RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2181
(490 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 = 104 bits (262), Expect = 9e-28
Identities = 34/67 (50%), Positives = 47/67 (70%)
Query: 92 SADEDSQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARI 151
+D +S+ + LKRK +R+RT+F+ Q+D LE+ FERT YPD++ RE LA + L EARI
Sbjct: 3 ISDCESEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARI 62
Query: 152 QVSSINR 158
QV NR
Sbjct: 63 QVWFQNR 69
Score = 63.9 bits (156), Expect = 3e-13
Identities = 20/35 (57%), Positives = 24/35 (68%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQVSSINR 261
+ FERT YPD++ RE LA + L EARIQV NR
Sbjct: 35 RAFERTQYPDIYTREELAQRTNLTEARIQVWFQNR 69
Score = 45.1 bits (107), Expect = 2e-06
Identities = 11/22 (50%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 337 AR-QVWFSNRRAKWRREEKLRN 357
AR QVWF NRRA+ R++ +
Sbjct: 60 ARIQVWFQNRRARLRKQHTSVS 81
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 95.5 bits (238), Expect = 2e-24
Identities = 41/50 (82%), Positives = 43/50 (86%)
Query: 104 KRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
QRNRTSFT EQI++LEKEFERTHYPDVFARERLA KI LPEARIQV
Sbjct: 4 GSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQV 53
Score = 63.2 bits (154), Expect = 7e-13
Identities = 28/30 (93%), Positives = 28/30 (93%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
KEFERTHYPDVFARERLA KI LPEARIQV
Sbjct: 24 KEFERTHYPDVFARERLAAKIDLPEARIQV 53
Score = 50.9 bits (122), Expect = 1e-08
Identities = 24/27 (88%), Positives = 24/27 (88%)
Query: 339 QVWFSNRRAKWRREEKLRNQRRGSTGS 365
QVWFSNRRAKWRREEKLRNQRR S S
Sbjct: 52 QVWFSNRRAKWRREEKLRNQRRQSGPS 78
>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 = 94.7 bits (236), Expect = 3e-24
Identities = 25/55 (45%), Positives = 37/55 (67%)
Query: 104 KRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINR 158
+R+RT FT+EQ+++LE F+ T YPDV RE+LA K+ L E +++V NR
Sbjct: 4 GSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNR 58
Score = 62.4 bits (152), Expect = 9e-13
Identities = 16/35 (45%), Positives = 22/35 (62%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQVSSINR 261
F+ T YPDV RE+LA K+ L E +++V NR
Sbjct: 24 NLFQETKYPDVGTREQLARKVHLREEKVEVWFKNR 58
Score = 43.9 bits (104), Expect = 3e-06
Identities = 11/16 (68%), Positives = 12/16 (75%)
Query: 339 QVWFSNRRAKWRREEK 354
+VWF NRRAKWRR
Sbjct: 52 EVWFKNRRAKWRRSGP 67
>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 = 93.3 bits (232), Expect = 1e-23
Identities = 26/50 (52%), Positives = 34/50 (68%)
Query: 104 KRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
+R RT+FT Q+D LE F +T YPD+F RE +A KI LPE+R+QV
Sbjct: 4 GSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQV 53
Score = 60.9 bits (148), Expect = 4e-12
Identities = 17/30 (56%), Positives = 22/30 (73%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
F +T YPD+F RE +A KI LPE+R+QV
Sbjct: 24 ALFAKTRYPDIFMREEVALKINLPESRVQV 53
Score = 47.8 bits (114), Expect = 2e-07
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 339 QVWFSNRRAKWRREEKLRNQRRGSTGS 365
QVWF NRRAK R++++ + S S
Sbjct: 52 QVWFKNRRAKCRQQQQQQQNGGQSGPS 78
>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 = 90.8 bits (226), Expect = 7e-23
Identities = 22/51 (43%), Positives = 28/51 (54%)
Query: 108 QRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINR 158
+R RT+FT QI+ LE F YP + E LA K+ L RIQ+ NR
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNR 52
Score = 63.1 bits (154), Expect = 5e-13
Identities = 13/35 (37%), Positives = 16/35 (45%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQVSSINR 261
F YP + E LA K+ L RIQ+ NR
Sbjct: 18 NVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNR 52
Score = 46.5 bits (111), Expect = 3e-07
Identities = 10/24 (41%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 337 AR-QVWFSNRRAKWRREEKLRNQR 359
R Q+WF NRRAK +R +
Sbjct: 43 DRIQIWFQNRRAKLKRSHRESQFL 66
>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 = 90.1 bits (224), Expect = 1e-22
Identities = 23/53 (43%), Positives = 32/53 (60%)
Query: 106 KLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINR 158
+R RT FT++Q+ LE F+R YPD+ RE +A L EAR++V NR
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNR 54
Score = 62.3 bits (152), Expect = 8e-13
Identities = 15/35 (42%), Positives = 20/35 (57%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQVSSINR 261
F+R YPD+ RE +A L EAR++V NR
Sbjct: 20 ATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNR 54
Score = 45.4 bits (108), Expect = 8e-07
Identities = 13/23 (56%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 337 AR-QVWFSNRRAKWRREEKLRNQ 358
AR +VWF NRRAKWR+ E+
Sbjct: 45 ARVRVWFKNRRAKWRKREEFIVT 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 = 89.2 bits (222), Expect = 3e-22
Identities = 31/49 (63%), Positives = 36/49 (73%)
Query: 110 NRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINR 158
+ +FT+ Q++ LEK F RTHYPDVF RE LA KIGL EARIQV NR
Sbjct: 2 SHMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNR 50
Score = 64.6 bits (158), Expect = 1e-13
Identities = 26/35 (74%), Positives = 26/35 (74%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQVSSINR 261
K F RTHYPDVF RE LA KIGL EARIQV NR
Sbjct: 16 KAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNR 50
Score = 47.6 bits (114), Expect = 1e-07
Identities = 15/20 (75%), Positives = 18/20 (90%), Gaps = 1/20 (5%)
Query: 337 AR-QVWFSNRRAKWRREEKL 355
AR QVWF NRRAKWR++EK+
Sbjct: 41 ARIQVWFQNRRAKWRKQEKV 60
>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 = 89.1 bits (221), Expect = 4e-22
Identities = 17/50 (34%), Positives = 27/50 (54%)
Query: 104 KRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
+R RTSF + Q+ +++ F H PD ++LA K GL + +QV
Sbjct: 4 GSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQV 53
Score = 58.6 bits (142), Expect = 2e-11
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
F H PD ++LA K GL + +QV
Sbjct: 24 SYFAINHNPDAKDLKQLAQKTGLTKRVLQV 53
Score = 43.6 bits (103), Expect = 4e-06
Identities = 12/27 (44%), Positives = 14/27 (51%)
Query: 339 QVWFSNRRAKWRREEKLRNQRRGSTGS 365
QVWF N RAK+RR + S S
Sbjct: 52 QVWFQNARAKFRRNLLRQENGGVSGPS 78
>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 = 86.6 bits (215), Expect = 2e-21
Identities = 15/50 (30%), Positives = 25/50 (50%)
Query: 104 KRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
+ +RT FT+ Q+ L+ F+ YP E+L++ + LP I V
Sbjct: 4 GSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVV 53
Score = 57.8 bits (140), Expect = 4e-11
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
F+ YP E+L++ + LP I V
Sbjct: 24 DFFDANAYPKDDEFEQLSNLLNLPTRVIVV 53
Score = 41.6 bits (98), Expect = 2e-05
Identities = 7/16 (43%), Positives = 8/16 (50%)
Query: 339 QVWFSNRRAKWRREEK 354
VWF N R K R+
Sbjct: 52 VVWFQNARQKARKSGP 67
>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 = 81.6 bits (202), Expect = 1e-19
Identities = 14/48 (29%), Positives = 22/48 (45%)
Query: 106 KLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
K R RT +Q+ +L + PD +E+L + GL I+V
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRV 49
Score = 56.2 bits (136), Expect = 1e-10
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
+ PD +E+L + GL I+V
Sbjct: 20 TCYAANPRPDALMKEQLVEMTGLSPRVIRV 49
Score = 42.3 bits (100), Expect = 1e-05
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 339 QVWFSNRRAKWRREEKL 355
+VWF N+R K ++ +
Sbjct: 48 RVWFQNKRCKDKKRSIM 64
>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 = 78.6 bits (194), Expect = 2e-18
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 108 QRNRTSFTNEQIDSLEKEFERTH-YPDVFARERLADKIGLPEARIQV 153
+ T +Q++ LE F + + +PD +A + GL E + Q
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQK 48
Score = 55.9 bits (135), Expect = 2e-10
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 227 KEFERTH-YPDVFARERLADKIGLPEARIQV 256
F + + +PD +A + GL E + Q
Sbjct: 18 YNFNKVNKHPDPTTLCLIAAEAGLTEEQTQK 48
Score = 53.2 bits (128), Expect = 2e-09
