RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1904
(163 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 = 108 bits (272), Expect = 5e-32
Identities = 42/62 (67%), Positives = 53/62 (85%)
Query: 82 DDSDTESEPGIVLKRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETR 141
D SD ESEPGI LKRKQRRSRTTF+++QL+ELE++F+R+ YPDIYTRE LA + +TE R
Sbjct: 2 DISDCESEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEAR 61
Query: 142 VQ 143
+Q
Sbjct: 62 IQ 63
>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 = 96.7 bits (240), Expect = 1e-26
Identities = 66/100 (66%), Positives = 81/100 (81%), Gaps = 2/100 (2%)
Query: 1 MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVEKRIEEYK 60
MAA G+RPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPR+ATP++E RIEEYK
Sbjct: 29 MAADGIRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRIATPEIENRIEEYK 88
Query: 61 KTNPNITSWEVRDKLIKVSRLDDSDTESEPGI--VLKRKQ 98
+++P + SWE+R+KLI+ D S S I +++ +
Sbjct: 89 RSSPGMFSWEIREKLIREGVCDRSTAPSVSAISRLVRGRD 128
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 93.2 bits (232), Expect = 5e-26
Identities = 24/49 (48%), Positives = 34/49 (69%)
Query: 95 KRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
+R+RT+FT Q+E LEK F+R+HYPD++ RE LA K + E R+Q
Sbjct: 4 GSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQ 52
>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 = 92.4 bits (230), Expect = 1e-25
Identities = 24/49 (48%), Positives = 29/49 (59%)
Query: 95 KRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
RR RT FT QLE LE FQ + YPD+ TRE LA K + E +V+
Sbjct: 4 GSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVE 52
>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 = 94.5 bits (234), Expect = 2e-25
Identities = 57/92 (61%), Positives = 69/92 (75%)
Query: 1 MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVEKRIEEYK 60
+A GVRPC ISRQLRVSHGCVSKIL RY ETGSIRPGVIGGSKP+VATP V ++I +YK
Sbjct: 37 LAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIRPGVIGGSKPKVATPKVVEKIGDYK 96
Query: 61 KTNPNITSWEVRDKLIKVSRLDDSDTESEPGI 92
+ NP + +WE+RD+L+ D+ S I
Sbjct: 97 RQNPTMFAWEIRDRLLAEGVCDNDTVPSVSSI 128
>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 = 93.7 bits (232), Expect = 3e-25
Identities = 58/103 (56%), Positives = 75/103 (72%), Gaps = 2/103 (1%)
Query: 1 MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVEKRIEEYK 60
+A GVRPC ISRQLRVSHGCVSKIL RY ETGSI+PGVIGGSKP+VATP V ++I EYK
Sbjct: 44 LAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIKPGVIGGSKPKVATPKVVEKIAEYK 103
Query: 61 KTNPNITSWEVRDKLIKVSRLDDSDTESEPGI--VLKRKQRRS 101
+ NP + +WE+RD+L+ D+ S I +++ K ++
Sbjct: 104 RQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTKVQQP 146
>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 = 91.3 bits (227), Expect = 4e-25
Identities = 25/49 (51%), Positives = 32/49 (65%)
Query: 95 KRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
RR RTTFT AQL+ LE F ++ YPDI+ RE +A K + E+RVQ
Sbjct: 4 GSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQ 52
>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 = 89.7 bits (223), Expect = 9e-25
Identities = 26/47 (55%), Positives = 34/47 (72%)
Query: 97 KQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
QRR RT FTS QL++LE +FQR+ YPD+ TRE +A +TE RV+
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVR 48
>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 = 86.7 bits (215), Expect = 2e-23
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 95 KRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
+R RT+F QL ++ F +H PD + LA K G+T+ +Q
Sbjct: 4 GSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQ 52
>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 = 84.7 bits (210), Expect = 9e-23
Identities = 20/45 (44%), Positives = 25/45 (55%)
Query: 99 RRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
RR RT FT Q+E LE F+ + YP I E LA K + R+Q
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQ 46
>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 = 83.8 bits (208), Expect = 1e-22
Identities = 29/43 (67%), Positives = 35/43 (81%)
Query: 101 SRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
S TFTS QLEELEK+F R+HYPD++TRE LA K G+TE R+Q
Sbjct: 2 SHMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 44
>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 = 82.4 bits (204), Expect = 7e-22
Identities = 15/49 (30%), Positives = 20/49 (40%)
Query: 95 KRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
R SRT FT QL L+ F + YP E L+N + +
Sbjct: 4 GSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIV 52
>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 = 80.1 bits (198), Expect = 5e-21
Identities = 12/47 (25%), Positives = 19/47 (40%)
