A + + + I+ W N
Sbjct: 167 -ALDVCLSYKVQCKMDFKIF----------WLN--------------------------- 188
Query: 171 SPRGLMPRLFVPFGHCYSFSPTSDHVHINNEHTPITPCFVSDGDAKDDDSVGSGSGSEQP 230
+C SP + + I P + S D ++ S Q
Sbjct: 189 ------------LKNC--NSPETVLEMLQKLLYQIDPNWTSRSDH--SSNIKLRIHSIQA 232
Query: 231 KFRRNRTTFSPSQ-------LDELE-----KEFDKSHYPC---VSTRERLAAKTSLSEAR 275
+ RR L ++ F+ S C ++TR + LS A
Sbjct: 233 ELRR---LLKSKPYENCLLVLLNVQNAKAWNAFNLS---CKILLTTRFKQVT-DFLSAAT 285
Query: 276 VQFLTIIPTPSHTYLPRIERNSTFMYFIFYLILVLFTTHCGKFLTIIPTPSHTWDLRIGR 335
+++ H + L K+L P DL
Sbjct: 286 TTHISLD----HHSMTLTPDEV----------KSLL----LKYLDCRPQ-----DLPREV 322
Query: 336 TDGH---FKSVW--FSNRRAKWRRHQRMNLLKSRRANAANVSGQGQVTSDSSSPSTPSLW 390
+ + + A W + +N K ++++ P+ +
Sbjct: 323 LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVL-----------EPAEY 371
Query: 391 RHMGGENSAFKSLS 404
R M F LS
Sbjct: 372 RKM------FDRLS 379
>2da6_A Hepatocyte nuclear factor 1-beta; homeobox domain, three helices
with the DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 102
Score = 32.9 bits (74), Expect = 0.045
Identities = 11/46 (23%), Positives = 19/46 (41%)
Query: 229 QPKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEA 274
RNR + P+ L + +D+ P RE L + + +E
Sbjct: 3 SGSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAEC 48
>1x2m_A LAG1 longevity assurance homolog 6; homeobox domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 64
Score = 29.8 bits (67), Expect = 0.27
Identities = 8/39 (20%), Positives = 12/39 (30%), Gaps = 1/39 (2%)
Query: 241 PSQLDELEKEFDKSH-YPCVSTRERLAAKTSLSEARVQF 278
LEK F +P E L+ + +Q
Sbjct: 9 AQPNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQR 47
>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 = 28.5 bits (63), Expect = 0.41
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 9/27 (33%)
Query: 343 VWFSNRRAKWRRH---------QRMNL 360
+WF NRR KW++ QRM+L
Sbjct: 5 IWFQNRRMKWKKRVFNDARDIIQRMHL 31
>1nba_A N-carbamoylsarcosine amidohydrolase; hydrolase(IN linear amides);
2.00A {Arthrobacter SP} SCOP: c.33.1.3
Length = 264
Score = 30.5 bits (69), Expect = 0.88
Identities = 12/49 (24%), Positives = 19/49 (38%), Gaps = 4/49 (8%)
Query: 116 RAAAEFARAAGYGIYHTAHPY----ASFHWPNPGIWNPNNPPVVSNQGP 160
+ E ARA G +++T + Y AS + G+W P
Sbjct: 76 QRINEAARAKGVPVFYTTNVYRNRDASSGTNDMGLWYSKIPTETLPADS 124
>4a17_L RPL15, ribosomal protein L15; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_L 4a1c_L 4a1e_L
Length = 204
Score = 28.8 bits (64), Expect = 3.0
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 335 RTDGHFKSVWFSNRRAKWRRHQRMNLLKSR 364
R GH ++R+ WR Q + L + R
Sbjct: 175 RVKGHRAKSLRTSRKGNWRARQMLKLRRYR 204