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 339 QVWFSNRRAKWRREEKLRNQRRGST 363
Q WF R A+WRR E L ++ R T
Sbjct: 47 QKWFKQRLAEWRRSEGLPSECRSVT 71
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 78.2 bits (193), Expect = 3e-18
Identities = 17/74 (22%), Positives = 30/74 (40%), Gaps = 5/74 (6%)
Query: 108 QRNRTSFTNEQIDSLEKEFERTH-YPDVFARERLADKIGLPEARIQVSSINRVLRNLAAQ 166
+ + T +Q++ LE F + + +PD +A + GL E + Q R LA
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQR----LAEW 58
Query: 167 KEQQASAHNQTSET 180
+ + S T
Sbjct: 59 RRSEGLPSECRSVT 72
Score = 53.6 bits (129), Expect = 1e-09
Identities = 13/58 (22%), Positives = 21/58 (36%), Gaps = 5/58 (8%)
Query: 227 KEFERTH-YPDVFARERLADKIGLPEARIQVSSINRVLRNLAAQKEQQASAHNQTSET 283
F + + +PD +A + GL E + Q R LA + + S T
Sbjct: 19 YNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQR----LAEWRRSEGLPSECRSVT 72
Score = 51.3 bits (123), Expect = 9e-09
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 339 QVWFSNRRAKWRREEKLRNQRRGST 363
Q WF R A+WRR E L ++ R T
Sbjct: 48 QKWFKQRLAEWRRSEGLPSECRSVT 72
>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 = 77.1 bits (190), Expect = 7e-18
Identities = 14/62 (22%), Positives = 30/62 (48%)
Query: 92 SADEDSQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARI 151
S+ ++ +R RT+ T EQ++ L +++ P + +A ++GL + +
Sbjct: 2 SSGSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVV 61
Query: 152 QV 153
QV
Sbjct: 62 QV 63
Score = 50.9 bits (122), Expect = 1e-08
Identities = 6/30 (20%), Positives = 15/30 (50%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
+++ P + +A ++GL + +QV
Sbjct: 34 QKYLLDSNPTRKMLDHIAHEVGLKKRVVQV 63
Score = 39.4 bits (92), Expect = 1e-04
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 339 QVWFSNRRAKWRREEK 354
QVWF N RA+ R+
Sbjct: 62 QVWFQNTRARERKSGP 77
>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 = 72.4 bits (178), Expect = 2e-16
Identities = 15/50 (30%), Positives = 26/50 (52%)
Query: 104 KRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
+R RT T++Q+ L + F+ + P + +ADK GLP+ I+
Sbjct: 4 GSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKH 53
Score = 48.9 bits (117), Expect = 6e-08
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
+ F+ + P + +ADK GLP+ I+
Sbjct: 24 QYFDINNSPSEEQIKEMADKSGLPQKVIKH 53
Score = 38.9 bits (91), Expect = 2e-04
Identities = 5/16 (31%), Positives = 7/16 (43%)
Query: 339 QVWFSNRRAKWRREEK 354
+ WF N K R+
Sbjct: 52 KHWFRNTLFKERQSGP 67
>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 = 68.5 bits (167), Expect = 6e-14
Identities = 20/114 (17%), Positives = 37/114 (32%), Gaps = 15/114 (13%)
Query: 53 PPSPAHLALPHNPGSVTPISRDDAKEHESTSDINSEPNSSA-------------DEDSQM 99
+ P S + ISR + + S +P +
Sbjct: 28 GQAMTATEGPAY--SQSAISRFEKLDITPKSAQKLKPVLEKWLNEAELRNQEGQQNLMEF 85
Query: 100 RLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
K ++ RTSFT + I++L FE+ P +A ++ ++V
Sbjct: 86 VGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRV 139
Score = 44.6 bits (105), Expect = 9e-06
Identities = 5/30 (16%), Positives = 11/30 (36%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
FE+ P +A ++ ++V
Sbjct: 110 AYFEKNPLPTGQEITEMAKELNYDREVVRV 139
Score = 35.4 bits (81), Expect = 0.015
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 339 QVWFSNRRAKWRR 351
+VWFSNRR +
Sbjct: 138 RVWFSNRRQTLKN 150
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 65.9 bits (161), Expect = 6e-14
Identities = 10/45 (22%), Positives = 19/45 (42%)
Query: 109 RNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
+ ++EQ+ +L+ F R +P E L GL ++
Sbjct: 10 IYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRK 54
Score = 48.6 bits (116), Expect = 7e-08
Identities = 7/30 (23%), Positives = 10/30 (33%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
F R +P E L GL ++
Sbjct: 25 GSFCRNQFPGQSEVEHLTKVTGLSTREVRK 54
Score = 37.4 bits (87), Expect = 8e-04
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 339 QVWFSNRRAKWRREEKLRN 357
+ WFS+RR R + R+
Sbjct: 53 RKWFSDRRYHCRNLKGSRS 71
>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 = 67.8 bits (165), Expect = 1e-13
Identities = 24/109 (22%), Positives = 42/109 (38%), Gaps = 10/109 (9%)
Query: 55 SPAHLALPHNPGSVTPISRDDAKEHESTSDINSEP----------NSSADEDSQMRLRLK 104
L S T ISR +A + + P N+ ++ L
Sbjct: 34 GLTLGVLFGKVFSQTTISRFEALQLSLKNMSKLRPLLEKWVEEADNNENLQEISKSETLV 93
Query: 105 RKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
+ +R RTS N SLE F ++ P + +A+++GL + ++V
Sbjct: 94 QARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRV 142
Score = 41.3 bits (96), Expect = 2e-04
Identities = 6/30 (20%), Positives = 16/30 (53%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
F ++ P + +A+++GL + ++V
Sbjct: 113 TMFLKSPKPSLQQITHIANQLGLEKDVVRV 142
Score = 36.2 bits (83), Expect = 0.008
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 339 QVWFSNRRAKWRR 351
+VWFSNRR K +R
Sbjct: 141 RVWFSNRRQKGKR 153
>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 = 61.0 bits (148), Expect = 2e-12
Identities = 13/46 (28%), Positives = 21/46 (45%)
Query: 108 QRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
+ T EQI L+ F ++ +PD RL + GL + I+
Sbjct: 5 HHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKK 50
Score = 39.8 bits (93), Expect = 8e-05
Identities = 8/30 (26%), Positives = 14/30 (46%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
F ++ +PD RL + GL + I+
Sbjct: 21 ASFLQSQFPDDAEVYRLIEVTGLARSEIKK 50
Score = 31.7 bits (72), Expect = 0.060
Identities = 5/13 (38%), Positives = 9/13 (69%)
Query: 339 QVWFSNRRAKWRR 351
+ WFS+ R + +R
Sbjct: 49 KKWFSDHRYRCQR 61
>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 = 60.4 bits (146), Expect = 9e-12
Identities = 14/92 (15%), Positives = 30/92 (32%), Gaps = 17/92 (18%)
Query: 104 KRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIG---------------LPE 148
+ +R ++ E + +E F YPD RE +A+ +
Sbjct: 4 GSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTS 63
Query: 149 ARIQVSSINRVLRNLAAQKEQQASAHNQTSET 180
++ NR R ++ A+ + +
Sbjct: 64 LKVYNWFANR--RKEIKRRANIAAILESSGPS 93
Score = 40.8 bits (95), Expect = 8e-05
Identities = 14/65 (21%), Positives = 20/65 (30%), Gaps = 3/65 (4%)
Query: 304 TPTPSPAH---LALPHNPGSVTPISRDDAKGLVQQSARQVWFSNRRAKWRREEKLRNQRR 360
P A +A N P + V WF+NRR + +R +
Sbjct: 29 NQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYNWFANRRKEIKRRANIAAILE 88
Query: 361 GSTGS 365
S S
Sbjct: 89 SSGPS 93
Score = 36.9 bits (85), Expect = 0.002
Identities = 11/72 (15%), Positives = 21/72 (29%), Gaps = 17/72 (23%)
Query: 227 KEFERTHYPDVFARERLADKIG---------------LPEARIQVSSINRVLRNLAAQKE 271
F YPD RE +A+ + ++ NR R ++
Sbjct: 24 SYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYNWFANR--RKEIKRRA 81
Query: 272 QQASAHNQTSET 283
A+ + +
Sbjct: 82 NIAAILESSGPS 93
>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 = 60.8 bits (147), Expect = 2e-11
Identities = 21/116 (18%), Positives = 42/116 (36%), Gaps = 13/116 (11%)
Query: 49 GSTPPPSPAHLALPHNPG-SVTPISR----------DDAKEHESTSDINSEPNSSADEDS 97
G T LA H S T I R + + + A +
Sbjct: 20 GYTQTNVGEALAAVHGSEFSQTTICRFENLQLSFKNACKLKAILSKWLEEAEQVGALYNE 79
Query: 98 QMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
++ +++ + RT+ + D+LE+ F P R+A+++ L + ++V
Sbjct: 80 KVGANERKR--KRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRV 133
Score = 39.2 bits (91), Expect = 6e-04
Identities = 6/30 (20%), Positives = 14/30 (46%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
+ F P R+A+++ L + ++V
Sbjct: 104 RHFGEHSKPSSQEIMRMAEELNLEKEVVRV 133
Score = 36.5 bits (84), Expect = 0.006
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 339 QVWFSNRRAKWRR 351
+VWF NRR + +R
Sbjct: 132 RVWFCNRRQREKR 144
>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 = 60.3 bits (145), Expect = 9e-11
Identities = 14/68 (20%), Positives = 23/68 (33%)
Query: 77 KEHESTSDINSEPNSSADEDSQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFA 136
K+ E E+ +K +RNR + L + +ER P
Sbjct: 85 KQREVAQQFTHAGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEE 144
Query: 137 RERLADKI 144