Query: 97 KQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
K R RT QL L + + PD +E L G++ ++
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIR 48
>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 = 76.4 bits (188), Expect = 2e-19
Identities = 16/60 (26%), Positives = 28/60 (46%)
Query: 84 SDTESEPGIVLKRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
S + G ++ +R RTT T QLE L + + P + +A++ G+ + VQ
Sbjct: 3 SGSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQ 62
>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 = 76.5 bits (187), Expect = 4e-18
Identities = 17/138 (12%), Positives = 36/138 (26%), Gaps = 53/138 (38%)
Query: 50 PDVEKRIEEYKKTNPNITSWEVRDKLIK------------------VSRL---------- 81
+ +E + +P + V+ L + +S+
Sbjct: 14 AHQKAVVETLLQEDPWRVAKMVKSYLQQHNIPQREVVDTTGLNQSHLSQHLNKGTPMKTQ 73
Query: 82 -------------------------DDSDTESEPGIVLKRKQRRSRTTFTSAQLEELEKS 116
E + +K RR+R + A + L ++
Sbjct: 74 KRAALYTWYVRKQREVAQQFTHAGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQILFQA 133
Query: 117 FQRSHYPDIYTREALANK 134
++R P RE L +
Sbjct: 134 YERQKNPSKEERETLVEE 151
>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 = 72.4 bits (178), Expect = 7e-18
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 99 RRSRTTFTSAQLEELEKSFQRSH-YPDIYTREALANKFGMTETRVQ 143
T T Q+E LE +F + + +PD T +A + G+TE + Q
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 47
>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 = 70.1 bits (172), Expect = 6e-17
Identities = 12/49 (24%), Positives = 23/49 (46%)
Query: 95 KRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
+R RT T QL L + F ++ P + +A+K G+ + ++
Sbjct: 4 GSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIK 52
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 69.4 bits (170), Expect = 9e-17
Identities = 14/46 (30%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 99 RRSRTTFTSAQLEELEKSFQRSH-YPDIYTREALANKFGMTETRVQ 143
++ + T Q+E LE +F + + +PD T +A + G+TE + Q
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 48
>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 = 68.9 bits (168), Expect = 3e-16
Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 15/64 (23%)
Query: 95 KRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFG---------------MTE 139
R SR T+ L +E F + YPD RE +AN +T
Sbjct: 4 GSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTS 63
Query: 140 TRVQ 143
+V
Sbjct: 64 LKVY 67
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 63.2 bits (154), Expect = 2e-14
Identities = 11/49 (22%), Positives = 19/49 (38%)
Query: 95 KRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
+ + QL L+ SF R+ +P E L G++ V+
Sbjct: 5 SSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVR 53
>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 = 65.1 bits (158), Expect = 3e-14
Identities = 16/85 (18%), Positives = 30/85 (35%), Gaps = 3/85 (3%)
Query: 59 YKKTNPNITSWEVRDKLIKVSRLDDSDTESEPGIVLKRKQRRSRTTFTSAQLEELEKSFQ 118
+K P + W +L + K+R+ RT+FT +E L F+
Sbjct: 57 AQKLKPVLEKWLNEAELRNQEGQQNLMEFVGGE---PSKKRKRRTSFTPQAIEALNAYFE 113
Query: 119 RSHYPDIYTREALANKFGMTETRVQ 143
++ P +A + V+
Sbjct: 114 KNPLPTGQEITEMAKELNYDREVVR 138
>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 = 62.5 bits (152), Expect = 4e-14
Identities = 10/47 (21%), Positives = 18/47 (38%)
Query: 97 KQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
T Q+ L+ SF +S +PD L G+ + ++
Sbjct: 3 HHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIK 49
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 61.4 bits (148), Expect = 3e-13
Identities = 11/40 (27%), Positives = 20/40 (50%)
Query: 95 KRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANK 134
+K RR+R + A + L ++++R P RE L +
Sbjct: 6 TKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEE 45
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 63.9 bits (154), Expect = 3e-13
Identities = 17/75 (22%), Positives = 28/75 (37%)
Query: 83 DSDTESEPGIVLKRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
++ +K RR+R + A + L +++ R P REAL + E
Sbjct: 127 PGQSDDACSEPTNKKMRRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQ 186
Query: 143 QQFVLGTAGFLLSCL 157
+ A L S L
Sbjct: 187 RGVSPSKAHGLGSNL 201
Score = 32.7 bits (73), Expect = 0.033
Identities = 1/28 (3%), Positives = 10/28 (35%)
Query: 50 PDVEKRIEEYKKTNPNITSWEVRDKLIK 77
+ ++ +P + ++ + +
Sbjct: 15 AEQRAEVDRMLSEDPWRAAKMIKGYMQQ 42
>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 = 60.4 bits (146), Expect = 2e-12
Identities = 11/67 (16%), Positives = 25/67 (37%)
Query: 77 KVSRLDDSDTESEPGIVLKRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFG 136
+ + + ++R+ RTT + A + LE+ F P +A +
Sbjct: 66 WLEEAEQVGALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELN 125
Query: 137 MTETRVQ 143