>1nf9_A Phenazine biosynthesis protein PHZD; isochorismatase, enzyme,
phenazine pathway, hydrolase; HET: BOG; 1.50A
{Pseudomonas aeruginosa} SCOP: c.33.1.3 PDB: 1nf8_A*
3r77_A*
Length = 207
Score = 28.4 bits (64), Expect = 3.4
Identities = 7/41 (17%), Positives = 10/41 (24%), Gaps = 3/41 (7%)
Query: 116 RAAAEFARAAGYGIYHTAHPYA---SFHWPNPGIWNPNNPP 153
+ G I +TA P + W P
Sbjct: 60 ARLRRWCVEQGVQIAYTAQPGSMTEEQRGLLKDFWGPGMRA 100
>4fd7_A Putative arylalkylamine N-acetyltransferase 7; GNAT, COA binding;
1.80A {Aedes aegypti}
Length = 238
Score = 28.7 bits (63), Expect = 3.5
Identities = 12/83 (14%), Positives = 26/83 (31%), Gaps = 5/83 (6%)
Query: 343 VWFSNRRAKWRRHQRMNLLKSRRANAANVSGQGQVTSDSSSPSTPSLWRHMGGENSAFKS 402
+ K+R + R G + + P++ + +G F+
Sbjct: 150 AMGLSVDPKYRGRGIATEILRARIPLCRAVGLKLSATCFTGPNSQTAATRVG-----FQE 204
Query: 403 LSHLSYNNNNIDDADQHYPSSDE 425
++Y D +YP +E
Sbjct: 205 DFTITYGELARVDQRFNYPGIEE 227
>3irv_A Cysteine hydrolase; structural genomics, PSI-2, protein structure
initiative, CY hydrolase; 1.60A {Pseudomonas syringae
PV}
Length = 233
Score = 28.1 bits (63), Expect = 4.3
Identities = 8/47 (17%), Positives = 13/47 (27%), Gaps = 1/47 (2%)
Query: 116 RAAAEFARAAGYGIYHTAHPYASFHWPNPGIWNPNNPPVVSNQGPGT 162
+ + ARAA + + H + G P V
Sbjct: 54 QKLLQAARAAQVMVIYLRHIVRG-DGSDTGRMRDLYPNVDQILARHD 99
>4fd4_A Arylalkylamine N-acetyltransferase like 5B; GNAT; 1.95A {Aedes
aegypti}
Length = 217
Score = 27.8 bits (61), Expect = 5.9
Identities = 12/81 (14%), Positives = 30/81 (37%), Gaps = 5/81 (6%)
Query: 351 KWRRHQRMNLLKSRRANAANVSGQGQVTSDSSSPSTPSLWRHMGGENSAFKSLSHLSYNN 410
+R H L + + + G ++ D +S + L +G + +S L+ +
Sbjct: 137 TYRGHSLGQRLLQFQMDLSKKLGFKAISGDFTSVFSVKLAEKLG-----MECISQLALGD 191
Query: 411 NNIDDADQHYPSSDESEEINV 431
+ ++ + D + I
Sbjct: 192 YRDEKGEKLFEPLDVHQVIKT 212
>3q8k_A Flap endonuclease 1; helix-3 turn-helix, hydrophobic wedge, 3' flap
binding site, hydrolase-DNA complex, DNA repair,
replication; HET: DNA; 2.20A {Homo sapiens} PDB: 3q8l_A*
3q8m_A*
Length = 341
Score = 28.3 bits (63), Expect = 6.0
Identities = 12/75 (16%), Positives = 21/75 (28%), Gaps = 20/75 (26%)
Query: 205 ITPCFVSDGDA--------------------KDDDSVGSGSGSEQPKFRRNRTTFSPSQL 244
I P +V DG + + +G+ E KF + +
Sbjct: 78 IKPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKRLVKVTKQHN 137
Query: 245 DELEKEFDKSHYPCV 259
DE + P +
Sbjct: 138 DECKHLLSLMGIPYL 152
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap
DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A
{Homo sapiens} SCOP: a.60.7.1 c.120.1.2
Length = 379
Score = 27.9 bits (62), Expect = 6.4
Identities = 12/75 (16%), Positives = 21/75 (28%), Gaps = 20/75 (26%)