RE L ++
Sbjct: 145 RETLVEEC 152
Score = 37.9 bits (87), Expect = 0.003
Identities = 20/157 (12%), Positives = 43/157 (27%), Gaps = 14/157 (8%)
Query: 92 SADEDSQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARI 151
S +E + + ++ LQ + L + + + + +
Sbjct: 9 SPEEAAHQKAVVETLLQEDPWRVAKMVKSYL-------------QQHNIPQREVVDTTGL 55
Query: 152 QVSSINRVLRNLAAQKEQQASAHNQTSETVYDKLRMFNGQPGWAWYPGSTPTPSPAHLAL 211
S +++ L K Q+ +A ++ G
Sbjct: 56 NQSHLSQHLNKGTPMKTQKRAALYTWYVRKQREVAQQFTHAGQGGLIEEPTGDELPTKKG 115
Query: 212 PHNPGSVTPISRDD-AKEFERTHYPDVFARERLADKI 247
N P S+ + +ER P RE L ++
Sbjct: 116 RRNRFKWGPASQQILFQAYERQKNPSKEERETLVEEC 152
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 59.6 bits (144), Expect = 9e-11
Identities = 14/69 (20%), Positives = 29/69 (42%)
Query: 85 INSEPNSSADEDSQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKI 144
+ +SS + ++ + + ++ RTS +LE F + P LAD +
Sbjct: 77 LEETDSSSGSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSL 136
Query: 145 GLPEARIQV 153
L + ++V
Sbjct: 137 QLEKEVVRV 145
Score = 41.2 bits (96), Expect = 2e-04
Identities = 7/30 (23%), Positives = 12/30 (40%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
F + P LAD + L + ++V
Sbjct: 116 SHFLKCPKPSAHEITGLADSLQLEKEVVRV 145
Score = 37.3 bits (86), Expect = 0.004
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 339 QVWFSNRRAKWRREEK 354
+VWF NRR K +R
Sbjct: 144 RVWFCNRRQKEKRMTP 159
>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 = 58.8 bits (142), Expect = 1e-10
Identities = 19/92 (20%), Positives = 38/92 (41%), Gaps = 1/92 (1%)
Query: 62 PHNPGSVTPISRDDAKEHESTSDINSEPNSSADEDSQMRLRLKRKLQRNRTSFTNEQIDS 121
N + P+ + E+ +S +S + +S L R+ ++ RTS +
Sbjct: 57 FKNMSKLKPLLEKWLNDAEANLSSDSSLSSPSALNSPGIEGLSRR-RKKRTSIETNIRVA 115
Query: 122 LEKEFERTHYPDVFARERLADKIGLPEARIQV 153
LEK F P +A+++ + + I+V
Sbjct: 116 LEKSFMENQKPTSEDITLIAEQLNMEKEVIRV 147
Score = 34.9 bits (80), Expect = 0.019
Identities = 6/30 (20%), Positives = 13/30 (43%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
K F P +A+++ + + I+V
Sbjct: 118 KSFMENQKPTSEDITLIAEQLNMEKEVIRV 147
Score = 34.6 bits (79), Expect = 0.030
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 339 QVWFSNRRAKWRR 351
+VWFSNRR K +R
Sbjct: 146 RVWFSNRRQKEKR 158
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 58.5 bits (140), Expect = 5e-10
Identities = 19/116 (16%), Positives = 38/116 (32%), Gaps = 1/116 (0%)
Query: 45 AWYPGSTPPPSPAHLALPHNPGSVTPISRDDAKEHESTSDINSEPNSSADEDSQMRLRLK 104
WY + G++T S D + + + + D
Sbjct: 81 TWYVRKQREILRQFNQTVQSSGNMTDKSSQDQLLFLF-PEFSQQSHGPGQSDDACSEPTN 139
Query: 105 RKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINRVL 160
+K++RNR + L + ++R P RE L ++ E + S ++
Sbjct: 140 KKMRRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAH 195
Score = 32.7 bits (73), Expect = 0.22
Identities = 12/97 (12%), Positives = 29/97 (29%), Gaps = 4/97 (4%)
Query: 171 ASAHNQTSETVYDKLRMFNGQPGWAWYPGSTPTPSPAHLALPHNPGSVTPISRDDAKE-- 228
S+ N T ++ D+L + + + + + +
Sbjct: 99 QSSGNMTDKSSQDQLLFLFPEFSQQSHGPGQSDDACSEPTNKKMRRNRFKWGPASQQILY 158
Query: 229 --FERTHYPDVFARERLADKIGLPEARIQVSSINRVL 263
++R P RE L ++ E + S ++
Sbjct: 159 QAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAH 195
>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 = 53.7 bits (129), Expect = 1e-09
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 109 RNRTSFTNEQIDSLEKEFERT-HYPDVFARERLADKIGLPEARIQV 153
R+RT + E + L+ YPD A L+ ++ LP+ I
Sbjct: 9 RSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIK 54
Score = 34.8 bits (80), Expect = 0.005
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 230 ERTHYPDVFARERLADKIGLPEARIQV 256
+ YPD A L+ ++ LP+ I
Sbjct: 28 DVGLYPDQEAIHTLSAQLDLPKHTIIK 54
Score = 30.6 bits (69), Expect = 0.16
Identities = 3/16 (18%), Positives = 6/16 (37%)
Query: 339 QVWFSNRRAKWRREEK 354
+F N+R +
Sbjct: 53 IKFFQNQRYHVKHSGP 68
>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 = 51.8 bits (125), Expect = 4e-09
Identities = 14/55 (25%), Positives = 28/55 (50%)
Query: 104 KRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINR 158
K K + ++S + + LE+ F R + +E +A K G+ +++V IN+
Sbjct: 2 KEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINK 56
Score = 32.2 bits (74), Expect = 0.037
Identities = 6/17 (35%), Positives = 10/17 (58%), Gaps = 2/17 (11%)
Query: 336 SARQV--WFSNRRAKWR 350
+ QV WF N+R + +
Sbjct: 45 TPLQVRVWFINKRMRSK 61
Score = 29.1 bits (66), Expect = 0.49
Identities = 9/35 (25%), Positives = 18/35 (51%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQVSSINR 261
+ F R + +E +A K G+ +++V IN+
Sbjct: 22 EVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINK 56
>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 = 57.8 bits (139), Expect = 6e-09
Identities = 78/431 (18%), Positives = 144/431 (33%), Gaps = 116/431 (26%)
Query: 52 PPPSPAHLAL-----------PHNPGSVTPISRDDAKEHEST----SDINSEPNSSADED 96
P +PA L P G + E E+ +DI++ + ++
Sbjct: 53 EPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALA-AKLLQE 111
Query: 97 SQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARI----- 151
+ L ++L +N + +I ++ F++ +F R + A++
Sbjct: 112 NDTTLVKTKELIKN---YITARI-MAKRPFDKKSNSALF---RAVGE---GNAQLVAIFG 161
Query: 152 -QVSSINRV--LRNL--------------AAQKEQQASAHNQTSETVYDKLRMFNGQPGW 194
Q ++ + LR+L +A+ + +E V+ + G
Sbjct: 162 GQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ-----GLNIL 216
Query: 195 AWYPGSTPTPSPAHLALPHNPGSVTPISRDDAKEFERTHYPDVFARERLADKIGL-P-EA 252
W + TP +L P S I HY V A+ +G P E
Sbjct: 217 EWLENPSNTPDKDYLL--SIPISCPLIGVIQL-----AHYV-VTAK-----LLGFTPGEL 263
Query: 253 RIQVSSINRVLRNL--AAQKEQQASAHNQTSETVYDKLR-----MFNGQPGWA---WYPG 302
R + + L A A A + E+ + +R +F G YP
Sbjct: 264 RSYLKGATGHSQGLVTAV-----AIAETDSWESFFVSVRKAITVLF--FIGVRCYEAYPN 316
Query: 303 STPTPSPAHLALPHNPGSVTPIS--RDDAKGLVQQSARQVWFSNRRAKWRREEK----LR 356
++ PS +L +N G +P+ + + VQ + N ++ L
Sbjct: 317 TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKT---NSHLP--AGKQVEISLV 371
Query: 357 NQRR-----GSTGSVNSANTT----TSTTALD--HVPPTSQSPPPSSR-LPLN-PGGFNP 403
N + G S+ N T + + LD +P + + S+R LP+ P F+
Sbjct: 372 NGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP--FH- 428
Query: 404 SSMYSSIPQPA 414
S + PA
Sbjct: 429 ----SHLLVPA 435
Score = 52.7 bits (126), Expect = 2e-07
Identities = 78/503 (15%), Positives = 136/503 (27%), Gaps = 187/503 (37%)
Query: 50 STPPPSPAH------LALPHNPGSVTPISRDD--AKEHESTSDINS--EPNSSADEDSQM 99
ST P + +H L +P + ++ E T + EP + A+
Sbjct: 5 STRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE----- 59
Query: 100 RLRLK------RKLQRNRTSFTNEQIDSLEKEFERT--HYPDVFARERLADKIGLPEARI 151
L K ++ ++ ++ ++ EFE D+ A LA K+ L E
Sbjct: 60 -LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHA---LAAKL-LQENDT 114
Query: 152 QVSSINRVLRN-LAAQ-------KEQQASAHNQTSETVYDKLRM---FNGQPGWAWYPGS 200
+ +++N + A+ ++ SA + ++ F GQ G+
Sbjct: 115 TLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE--GNAQLVAIFGGQ-------GN 165
Query: 201 TPTPSPAHLALPHNPGSVTPISRDDAKEFE--RTHYPDVFARERLADKIGLPEARIQVSS 258
T FE R Y + L I+ S+
Sbjct: 166 TDDY------------------------FEELRDLY-QTYH--------VLVGDLIKFSA 192
Query: 259 INRVLRNLAAQKEQQASAHNQTSETVYDKLRMFNGQPGWAWYPGSTPTPSPAHLALPHNP 318
L L Q + L W + TP +L P
Sbjct: 193 --ETLSELIRTTLDAEKVFTQ----GLNIL---------EWLENPSNTPDKDYLL--SIP 235
Query: 319 GSVTPISRDDAKGLVQQSARQVWFSN-----RRAKWRREEKLRNQRRGSTGSVN------ 367
S P+ G++Q ++ + + E LR+ +G+TG
Sbjct: 236 ISC-PLI-----GVIQ-------LAHYVVTAKLLGFTPGE-LRSYLKGATGHSQGLVTAV 281
Query: 368 ---SANT-----TTSTTALD----------HVPPTSQSPPPSSRLPLNPGGFNPSSMYSS 409
++ + A+ P + PP L PS M S
Sbjct: 282 AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM-LS 340
Query: 410 IPQPAGMDSYNPSCLQQAAREHHHHSSYSYMFHDSLHSLQSAYQRAAPAAHSSPHPHPAH 469
I + + +Q + + H SL
Sbjct: 341 I---SNLT---QEQVQDYVNKTNSHLPAGKQVEISLV----------------------- 371
Query: 470 PGSSPYGTSNS-----VNGPPTS 487
N V+GPP S
Sbjct: 372 ---------NGAKNLVVSGPPQS 385
Score = 37.3 bits (86), Expect = 0.013
Identities = 54/358 (15%), Positives = 105/358 (29%), Gaps = 140/358 (39%)