+ + V+
Sbjct: 126 LEKEVVR 132
>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 = 59.2 bits (143), Expect = 6e-12
Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 2/85 (2%)
Query: 61 KTNPNITSW--EVRDKLIKVSRLDDSDTESEPGIVLKRKQRRSRTTFTSAQLEELEKSFQ 118
K P + W + L S L + PGI ++R+ RT+ + LEKSF
Sbjct: 62 KLKPLLEKWLNDAEANLSSDSSLSSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKSFM 121
Query: 119 RSHYPDIYTREALANKFGMTETRVQ 143
+ P +A + M + ++
Sbjct: 122 ENQKPTSEDITLIAEQLNMEKEVIR 146
>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 = 59.0 bits (142), Expect = 7e-12
Identities = 14/60 (23%), Positives = 27/60 (45%)
Query: 84 SDTESEPGIVLKRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
+ E L + ++R RT+ + LE F +S P + +AN+ G+ + V+
Sbjct: 82 NLQEISKSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVR 141
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 58.1 bits (140), Expect = 2e-11
Identities = 13/68 (19%), Positives = 29/68 (42%), Gaps = 5/68 (7%)
Query: 81 LDDSDTE-----SEPGIVLKRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKF 135
L+++D+ + I + ++R+ RT+ LE F + P + LA+
Sbjct: 77 LEETDSSSGSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSL 136
Query: 136 GMTETRVQ 143
+ + V+
Sbjct: 137 QLEKEVVR 144
>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 = 54.5 bits (132), Expect = 4e-11
Identities = 12/49 (24%), Positives = 25/49 (51%)
Query: 95 KRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
K K + +++ + LE+ F+R + +E +A K G+T +V+
Sbjct: 2 KEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVR 50
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 53.8 bits (130), Expect = 8e-11
Identities = 16/45 (35%), Positives = 27/45 (60%)
Query: 98 QRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
+R+ R F+ AQ+ ELE+ F++ Y R+ LA+ +T T+V
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQV 46
>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 = 54.4 bits (131), Expect = 8e-11
Identities = 19/47 (40%), Positives = 27/47 (57%)
Query: 96 RKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
K+R+ R FT AQ ELE+ F++ Y RE LA+ +T T+V
Sbjct: 7 NKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQV 53
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 54.0 bits (130), Expect = 9e-11
Identities = 15/61 (24%), Positives = 31/61 (50%)
Query: 82 DDSDTESEPGIVLKRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETR 141
++ ++ + K++++RT F+S QL L FQR Y + + L+N ++ +
Sbjct: 6 SAENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQ 65
Query: 142 V 142
V
Sbjct: 66 V 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 = 53.0 bits (128), Expect = 2e-10
Identities = 18/44 (40%), Positives = 27/44 (61%)
Query: 99 RRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
R+ RT FT+AQL LE+ F++ Y I R ++ +TET+V
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQV 44
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 52.7 bits (127), Expect = 2e-10
Identities = 12/46 (26%), Positives = 25/46 (54%)
Query: 97 KQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
+++ RT F+ AQL L+ FQ+ Y + + L++ ++ +V
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQV 47
>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 = 52.9 bits (127), Expect = 2e-10
Identities = 21/59 (35%), Positives = 29/59 (49%)
Query: 84 SDTESEPGIVLKRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
S + +K RRSRT FT QL LEK F++ Y R LA G+++ +V
Sbjct: 3 SGSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQV 61
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 52.4 bits (126), Expect = 3e-10
Identities = 17/47 (36%), Positives = 28/47 (59%)
Query: 96 RKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
R+ RT ++S QL L++ FQ++ Y + R LA G+T+T+V
Sbjct: 5 SSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQV 51
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 52.0 bits (125), Expect = 4e-10
Identities = 17/45 (37%), Positives = 27/45 (60%)
Query: 98 QRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
+R+ R F+ AQ+ ELE+ F++ Y RE LA+ +T T+V
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQV 46
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 52.0 bits (125), Expect = 4e-10
Identities = 13/46 (28%), Positives = 19/46 (41%)
Query: 97 KQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
+ + Q+ ELE+ F Y R LA +TET+V
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQV 48
>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 = 52.7 bits (126), Expect = 4e-10
Identities = 10/62 (16%), Positives = 25/62 (40%), Gaps = 5/62 (8%)
Query: 82 DDSDTESEPGIVLKRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETR 141
+ + P ++ + + T Q++ LE SF +S +P + L + ++