Query: 205 ITPCFVSDGDA--------------------KDDDSVGSGSGSEQPKFRRNRTTFSPSQL 244
I P +V DG + + +G+ E KF + +
Sbjct: 78 IKPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKRLVKVTKQHN 137
Query: 245 DELEKEFDKSHYPCV 259
DE + P +
Sbjct: 138 DECKHLLSLMGIPYL 152
>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA
replication, RTH, RAD27, DNA repair; 2.00A
{Methanocaldococcus jannaschii} SCOP: a.60.7.1 c.120.1.2
PDB: 1a77_A
Length = 326
Score = 27.9 bits (62), Expect = 7.4
Identities = 12/75 (16%), Positives = 24/75 (32%), Gaps = 20/75 (26%)
Query: 205 ITPCFVSDGDA--------------------KDDDSVGSGSGSEQPKFRRNRTTFSPSQL 244
ITP +V DG+ K +++ E K+ + + +P +
Sbjct: 73 ITPIWVFDGEPPKLKEKTRKVRREMKEKAELKMKEAIKKEDFEEAAKYAKRVSYLTPKMV 132
Query: 245 DELEKEFDKSHYPCV 259
+ + P V
Sbjct: 133 ENCKYLLSLMGIPYV 147
>2oa9_A R.MVAI; monomeric endonuclease, restriction enzyme, hydrolase;
1.50A {Kocuria varians} PDB: 2oaa_A
Length = 249
Score = 27.5 bits (60), Expect = 8.4
Identities = 8/64 (12%), Positives = 17/64 (26%), Gaps = 1/64 (1%)
Query: 301 YFIFYLILVLFTTHCGKFLTIIPTPSHTWDLRIGRTDGHFKSVWFSNRRAKWR-RHQRMN 359
Y+ + + I D+RIG K + +R +++
Sbjct: 181 YYKYNSANLFTDLTVQSLCRGIENGDIKVDIRIGAYHSGKKKGKTHDHGTAFRINMEKLL 240
Query: 360 LLKS 363
Sbjct: 241 EYGE 244
>3fov_A UPF0102 protein RPA0323; structural genomics, APC7380, PSI-2,
protein structure initi midwest center for structural
genomics, MCSG; 1.88A {Rhodopseudomonas palustris}
Length = 134
Score = 26.9 bits (60), Expect = 8.7
Identities = 8/33 (24%), Positives = 15/33 (45%)
Query: 97 ATAPSVSSINRILRNRAAERAAAEFARAAGYGI 129
+ ++ I +AE +AA++ GY I
Sbjct: 9 SQPSVLARIAAFRTGLSAEASAADYLERQGYRI 41
>3kl2_A Putative isochorismatase; structural genomics, unknown function,
PSI-2, protein struct initiative; 2.30A {Streptomyces
avermitilis}
Length = 226
Score = 27.3 bits (61), Expect = 9.5
Identities = 12/56 (21%), Positives = 18/56 (32%), Gaps = 4/56 (7%)
Query: 116 RAAAEFARAAGYGIYHTAHPYASFHWPNPGIWNPNNPPVVSNQGPGTTPSSGAAGS 171
A + AR AG I H +A G + ++ G G G+
Sbjct: 62 VAVVDAARQAGVPIMHAPITFA----EGYGELTRHPYGILKGVVDGKAFVKGTWGA 113
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.134 0.427
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,856,540
Number of extensions: 403590
Number of successful extensions: 1232
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1226
Number of HSP's successfully gapped: 140
Length of query: 435
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 339
Effective length of database: 4,021,377
Effective search space: 1363246803
Effective search space used: 1363246803
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (27.1 bits)