Query: 21 ASAHNQTSETVYDKLR-----MFNGQPGWA---WYPGSTPPPSPAHLALPHNPG------ 66
A A + E+ + +R +F G YP ++ PPS +L +N G
Sbjct: 282 AIAETDSWESFFVSVRKAITVLF--FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML 339
Query: 67 SVTPISRDDAKEHESTSDINSEPNSSADEDSQMRLRLKRKLQRN-RTSFTNEQIDSLEKE 125
S++ ++++ +++ +N + NS Q+ + L N +
Sbjct: 340 SISNLTQEQVQDY-----VN-KTNSHLPAGKQVEISL-----VNGAKNL----------- 377
Query: 126 FERTHYPDVFARERLADKIGLPEARIQVSSINRVLRNLAAQKEQQASAHNQTSETVYDKL 185
V + G P++ + +N LR A S +Q+
Sbjct: 378 --------VVS--------GPPQS---LYGLNLTLRKAKA-----PSGLDQS-------- 405
Query: 186 RMFNGQPGWAWYPGSTPTPSPAHLALP-----HNP---GSVTPISRDDAKEFERTHYPD- 236
R+ P S ++ LP H+ + I++D K + D
Sbjct: 406 RI----------PFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDI 455
Query: 237 ---VFARERLADKIGLPEARIQVSSINRVLRNLAAQKEQQASAHNQTSETVYDKLRMFNG 293
V+ +D ++V S + + + V
Sbjct: 456 QIPVYDTFDGSD--------LRVLSGS-ISERIVDC---------IIRLPVK-------- 489
Query: 294 QPGWAWYPGSTPTPSPAHLALPHNPGSVTPISRDDAKGLVQQSARQVWFSNRRAKWRR 351
W +T H+ L PG + + L + N+ R
Sbjct: 490 ---W---ETTTQF-KATHI-LDFGPGGASGLGV-----LTHR--------NKDGTGVR 526
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 51.4 bits (122), Expect = 1e-08
Identities = 13/50 (26%), Positives = 21/50 (42%)
Query: 100 RLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEA 149
R+ +K +RNR + L + +ER P RE L ++ E
Sbjct: 2 RIDPTKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAEC 51
Score = 34.0 bits (77), Expect = 0.019
Identities = 7/20 (35%), Positives = 9/20 (45%)
Query: 339 QVWFSNRRAKWRREEKLRNQ 358
WF+NRR + KL
Sbjct: 75 YNWFANRRKEEAFRHKLAMD 94
Score = 30.6 bits (68), Expect = 0.35
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEA 252
+ +ER P RE L ++ E
Sbjct: 26 QAYERQKNPSKEERETLVEECNRAEC 51
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 50.6 bits (120), Expect = 9e-08
Identities = 14/86 (16%), Positives = 32/86 (37%)
Query: 89 PNSSADEDSQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPE 148
+ ++ + ++ R FT+ Q +L F+ P + ++ ++GL
Sbjct: 79 LAACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLEL 138
Query: 149 ARIQVSSINRVLRNLAAQKEQQASAH 174
+ + +N R+L E H
Sbjct: 139 STVSNFFMNARRRSLDKWLEHHHHHH 164
Score = 42.2 bits (98), Expect = 7e-05
Identities = 14/118 (11%), Positives = 30/118 (25%), Gaps = 4/118 (3%)
Query: 161 RNLAAQKEQQASAHNQTSETVYDKLRMFNGQPGWAWYPGSTPTPSPAHLALPHNPGSVTP 220
L + +E E + ++ T
Sbjct: 50 SKLKSGRETFRRMWKWLQEPEFQRMSALRLAACKRKEQEHGKDRGNTP---KKPRLVFTD 106
Query: 221 ISRDDAKE-FERTHYPDVFARERLADKIGLPEARIQVSSINRVLRNLAAQKEQQASAH 277
+ R F+ P + ++ ++GL + + +N R+L E H
Sbjct: 107 VQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNARRRSLDKWLEHHHHHH 164
>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 = 46.9 bits (111), Expect = 4e-07
Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 1/67 (1%)
Query: 115 TNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSIN-RVLRNLAAQKEQQASA 173
T Q+ LE F ++ +P +RL + L I R LR+ Q +
Sbjct: 21 TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSMEQAVLDSMG 80
Query: 174 HNQTSET 180
++ +
Sbjct: 81 SGKSGPS 87
Score = 36.5 bits (84), Expect = 0.002
Identities = 10/58 (17%), Positives = 20/58 (34%), Gaps = 1/58 (1%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQVSSIN-RVLRNLAAQKEQQASAHNQTSET 283
F ++ +P +RL + L I R LR+ Q + ++ +
Sbjct: 30 DSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSMEQAVLDSMGSGKSGPS 87
Score = 33.4 bits (76), Expect = 0.023
Identities = 10/31 (32%), Positives = 12/31 (38%)
Query: 339 QVWFSNRRAKWRREEKLRNQRRGSTGSVNSA 369
WFS RR E+ GS S S+
Sbjct: 58 DSWFSERRKLRDSMEQAVLDSMGSGKSGPSS 88
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 46.3 bits (110), Expect = 6e-07
Identities = 14/66 (21%), Positives = 34/66 (51%)
Query: 88 EPNSSADEDSQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLP 147
+P S+ + ++ ++ K Q+ RT F++ Q+ L F+R Y + + L++ + L
Sbjct: 3 QPTSAENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLS 62
Query: 148 EARIQV 153
+++
Sbjct: 63 YKQVKT 68
Score = 30.5 bits (69), Expect = 0.21
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 336 SARQV--WFSNRRAKWRREEK 354
S +QV WF N+R K +R +K
Sbjct: 62 SYKQVKTWFQNQRMKSKRWQK 82
>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 = 44.9 bits (106), Expect = 1e-06
Identities = 11/63 (17%), Positives = 22/63 (34%)
Query: 111 RTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINRVLRNLAAQKEQQ 170
EQ+ +LE F + P +RL + + I R + A + ++
Sbjct: 11 YKERAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKVNAEETKKS 70
Query: 171 ASA 173
+
Sbjct: 71 GPS 73
Score = 34.5 bits (79), Expect = 0.009
Identities = 7/50 (14%), Positives = 16/50 (32%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQVSSINRVLRNLAAQKEQQASA 276
F + P +RL + + I R + A + ++ +
Sbjct: 24 SSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKVNAEETKKSGPS 73
Score = 28.7 bits (64), Expect = 0.83
Identities = 8/16 (50%), Positives = 8/16 (50%)
Query: 339 QVWFSNRRAKWRREEK 354
WFS RR K EE
Sbjct: 52 DSWFSERRKKVNAEET 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 = 44.8 bits (106), Expect = 2e-06
Identities = 21/67 (31%), Positives = 33/67 (49%)
Query: 92 SADEDSQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARI 151
S+ +K +R+RT FT Q+ LEK FE+ Y R LA+ +GL + ++
Sbjct: 2 SSGSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQV 61
Query: 152 QVSSINR 158
+ NR
Sbjct: 62 KTWYQNR 68
Score = 32.8 bits (75), Expect = 0.032
Identities = 9/21 (42%), Positives = 12/21 (57%), Gaps = 2/21 (9%)
Query: 336 SARQV--WFSNRRAKWRREEK 354
S QV W+ NRR KW++
Sbjct: 57 SQLQVKTWYQNRRMKWKKSGP 77
>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 = 45.0 bits (106), Expect = 2e-06
Identities = 11/66 (16%), Positives = 21/66 (31%)
Query: 115 TNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINRVLRNLAAQKEQQASAH 174
T EQ+ L+ F + RL + L I + +++ +
Sbjct: 19 TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEEKMEIDES 78
Query: 175 NQTSET 180
N S +
Sbjct: 79 NAGSSS 84
Score = 35.4 bits (81), Expect = 0.006
Identities = 7/57 (12%), Positives = 15/57 (26%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQVSSINRVLRNLAAQKEQQASAHNQTSET 283
F + RL + L I + +++ + N S +
Sbjct: 28 ASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEEKMEIDESNAGSSS 84
Score = 30.4 bits (68), Expect = 0.31
Identities = 5/27 (18%), Positives = 11/27 (40%)
Query: 339 QVWFSNRRAKWRREEKLRNQRRGSTGS 365
WF+ ++ +E+ + GS
Sbjct: 56 DAWFTEKKKSKALKEEKMEIDESNAGS 82
>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 = 43.9 bits (104), Expect = 3e-06
Identities = 23/55 (41%), Positives = 35/55 (63%), Gaps = 6/55 (10%)
Query: 107 LQRNRTSFTNEQIDSLEKEFERTHYPDVFARER---LADKIGLPEARIQVSSINR 158
++R RT+FT +Q+ LEKEF + +Y +R R LA ++ LPE+ I+V NR
Sbjct: 1 VRRYRTAFTRDQLGRLEKEFYKENY---VSRPRRCELAAQLNLPESTIKVWFQNR 52
Score = 30.8 bits (70), Expect = 0.12
Identities = 7/20 (35%), Positives = 10/20 (50%), Gaps = 2/20 (10%)
Query: 336 SARQV--WFSNRRAKWRREE 353
+ WF NRR K +R+
Sbjct: 41 PESTIKVWFQNRRMKDKRQR 60
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 44.9 bits (106), Expect = 3e-06
Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 3/83 (3%)
Query: 97 SQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSI 156
+ R K ++ RTSFT Q+ LEK F + Y R LA + + +A+++
Sbjct: 7 HPYQNRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQ 66
Query: 157 NRVL---RNLAAQKEQQASAHNQ 176
NR R A ++E + A N+
Sbjct: 67 NRRTKWRRQTAEEREAERQAANR 89
Score = 33.7 bits (77), Expect = 0.019
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 336 SARQV--WFSNRRAKWRREEKLRNQRRGSTGS 365
+ QV WF NRR KWRR+ + +
Sbjct: 57 TDAQVKTWFQNRRTKWRRQTAEEREAERQAAN 88
>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 = 44.8 bits (105), Expect = 3e-06
Identities = 17/68 (25%), Positives = 25/68 (36%)
Query: 86 NSEPNSSADEDSQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIG 145
+ +SS E K T EQ+ L+ F RT +P ++LA + G
Sbjct: 4 HHHHHSSGLEVLFQGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESG 63
Query: 146 LPEARIQV 153
L I
Sbjct: 64 LARTDIVS 71
Score = 29.8 bits (66), Expect = 0.56
Identities = 11/65 (16%), Positives = 19/65 (29%), Gaps = 6/65 (9%)
Query: 198 PGSTPTPSPAHLALPHNPGSVTPISRDDA------KEFERTHYPDVFARERLADKIGLPE 251
S+ P + + + F RT +P ++LA + GL
Sbjct: 7 HHSSGLEVLFQGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLAR 66
Query: 252 ARIQV 256
I
Sbjct: 67 TDIVS 71
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 43.4 bits (103), Expect = 3e-06
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 109 RNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
+ R F+ Q+ LE+ F++ Y R++LA + L QV
Sbjct: 4 KPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTST--QV 46
Score = 28.7 bits (65), Expect = 0.59
Identities = 8/17 (47%), Positives = 11/17 (64%), Gaps = 2/17 (11%)
Query: 336 SARQV--WFSNRRAKWR 350
++ QV WF NRR K +
Sbjct: 42 TSTQVKIWFQNRRYKSK 58
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 43.5 bits (103), Expect = 4e-06
Identities = 12/49 (24%), Positives = 30/49 (61%)
Query: 105 RKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
++ RT +++ Q+ +L++ F++T Y + R LA +GL + ++++
Sbjct: 5 SSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKI 53
Score = 31.6 bits (72), Expect = 0.063
Identities = 7/21 (33%), Positives = 12/21 (57%), Gaps = 2/21 (9%)
Query: 336 SARQV--WFSNRRAKWRREEK 354
+ QV WF N+R+K ++
Sbjct: 47 TQTQVKIWFQNKRSKIKKSGP 67
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 42.6 bits (101), Expect = 7e-06
Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 109 RNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
+ RT FT Q+ +LE++F + Y + R + + L E QV
Sbjct: 2 KPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTET--QV 44
Score = 31.4 bits (72), Expect = 0.061
Identities = 10/18 (55%), Positives = 12/18 (66%), Gaps = 2/18 (11%)
Query: 336 SARQV--WFSNRRAKWRR 351
+ QV WF NRRAK +R
Sbjct: 40 TETQVKIWFQNRRAKAKR 57
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 42.3 bits (100), Expect = 8e-06
Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 106 KLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
Q+ RT F+ Q+ +L+ F++ Y + + L+ + L QV
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYK--QV 47
Score = 32.6 bits (75), Expect = 0.027
Identities = 9/20 (45%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 336 SARQV--WFSNRRAKWRREE 353
S +QV WF N+R K +R +
Sbjct: 43 SYKQVKTWFQNQRMKCKRWQ 62
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 42.3 bits (100), Expect = 1e-05
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 103 LKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
++RK R F+ Q+ LE+ F++ Y RE LA I L QV
Sbjct: 1 MRRKR---RVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPT--QV 46
Score = 31.9 bits (73), Expect = 0.045
Identities = 10/37 (27%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 326 RDDAKGLVQQSARQV--WFSNRRAKWRREEKLRNQRR 360
R+ ++ + QV WF N R K +R+ K + ++
Sbjct: 32 REHLASMIHLTPTQVKIWFQNHRYKMKRQAKDKAAQQ 68
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 41.5 bits (98), Expect = 1e-05
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 112 TSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
TSF+ Q+ LE+ F R Y R LA + + +A+++
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKT 43
Score = 32.7 bits (75), Expect = 0.023
Identities = 11/19 (57%), Positives = 13/19 (68%), Gaps = 2/19 (10%)
Query: 336 SARQV--WFSNRRAKWRRE 352
+ QV WF NRR KWRR+
Sbjct: 37 TDAQVKTWFQNRRTKWRRQ 55
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 42.0 bits (99), Expect = 1e-05
Identities = 10/48 (20%), Positives = 22/48 (45%)
Query: 106 KLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
+ + ++ Q+ LE++F Y R LA + L E ++++
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKI 50
Score = 33.1 bits (76), Expect = 0.019
Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 336 SARQV--WFSNRRAKWRREEK 354
+ QV WF NRR K +R++
Sbjct: 44 TETQVKIWFQNRRYKTKRKQL 64
>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 = 41.5 bits (98), Expect = 2e-05
Identities = 17/45 (37%), Positives = 31/45 (68%)
Query: 109 RNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
R RT+F++EQ+ L++EF Y R++L+ ++GL EA+I++
Sbjct: 5 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKI 49
Score = 30.0 bits (68), Expect = 0.19
Identities = 7/18 (38%), Positives = 12/18 (66%), Gaps = 2/18 (11%)
Query: 336 SARQV--WFSNRRAKWRR 351
+ Q+ WF N+RAK ++
Sbjct: 43 NEAQIKIWFKNKRAKIKK 60
>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 = 41.6 bits (98), Expect = 2e-05
Identities = 17/54 (31%), Positives = 27/54 (50%)
Query: 105 RKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINR 158
+ + F+N+Q LEK+FE Y R+RLA + L E +++ NR
Sbjct: 5 SSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNR 58
Score = 34.3 bits (79), Expect = 0.008
Identities = 14/21 (66%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 336 SARQV--WFSNRRAKWRREEK 354
S RQV WF NRRAKWRR
Sbjct: 47 SERQVKTWFQNRRAKWRRSGP 67
>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 = 41.7 bits (98), Expect = 3e-05
Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 2/49 (4%)
Query: 105 RKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
K ++ R FT Q LE+ F + Y RE LA I L QV
Sbjct: 7 NKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPT--QV 53
Score = 31.3 bits (71), Expect = 0.10
Identities = 10/31 (32%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 326 RDDAKGLVQQSARQV--WFSNRRAKWRREEK 354
R+ L++ + QV WF N R K +R +
Sbjct: 39 REHLASLIRLTPTQVKIWFQNHRYKTKRAQN 69
>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 = 40.0 bits (93), Expect = 8e-05
Identities = 10/45 (22%), Positives = 17/45 (37%)
Query: 109 RNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
+ T EQ+ L+ F + + ++L GLP I
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQ 49
Score = 28.8 bits (64), Expect = 0.70
Identities = 6/30 (20%), Positives = 10/30 (33%)
Query: 227 KEFERTHYPDVFARERLADKIGLPEARIQV 256
F + + ++L GLP I
Sbjct: 20 SFFLQCQWARREDYQKLEQITGLPRPEIIQ 49
>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 = 39.3 bits (92), Expect = 1e-04
Identities = 17/50 (34%), Positives = 27/50 (54%)
Query: 109 RNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINR 158
R RT+FT+ QI LE+ F + Y L+ K+ L A++++ NR
Sbjct: 4 RTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNR 53
Score = 33.9 bits (78), Expect = 0.010
Identities = 7/26 (26%), Positives = 11/26 (42%), Gaps = 2/26 (7%)
Query: 336 SARQV--WFSNRRAKWRREEKLRNQR 359
QV WF NRR + + + +
Sbjct: 42 GTAQVKIWFKNRRRRHKIQSDQHKDQ 67
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 40.5 bits (94), Expect = 0.001
Identities = 18/110 (16%), Positives = 29/110 (26%), Gaps = 8/110 (7%)
Query: 382 PPTSQSPP--PSSRLPLNPGGFNPSSMYSSIPQPAGMDSYNPSCLQQAAREHHHHSSYSY 439
PT + PS L PG +P ++S I + + S
Sbjct: 26 SPTGRGSMAAPSLHPSLGPGIGSPGQLHSPIS------TLSSPINGMGPPFSVISSPMGP 79
Query: 440 MFHDSLHSLQSAYQRAAPAAHSSPHPHPAHPGSSPYGTSNSVNGPPTSTG 489
+ + +P S +P + P N V P
Sbjct: 80 HSMSVPTTPTLGFSTGSPQLSSPMNPVSSSEDIKPPLGLNGVLKVPAHPS 129
Score = 32.0 bits (72), Expect = 0.49
Identities = 16/62 (25%), Positives = 19/62 (30%), Gaps = 3/62 (4%)
Query: 429 REHHHHSSYSYMFHDSLHSLQSAYQRAAPAAHSSPHPHPAHPGSSPYGTSNSVNGPPTST 488
HHHH D + S Q +P S HP P S P ST
Sbjct: 2 AHHHHHHVDD---DDKMFSTQVNSSLTSPTGRGSMAAPSLHPSLGPGIGSPGQLHSPIST 58
Query: 489 GT 490
+
Sbjct: 59 LS 60
Score = 29.3 bits (65), Expect = 3.0
Identities = 17/70 (24%), Positives = 21/70 (30%), Gaps = 5/70 (7%)
Query: 425 QQAAREHHHHSSYSYMFHDSLHSLQSAYQRAAPAAHSSPHPHPAHPGSSPYGTSNSVN-- 482
+S + SL S AAP+ H S P PG S +
Sbjct: 4 HHHHHVDDDDKMFSTQVNSSLTSPTGRGSMAAPSLHPSLGPGIGSPGQLHSPISTLSSPI 63
Query: 483 ---GPPTSTG 489
GPP S
Sbjct: 64 NGMGPPFSVI 73
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 35.8 bits (83), Expect = 0.002
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 6/54 (11%)
Query: 108 QRNRTSFTNEQIDSLEKEFERTHYPDVFARER---LADKIGLPEARIQVSSINR 158
+R RT++T Q+ LEKEF Y +R R LA + L E I++ NR
Sbjct: 4 KRTRTAYTRAQLLELEKEFLFNKY---ISRPRRVELAVMLNLTERHIKIWFQNR 54
Score = 31.2 bits (71), Expect = 0.088
Identities = 10/20 (50%), Positives = 14/20 (70%), Gaps = 2/20 (10%)
Query: 336 SARQV--WFSNRRAKWRREE 353
+ R + WF NRR KW++EE
Sbjct: 43 TERHIKIWFQNRRMKWKKEE 62
>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 = 37.8 bits (87), Expect = 0.002
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 4/50 (8%)
Query: 125 EFERTHYPDVFARE----RLADKIGLPEARIQVSSINRVLRNLAAQKEQQ 170
+ P +FA E LA+++ + VSSINR++R Q Q
Sbjct: 100 AEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTKVQQPPNQ 149
Score = 37.8 bits (87), Expect = 0.002
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 4/50 (8%)
Query: 228 EFERTHYPDVFARE----RLADKIGLPEARIQVSSINRVLRNLAAQKEQQ 273
+ P +FA E LA+++ + VSSINR++R Q Q
Sbjct: 100 AEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTKVQQPPNQ 149
Score = 33.2 bits (75), Expect = 0.068
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 3 VSSINRVLRNLAAQKEQQ 20
VSSINR++R Q Q
Sbjct: 132 VSSINRIIRTKVQQPPNQ 149
>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 = 35.1 bits (81), Expect = 0.004
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 6/54 (11%)
Query: 108 QRNRTSFTNEQIDSLEKEFERTHYPDVFARER---LADKIGLPEARIQVSSINR 158
+R R ++T Q LEKEF Y R R +A + L E +I++ NR
Sbjct: 3 KRGRQTYTRYQTLELEKEFHFNRY---LTRRRRIEIAHALSLTERQIKIWFQNR 53
Score = 33.9 bits (78), Expect = 0.009
Identities = 11/25 (44%), Positives = 17/25 (68%), Gaps = 2/25 (8%)
Query: 336 SARQV--WFSNRRAKWRREEKLRNQ 358
+ RQ+ WF NRR KW++E K + +
Sbjct: 42 TERQIKIWFQNRRMKWKKENKTKGE 66
>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 = 34.0 bits (78), Expect = 0.009
Identities = 11/51 (21%), Positives = 24/51 (47%)
Query: 108 QRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINR 158
++ R ++ Q+ LE+E+ + R +++ L E +I + NR
Sbjct: 8 RKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNR 58
Score = 32.1 bits (73), Expect = 0.041
Identities = 9/23 (39%), Positives = 12/23 (52%), Gaps = 2/23 (8%)
Query: 336 SARQV--WFSNRRAKWRREEKLR 356
S RQ+ WF NRR K ++
Sbjct: 47 SERQITIWFQNRRVKEKKSGPSS 69
>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 = 33.6 bits (77), Expect = 0.017
Identities = 23/67 (34%), Positives = 34/67 (50%), Gaps = 9/67 (13%)
Query: 108 QRNRTSFTNEQIDSLEKEFERTHYPDVFARER---LADKIGLPEARIQVSSINRVLRNLA 164
+R R ++T Q LEKEF HY R R +A + L E +I++ NR ++
Sbjct: 21 RRGRQTYTRYQTLELEKEFHTNHY---LTRRRRIEMAHALSLTERQIKIWFQNRRMK--- 74
Query: 165 AQKEQQA 171
+KE QA
Sbjct: 75 LKKEIQA 81
Score = 32.9 bits (75), Expect = 0.036
Identities = 9/21 (42%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 336 SARQV--WFSNRRAKWRREEK 354
+ RQ+ WF NRR K ++E +
Sbjct: 60 TERQIKIWFQNRRMKLKKEIQ 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 = 33.3 bits (76), Expect = 0.019
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 336 SARQV--WFSNRRAKWRREEKLRNQ 358
+ RQV WF NRR K ++ K R +
Sbjct: 53 TERQVKIWFQNRRMKMKKINKDRAK 77
Score = 32.5 bits (74), Expect = 0.045
Identities = 15/51 (29%), Positives = 24/51 (47%)
Query: 108 QRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINR 158
++ R +T Q LEKEF Y R +A + L E ++++ NR
Sbjct: 14 RKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNR 64
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 32.9 bits (75), Expect = 0.023
Identities = 12/54 (22%), Positives = 25/54 (46%)
Query: 105 RKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINR 158
+ ++ R +T Q+ LE+E+ + R R++ L E ++ + NR
Sbjct: 5 LEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNR 58
Score = 31.4 bits (71), Expect = 0.100
Identities = 10/24 (41%), Positives = 12/24 (50%), Gaps = 2/24 (8%)
Query: 336 SARQV--WFSNRRAKWRREEKLRN 357
S RQV WF NRR K ++
Sbjct: 47 SERQVTIWFQNRRVKEKKVINKLK 70
>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 = 33.7 bits (77), Expect = 0.025
Identities = 17/51 (33%), Positives = 25/51 (49%)
Query: 108 QRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINR 158
RT+FT Q+ LEKEF Y R +A + L E ++++ NR
Sbjct: 35 SGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNR 85
Score = 32.2 bits (73), Expect = 0.086
Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 336 SARQV--WFSNRRAKWRREEK 354
+ QV WF NRR K ++ E+
Sbjct: 74 NETQVKIWFQNRRMKQKKRER 94
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 32.9 bits (75), Expect = 0.034
Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 109 RNRTSFTNEQIDSLEKEFERTHYPDVFARER---LADKIGLPEARIQVSSINR 158
R RTS+T Q LEKEF Y R R +A + L E +I++ NR
Sbjct: 30 RQRTSYTRYQTLELEKEFHFNRY---LTRRRRIEIAHALSLTERQIKIWFQNR 79
Score = 32.5 bits (74), Expect = 0.051
Identities = 11/21 (52%), Positives = 15/21 (71%), Gaps = 2/21 (9%)
Query: 336 SARQV--WFSNRRAKWRREEK 354
+ RQ+ WF NRR KW++E K
Sbjct: 68 TERQIKIWFQNRRMKWKKEHK 88
>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 = 32.4 bits (73), Expect = 0.10
Identities = 17/108 (15%), Positives = 35/108 (32%), Gaps = 12/108 (11%)
Query: 59 LALPHNPGSVTPISRDDAKEHESTSDINSEPNSSADEDSQMRLRLKRKLQRNRTSFTNEQ 118
+ + + ISR H S I + + + R T +
Sbjct: 27 VEMAADGIRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVI---GGSKPRIATPEIENR 83
Query: 119 IDSLEKEFERTHYPDVFARE----RLADKIGLPEARIQVSSINRVLRN 162
I+ + P +F+ E + + + VS+I+R++R
Sbjct: 84 IEEY-----KRSSPGMFSWEIREKLIREGVCDRSTAPSVSAISRLVRG 126
Score = 28.9 bits (64), Expect = 1.5
Identities = 9/42 (21%), Positives = 19/42 (45%), Gaps = 4/42 (9%)
Query: 228 EFERTHYPDVFARE----RLADKIGLPEARIQVSSINRVLRN 265
E + P +F+ E + + + VS+I+R++R
Sbjct: 85 EEYKRSSPGMFSWEIREKLIREGVCDRSTAPSVSAISRLVRG 126
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 34.0 bits (77), Expect = 0.11
Identities = 10/104 (9%), Positives = 21/104 (20%)
Query: 382 PPTSQSPPPSSRLPLNPGGFNPSSMYSSIPQPAGMDSYNPSCLQQAAREHHHHSSYSYMF 441
Q+ P + +P++ S Q + Q
Sbjct: 14 LQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQI 73
Query: 442 HDSLHSLQSAYQRAAPAAHSSPHPHPAHPGSSPYGTSNSVNGPP 485
+ S+ + P + + P P
Sbjct: 74 DQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMA 117
Score = 33.3 bits (75), Expect = 0.24
Identities = 13/108 (12%), Positives = 22/108 (20%), Gaps = 3/108 (2%)
Query: 382 PPTSQSPPPSSRLPLNPGGFNPSSMYSSIPQPAGMDSYNPSCLQQAAREHHHHSSYSYMF 441
P PP G ++P P Q + + M
Sbjct: 25 QPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTP---AQEQLHQQIDQATTSMN 81
Query: 442 HDSLHSLQSAYQRAAPAAHSSPHPHPAHPGSSPYGTSNSVNGPPTSTG 489
LH++ A + + P + G
Sbjct: 82 DMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMG 129
Score = 30.6 bits (68), Expect = 1.5
Identities = 14/106 (13%), Positives = 28/106 (26%), Gaps = 1/106 (0%)
Query: 382 PPTSQSPPPSSRLPLNPGGFNPSSMYSSIPQPAGMDSYNPSCLQQAAREHHHHSSYSYMF 441
P ++ + G P S+ Q + L Q + + ++
Sbjct: 28 QFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQ-LHQQIDQATTSMNDMHLH 86
Query: 442 HDSLHSLQSAYQRAAPAAHSSPHPHPAHPGSSPYGTSNSVNGPPTS 487
+ L + Q P +P P ++P S
Sbjct: 87 NVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNM 132
>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 = 30.5 bits (69), Expect = 0.20
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 109 RNRTSFTNEQIDSLEKEFER-THYPDVFARERLADKIGLPEARIQV 153
++ E D+LEK F T YPD + L+ ++ +IQ
Sbjct: 10 KDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQC 55
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 33.1 bits (75), Expect = 0.22
Identities = 28/116 (24%), Positives = 42/116 (36%), Gaps = 15/116 (12%)
Query: 383 PTSQSPPPSS-RLPLNPGGFNPSSMYSSIPQPAGMDSYNPSCLQQAAREHHHH-SSYSYM 440
PTS S P+S ++P+S S P SY+P+ + + +S SY
Sbjct: 1621 PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSP----SYSPTSPAYSPTSPSYSPTSPSYS 1676
Query: 441 FHDSLHSLQS-AYQRAAPA--------AHSSPHPHPAHPGSSPYGTSNSVNGPPTS 487
+S S +Y +P + +SP P P SP N S
Sbjct: 1677 PTSPSYSPTSPSYSPTSPNYSPTSPSYSPTSPGYSPGSPAYSPKQDEQKHNENENS 1732
Score = 31.6 bits (71), Expect = 0.81
Identities = 29/112 (25%), Positives = 41/112 (36%), Gaps = 7/112 (6%)
Query: 383 PTSQSPPPSS--RLPLNPGGFNPSSMYSSIPQPAGMDS--YNP-SCLQQAAREHHHHSSY 437
PTS S P+S P +P S YS S Y+P S + +S
Sbjct: 1558 PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSP 1617
Query: 438 SYMFHDSLHSLQSAYQRAAPAAHSSPHPHPAHPGSSPYGTSNSVNGPPTSTG 489
SY +S S +P + S P++ +SP + S PTS
Sbjct: 1618 SYSPTSPSYSPTSP--SYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPS 1667
Score = 30.8 bits (69), Expect = 1.4
Identities = 24/129 (18%), Positives = 39/129 (30%), Gaps = 15/129 (11%)
Query: 362 STGSVNSANTTTSTTALDHVPPTSQSPPPSSRLPLNPGGFNPSSMYS--SIPQPAGMDSY 419
+GS ++ + + P +PG S +S S +Y
Sbjct: 1497 DSGSNDAMAGGFTAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAY 1556
Query: 420 NPSCLQQAAREHHHHSSYSYMFHDSLHSLQSAYQRAAPA-AHSSPHPHPAHPGSSPYGTS 478
+P+ S S +Y +P+ + +SP P P SP S
Sbjct: 1557 SPT------------SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1604
Query: 479 NSVNGPPTS 487
S P S
Sbjct: 1605 YSPTSPSYS 1613
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 33.1 bits (75), Expect = 0.23
Identities = 23/111 (20%), Positives = 33/111 (29%), Gaps = 5/111 (4%)
Query: 382 PPTSQSPPPSSRLPLNPGGFNPSSMYSSIPQPAGMDSYNPSCLQQAAREHHHHSSYSYMF 441
+P S Y+S A Y + + + +S +YM
Sbjct: 1514 EGREGFGDYGLLGAASPYKGVQSPGYTSPFSSAMSPGYGLTSPSYSPSSPGYSTSPAYMP 1573
Query: 442 HDSLHSLQSAYQRAAPAAHS--SPHPHPAHPGSSPYGTSNSVNGP---PTS 487
+S S ++S SP P P S S S P PTS
Sbjct: 1574 SSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSATSPSYSPTSPSYSPTS 1624
Score = 30.8 bits (69), Expect = 1.2
Identities = 30/111 (27%), Positives = 44/111 (39%), Gaps = 23/111 (20%)
Query: 383 PTSQ--SPPPSSRLPLNPGGFNPSSMYSSIPQPAGMDSYNPSCLQQAAREHHHHSSYSYM 440
PTS SP S P +P ++P+S S P+ Y+P+ SYS
Sbjct: 1615 PTSPSYSPTSPSYSPTSPS-YSPTSPSYSPTSPS----YSPT-----------SPSYSPT 1658
Query: 441 FHDSLHSLQSAYQRAAPAAH-SSPHPHPAHPG---SSPYGTSNSVNGPPTS 487
S +Y +P+ +SP P P +SP + S + PTS
Sbjct: 1659 S-PSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1708
Score = 30.0 bits (67), Expect = 2.0
Identities = 31/132 (23%), Positives = 44/132 (33%), Gaps = 10/132 (7%)
Query: 361 GSTGSVNSANTTTSTTALDHVPPTSQSPPPSSRLPLNPGGFNPSSMYSSIPQPAGMDSYN 420
GS G + A + S ++PG S YS Y+
Sbjct: 1512 GSEGREGFGDYGLLGAASPYKGVQSPGYTSPFSSAMSPGYGLTSPSYSPSSP-----GYS 1566
Query: 421 PSCLQQAAREHHHHSSYSYMFHDSLHSLQS-AYQRAAPAAH-SSPHPHPAHPGSSPYGTS 478
S + + +S SY +S S +Y +P+ +SP P P SP S
Sbjct: 1567 TSPAYMPSSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSATSPSYSPTSPSYSPTSPS 1626
Query: 479 NSVNGP---PTS 487
S P PTS
Sbjct: 1627 YSPTSPSYSPTS 1638
Score = 28.9 bits (64), Expect = 4.8
Identities = 24/107 (22%), Positives = 41/107 (38%), Gaps = 11/107 (10%)
Query: 383 PTSQSPPPSSRLPLNPGGFNPSSMYSSIPQPAGMDSYNPSCLQQAAREHHHHSSYSYMFH 442
TS S P+S ++P+S S P SY+P+ + +S S +
Sbjct: 1608 ATSPSYSPTSP------SYSPTSPSYSPTSP----SYSPTS-PSYSPTSPSYSPTSPSYS 1656
Query: 443 DSLHSLQSAYQRAAPAAHSSPHPHPAHPGSSPYGTSNSVNGPPTSTG 489
+ S +P + S P++ +SP + S + PTS
Sbjct: 1657 PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1703
>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 = 31.0 bits (69), Expect = 0.45
Identities = 14/60 (23%), Positives = 21/60 (35%), Gaps = 4/60 (6%)
Query: 125 EFERTHYPDVFARE----RLADKIGLPEARIQVSSINRVLRNLAAQKEQQASAHNQTSET 180
+ P +FA E LA+ + + VSSINR++R Q
Sbjct: 93 GDYKRQNPTMFAWEIRDRLLAEGVCDNDTVPSVSSINRIIRTKVQQPFNLPMDSGAPGGG 152
Score = 31.0 bits (69), Expect = 0.45
Identities = 14/60 (23%), Positives = 21/60 (35%), Gaps = 4/60 (6%)
Query: 228 EFERTHYPDVFARE----RLADKIGLPEARIQVSSINRVLRNLAAQKEQQASAHNQTSET 283
+ P +FA E LA+ + + VSSINR++R Q
Sbjct: 93 GDYKRQNPTMFAWEIRDRLLAEGVCDNDTVPSVSSINRIIRTKVQQPFNLPMDSGAPGGG 152
Score = 29.0 bits (64), Expect = 2.3
Identities = 8/28 (28%), Positives = 10/28 (35%)
Query: 3 VSSINRVLRNLAAQKEQQASAHNQTSET 30
VSSINR++R Q
Sbjct: 125 VSSINRIIRTKVQQPFNLPMDSGAPGGG 152
>4aw2_A Serine/threonine-protein kinase MRCK alpha; transferase, CDC42BPA;
HET: 22E; 1.70A {Rattus norvegicus} PDB: 3tku_A* 3qfv_A*
Length = 437
Score = 31.7 bits (72), Expect = 0.53
Identities = 11/65 (16%), Positives = 19/65 (29%), Gaps = 5/65 (7%)
Query: 373 TSTTALDHVPPTSQSPPPSSRLPLNPGGF---NPSSMYSSIPQPAGMDSYNPSCLQQAAR 429
+ +PP + + LP GF + + + L +
Sbjct: 375 DCLKNSETMPPPTHTAFSGHHLPFV--GFTYTSSCVLSDRSCLRVTAGPTSAENLYFQSH 432
Query: 430 EHHHH 434
HHHH
Sbjct: 433 HHHHH 437
>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 = 27.3 bits (60), Expect = 1.0
Identities = 7/13 (53%), Positives = 11/13 (84%)
Query: 339 QVWFSNRRAKWRR 351
++WF NRR KW++
Sbjct: 4 KIWFQNRRMKWKK 16
>3bdk_A D-mannonate dehydratase; xylose isomerase-like TIM barrel, lyase;
HET: DNO; 2.50A {Streptococcus suis} PDB: 3ban_A*
3dbn_A* 3fvm_A
Length = 386
Score = 30.6 bits (68), Expect = 1.1
Identities = 38/294 (12%), Positives = 74/294 (25%), Gaps = 50/294 (17%)
Query: 21 ASAHNQTSETVYDKLRMFNGQPGWAWYPGSTPPPSPAHLALPHNPGSVTPISRDDAKEHE 80
S+H+ + R + + + WY P A+P G VT + +
Sbjct: 2 GSSHHHHHHSSGLVPRGSHMKMSFRWYGKKDPVTLEEIKAIPGMQGIVTAVYDVPVGQAW 61
Query: 81 STSDINSEPNSSADEDSQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERL 140
+I L+ K I+S+
Sbjct: 62 PLENI-----------------LELKKMVEEAGLEITVIESIPVH--------------E 90
Query: 141 ADKIGLPEARIQVSSINRVLRNLAAQK-----EQQASAHNQTSETVYDKLRMFNGQPGWA 195
K G P + + +RN+ A + T ++ L + +
Sbjct: 91 DIKQGKPNRDALIENYKTSIRNVGAAGIPVVCYNFMPVFDWTRSDLHHPLPDGSTSLAFL 150
Query: 196 WYPGSTPTPSPAHLALPHNPGSVTPISRDDAKEFERTHYPDVFARERLADKIGLPEARIQ 255
+ P L LP S + E R + + L I
Sbjct: 151 KSDLAGVDPVADDLNLPGWDSSYSKEEMKAIIENYRQNISEEDLWANLEYFI-------- 202
Query: 256 VSSINRVLRNLAAQKEQQASAHN-QTSETVYDKLRMFNGQPGWAWYPGSTPTPS 308
+ + A + + + H ++ R+ GQ + +
Sbjct: 203 -----KAILPTAEEAGVKMAIHPDDPPYGIFGLPRIITGQEAVERFLNLYDSEH 251
Score = 29.8 bits (66), Expect = 2.2
Identities = 20/142 (14%), Positives = 48/142 (33%), Gaps = 5/142 (3%)
Query: 171 ASAHNQTSETVYDKLRMFNGQPGWAWYPGSTPTPSPAHLALPHNPGSVTPISRDDAKEFE 230
S+H+ + R + + + WY P A+P G VT + +
Sbjct: 2 GSSHHHHHHSSGLVPRGSHMKMSFRWYGKKDPVTLEEIKAIPGMQGIVTAVYDVPVGQAW 61
Query: 231 RTHYPDVFARERLADKIGLPEARIQVSSINRVLRNLAAQKEQQASAHNQTSETVYD---K 287
++ +++ ++ GL I+ ++ ++ ++ + + V
Sbjct: 62 --PLENILELKKMVEEAGLEITVIESIPVHEDIKQGKPNRDALIENYKTSIRNVGAAGIP 119
Query: 288 LRMFNGQPGWAWYPGSTPTPSP 309
+ +N P + W P P
Sbjct: 120 VVCYNFMPVFDWTRSDLHHPLP 141
>2jul_A Calsenilin; EF-hand, calcium, LXXLL, DNA binding protein, dimer,
alternative splicing, apoptosis, cytoplasm, endoplasmic
reticulum, golgi apparatus; NMR {Mus musculus}
Length = 256
Score = 30.0 bits (67), Expect = 1.7
Identities = 14/62 (22%), Positives = 28/62 (45%), Gaps = 3/62 (4%)
Query: 79 HESTSDINSEPNSSADEDSQMRLRLK--RKLQRNRTSFTNEQIDSLEKEFERTHYPDVFA 136
S + S+ + S E S +R + + +LQ T FT +++ SL + F+ +
Sbjct: 52 LSSAAPQGSDSSDSELELSTVRHQPEGLDQLQAQ-TKFTKKELQSLYRGFKNECPTGLVD 110
Query: 137 RE 138
+
Sbjct: 111 ED 112
>3amj_B Zinc peptidase inactive subunit; alpha/beta, zinc binding,
hydrolase; 3.00A {Sphingomonas}
Length = 424
Score = 29.9 bits (68), Expect = 1.8
Identities = 20/107 (18%), Positives = 28/107 (26%), Gaps = 41/107 (38%)
Query: 132 PDVFARERLADKIGLPEARIQVSSINRVLRNLAAQKEQ-QASAHNQTSETVYDKLRMFNG 190
V RER R + L + Q + + +E Y
Sbjct: 121 APVLERER-----------------ARAIAGLREAQTQPGSILGRRFTELAY-------- 155
Query: 191 QPGWAWYPGSTPTPSPAHLALPHNPGSVTPISRDDAKEFERTHY-PD 236
G P + ++ ISRD F RTHY
Sbjct: 156 --------GKHP------YGHVSSVATLQKISRDQLVSFHRTHYVAR 188
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.4 bits (65), Expect = 2.2
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 348 KWRREEKLRNQRRGS 362
KWR E++ R Q +
Sbjct: 89 KWREEQRKRLQELDA 103
>3fkd_A L-threonine-O-3-phosphate decarboxylase; structural genomic, ,
structural genomics, PSI-2, protein structure
initiative; 2.50A {Porphyromonas gingivalis}
Length = 350
Score = 29.0 bits (66), Expect = 3.1
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 129 THYPDVFA---RERLADKIGLPEARI 151
HYP+ A R+ LA + + I
Sbjct: 45 RHYPEPDAGTLRQMLAKRNSVDNNAI 70
Score = 29.0 bits (66), Expect = 3.1
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 232 THYPDVFA---RERLADKIGLPEARI 254
HYP+ A R+ LA + + I
Sbjct: 45 RHYPEPDAGTLRQMLAKRNSVDNNAI 70
>1zgh_A Methionyl-tRNA formyltransferase; southeast collaboratory FO
structural genomics, PSI, protein structure initiative,
secsg; 2.05A {Clostridium thermocellum} SCOP: b.46.1.1
c.65.1.1
Length = 260
Score = 28.8 bits (65), Expect = 3.2
Identities = 8/26 (30%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 25 NQTSETVYDKLRMFNGQPGWAWYPGS 50
+ E +YD +RM +G+ YP +
Sbjct: 205 DFDLEKIYDYIRMLDGEG----YPRA 226
Score = 28.8 bits (65), Expect = 3.2
Identities = 8/26 (30%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 175 NQTSETVYDKLRMFNGQPGWAWYPGS 200
+ E +YD +RM +G+ YP +
Sbjct: 205 DFDLEKIYDYIRMLDGEG----YPRA 226
Score = 28.8 bits (65), Expect = 3.2
Identities = 8/26 (30%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 278 NQTSETVYDKLRMFNGQPGWAWYPGS 303
+ E +YD +RM +G+ YP +
Sbjct: 205 DFDLEKIYDYIRMLDGEG----YPRA 226
>1lc5_A COBD, L-threonine-O-3-phosphate decarboxylase; PLP-dependent
decarboxylase cobalamin, lyase; 1.46A {Salmonella
enterica} SCOP: c.67.1.1 PDB: 1lc7_A* 1lc8_A* 1lkc_A*
Length = 364
Score = 29.0 bits (66), Expect = 3.3
Identities = 7/26 (26%), Positives = 10/26 (38%), Gaps = 3/26 (11%)
Query: 129 THYPDVFA---RERLADKIGLPEARI 151
YPD + LA +P + I
Sbjct: 54 ERYPDADYFHLHQALARHHQVPASWI 79
Score = 29.0 bits (66), Expect = 3.3
Identities = 7/26 (26%), Positives = 10/26 (38%), Gaps = 3/26 (11%)
Query: 232 THYPDVFA---RERLADKIGLPEARI 254
YPD + LA +P + I
Sbjct: 54 ERYPDADYFHLHQALARHHQVPASWI 79
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 26.5 bits (58), Expect = 4.1
Identities = 6/37 (16%), Positives = 14/37 (37%)
Query: 117 EQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQV 153
+ L+ + P ++AD + LP ++
Sbjct: 13 NLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKK 49
>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 = 27.5 bits (60), Expect = 4.1
Identities = 9/38 (23%), Positives = 14/38 (36%)
Query: 105 RKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLAD 142
RNR + L + ++R P RE L +
Sbjct: 4 GSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVE 41
>1q06_A Transcriptional regulator CUER; MERR family transcriptional
regulator, copper efflux regulator; 2.07A {Escherichia
coli} SCOP: a.6.1.3 PDB: 1q05_A 1q07_A
Length = 135
Score = 27.7 bits (62), Expect = 5.1
Identities = 15/74 (20%), Positives = 26/74 (35%), Gaps = 3/74 (4%)
Query: 94 DEDSQMRLRLKRKLQRNRTSFTNEQIDSLEKEFERTHYPDVFARERLADKIGLPEARI-Q 152
+ L L R+ ++ F E+ L F + R +K+ E I +
Sbjct: 40 TQQHLNELTLLRQARQ--VGFNLEESGELVNLFNDPQRHSADVKRRTLEKVAEIERHIEE 97
Query: 153 VSSINRVLRNLAAQ 166
+ S+ L LA
Sbjct: 98 LQSMRDQLLALANA 111
>3eqn_A Glucan 1,3-beta-glucosidase; tandem beta-helix domains,
glycosidase, hydrolase; HET: NAG BMA; 1.70A
{Phanerochaete chrysosporium} PDB: 3eqo_A*
Length = 758
Score = 28.9 bits (63), Expect = 5.3
Identities = 33/196 (16%), Positives = 64/196 (32%), Gaps = 24/196 (12%)
Query: 293 GQPGWAWYPG---STPTPSPAHLALPHNPGSVTPISRDDAKGLVQQSARQVWFSNRRAKW 349
G G +T P+ + + N + QQ+A W ++
Sbjct: 485 GSSGVVEITDMIFTTRGPAAGAIIVEWNVHDPSG----------QQAAAGAWDTHLIIGG 534
Query: 350 RREEKLRNQRRGSTGSVNSANTTTSTTALDHVPPTSQSPPPSSRL-----PLNPGGFNPS 404
+ L+ + ++G+ + + H+ S + + L+ GG
Sbjct: 535 TAQSGLQVGQCPTSGAGGNN--CFADFLGLHLTSGSSAYLEGMWVWLADHDLDSGGSQQI 592
Query: 405 SMYSSIPQPAGMDSYNPSCLQQAAREHHHHSSYSYMFHDSLHSLQSAYQRAAPAAHSSPH 464
S++S +S P L A EHH +Y Y ++ + Q P +P+
Sbjct: 593 SLWS--NGGIMSESQGPVWLIGTASEHH--INYQYFLKNAANHYIGLAQTETPYFQPNPN 648
Query: 465 PHPAHPGSSPYGTSNS 480
P +S + S
Sbjct: 649 PPAPFITNSNFDPSQL 664
>3ftb_A Histidinol-phosphate aminotransferase; structural genomics, PSI,
MCSG, protein structure initiative; 2.00A {Clostridium
acetobutylicum}
Length = 361
Score = 28.3 bits (64), Expect = 5.4
Identities = 6/26 (23%), Positives = 11/26 (42%), Gaps = 3/26 (11%)
Query: 129 THYPDVFA---RERLADKIGLPEARI 151
YPDV + + + + L + I
Sbjct: 56 GVYPDVNYRRLNKSIENYLKLKDIGI 81
Score = 28.3 bits (64), Expect = 5.4
Identities = 6/26 (23%), Positives = 11/26 (42%), Gaps = 3/26 (11%)
Query: 232 THYPDVFA---RERLADKIGLPEARI 254
YPDV + + + + L + I
Sbjct: 56 GVYPDVNYRRLNKSIENYLKLKDIGI 81
>1o3u_A Conserved hypothetical protein TM0613; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI; 1.75A {Thermotoga maritima} SCOP:
a.24.16.3
Length = 135
Score = 27.4 bits (60), Expect = 5.5
Identities = 11/62 (17%), Positives = 20/62 (32%), Gaps = 2/62 (3%)
Query: 102 RLKRKLQRNRTSFTN--EQIDSLEKEFERTHYPDVFARERLADKIGLPEARIQVSSINRV 159
+L + L+K T YPD ++ EA V+ ++
Sbjct: 65 DFLGELSSRFEIPEELMDHALELDKACIPTRYPDALPSGSPRNRYSRIEAERLVNYAEKI 124
Query: 160 LR 161
+R
Sbjct: 125 IR 126
>3get_A Histidinol-phosphate aminotransferase; NP_281508.1, structural
genomics, joint center for structural genomics; HET: LLP
MSE; 2.01A {Campylobacter jejuni subsp}
Length = 365
Score = 28.3 bits (64), Expect = 6.9
Identities = 9/35 (25%), Positives = 13/35 (37%), Gaps = 5/35 (14%)
Query: 223 RDDAKEFERTHYPDVFA---RERLADKIGLPEARI 254
R +A + YPD + LA K + I
Sbjct: 53 RQNANKAHL--YPDDSMIELKSTLAQKYKVQNENI 85
Score = 27.9 bits (63), Expect = 8.8
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 4/37 (10%)
Query: 119 IDSLEKEFERTH-YPDVFA---RERLADKIGLPEARI 151
I+ L + + H YPD + LA K + I
Sbjct: 49 IECLRQNANKAHLYPDDSMIELKSTLAQKYKVQNENI 85
>3p1t_A Putative histidinol-phosphate aminotransferase; PLP-dependent
transferase-like, structural genomics, joint C
structural genomics, JCSG; HET: TLA; 2.60A {Burkholderia
pseudomallei}
Length = 337
Score = 27.9 bits (63), Expect = 7.2
Identities = 8/37 (21%), Positives = 12/37 (32%), Gaps = 5/37 (13%)
Query: 223 RDDAKEFERTHYPDVFA---RERLADKIGLPEARIQV 256
A R YP +LA+ PE + +
Sbjct: 39 AAAAARINR--YPFDAEPRVMRKLAEHFSCPEDNLML 73
>1q5n_A 3-carboxy-CIS,CIS-muconate cycloisomerase; CMLE, aromatic
degradation; 2.30A {Acinetobacter calcoaceticus} SCOP:
a.127.1.1
Length = 454
Score = 28.0 bits (63), Expect = 8.2
Identities = 3/22 (13%), Positives = 10/22 (45%)
Query: 324 ISRDDAKGLVQQSARQVWFSNR 345
+ R +A +V+ + + +
Sbjct: 383 MGRLNAHHVVEAACKTAVAEQK 404
>3sv0_A Casein kinase I-like; typical kinase domain fold, cytosol,
transferase; 2.00A {Oryza sativa japonica group}
Length = 483
Score = 28.1 bits (62), Expect = 8.9
Identities = 22/141 (15%), Positives = 36/141 (25%), Gaps = 8/141 (5%)
Query: 306 TPSPAHLALPHNPGSVTPISRDDAKGLVQQSARQVWFSNRRAK-------WRREEKLRNQ 358
P A G P ++D + V + W S R + K +
Sbjct: 303 APPRAVGHGAGPSGLAPPALQNDRQSGVDEGRTSGWSSMDRRRAPPPIASVGTLAKQKAP 362
Query: 359 RRGSTGSVNSANTTTSTTALDHVPPTSQSPPPSSRLPLNPGGFNPSSMYSSIPQP-AGMD 417
+ S + + SSR + PS ++ P A
Sbjct: 363 VGNDASFSKEPVISASNFLGRSSGSSRRPAVSSSRDVMPIDTSEPSRTRATDASPGAFRR 422
Query: 418 SYNPSCLQQAAREHHHHSSYS 438
+ P HSS +
Sbjct: 423 TSGPQKSSPVNSAEPKHSSSA 443
>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 = 27.9 bits (61), Expect = 9.1
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 5/29 (17%)
Query: 431 HHHH-----SSYSYMFHDSLHSLQSAYQR 454
HHHH + Y + D L + A+
Sbjct: 3 HHHHMDFETGEHQYQYKDILSVFEDAFVD 31
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.2 bits (59), Expect = 9.2
Identities = 6/20 (30%), Positives = 11/20 (55%), Gaps = 2/20 (10%)
Query: 444 SLHSLQSAYQRAAPAAHSSP 463
+L LQ++ + A S+P
Sbjct: 21 ALKKLQASLKLYAD--DSAP 38
>3ffh_A Histidinol-phosphate aminotransferase; APC88260, listeria in
CLIP11262, structural genomics, PSI-2; 2.31A {Listeria
innocua}
Length = 363
Score = 27.5 bits (62), Expect = 10.0
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 5/35 (14%)
Query: 223 RDDAKEFERTHYPDVFA---RERLADKIGLPEARI 254
+ + E E YPD +A R+ +AD L E +
Sbjct: 55 ANSSVETEI--YPDGWASSLRKEVADFYQLEEEEL 87
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
0.311 0.125 0.376
Gapped
Lambda K H
0.267 0.0662 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,512,737
Number of extensions: 451565
Number of successful extensions: 1486
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1443
Number of HSP's successfully gapped: 232
Length of query: 490
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 393
Effective length of database: 3,993,456
Effective search space: 1569428208
Effective search space used: 1569428208
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 (21.8 bits)
S2: 59 (26.6 bits)