Sbjct: 2 SSGSSGAYPDFAPQKFKEK-----TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRRE 56
Query: 142 VQ 143
+
Sbjct: 57 ID 58
>1wi3_A DNA-binding protein SATB2; homeodomain, helix-turn-helix, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; NMR {Homo sapiens} SCOP: a.4.1.1
Length = 71
Score = 51.4 bits (123), Expect = 8e-10
Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 1/50 (2%)
Query: 97 KQRRSRTTFTSAQLEELEKSFQR-SHYPDIYTREALANKFGMTETRVQQF 145
RSRT + L L+ YPD L+ + + + + +F
Sbjct: 6 SGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKF 55
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 51.8 bits (124), Expect = 1e-09
Identities = 19/47 (40%), Positives = 27/47 (57%)
Query: 96 RKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
K+++ RT+FT Q+ ELEK F + Y R ALA MT+ +V
Sbjct: 15 PKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQV 61
>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 = 49.2 bits (117), Expect = 8e-09
Identities = 12/60 (20%), Positives = 21/60 (35%), Gaps = 5/60 (8%)
Query: 84 SDTESEPGIVLKRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
S S P ++ + + T+ QL L+ SF S L + +T +
Sbjct: 2 SSGSSGPDFTPQKFKEK-----TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREID 56
>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 = 47.8 bits (114), Expect = 2e-08
Identities = 13/47 (27%), Positives = 22/47 (46%)
Query: 96 RKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
+ + F++ Q ELEK F+ Y R+ LA ++E +V
Sbjct: 5 SSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQV 51
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 49.9 bits (118), Expect = 2e-08
Identities = 15/92 (16%), Positives = 29/92 (31%)
Query: 54 KRIEEYKKTNPNITSWEVRDKLIKVSRLDDSDTESEPGIVLKRKQRRSRTTFTSAQLEEL 113
K E + ++ + E E G ++ R FT Q L
Sbjct: 53 KSGRETFRRMWKWLQEPEFQRMSALRLAACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTL 112
Query: 114 EKSFQRSHYPDIYTREALANKFGMTETRVQQF 145
F+ + P + ++ + G+ + V F
Sbjct: 113 HAIFKENKRPSKELQITISQQLGLELSTVSNF 144
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 46.5 bits (111), Expect = 4e-08
Identities = 16/40 (40%), Positives = 23/40 (57%)
Query: 103 TTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
T+F+ +Q+ ELE+ F R Y R ALA MT+ +V
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQV 41
>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 = 46.0 bits (109), Expect = 1e-07
Identities = 10/48 (20%), Positives = 17/48 (35%), Gaps = 2/48 (4%)
Query: 96 RKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQ 143
+ QL LE SF ++ P + L ++ MT +
Sbjct: 7 GPTKYKERA--PEQLRALESSFAQNPLPLDEELDRLRSETKMTRREID 52
>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 = 44.6 bits (106), Expect = 3e-07
Identities = 14/45 (31%), Positives = 27/45 (60%)
Query: 98 QRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
++R RT F+S QL L++ F + Y R+ L+++ G+ E ++
Sbjct: 3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 47
>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 = 43.9 bits (104), Expect = 5e-07
Identities = 17/45 (37%), Positives = 25/45 (55%)
Query: 98 QRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
RR+RTTFTS+Q+ ELE+ F + Y L+ K + +V
Sbjct: 2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQV 46
>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 = 43.1 bits (102), Expect = 9e-07
Identities = 17/44 (38%), Positives = 23/44 (52%)
Query: 99 RRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
RR RT FT QL LEK F + +Y R LA + + E+ +
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTI 45
>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 = 42.6 bits (100), Expect = 3e-06
Identities = 17/46 (36%), Positives = 22/46 (47%)
Query: 97 KQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
RT FT+ QL ELEK F + Y R +A + ET+V
Sbjct: 33 SPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQV 78
>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 = 42.5 bits (99), Expect = 3e-06
Identities = 13/63 (20%), Positives = 21/63 (33%)
Query: 82 DDSDTESEPGIVLKRKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETR 141
G K T QL L+ +F R+ +P + LA + G+ T
Sbjct: 9 SSGLEVLFQGPAPKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTD 68
Query: 142 VQQ 144
+
Sbjct: 69 IVS 71
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 41.2 bits (97), Expect = 5e-06
Identities = 18/46 (39%), Positives = 24/46 (52%)
Query: 97 KQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
+R+RT +T AQL ELEK F + Y R LA +TE +
Sbjct: 2 SNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHI 47
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 40.2 bits (94), Expect = 2e-05
Identities = 15/46 (32%), Positives = 25/46 (54%)
Query: 97 KQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
+ +R RT++T Q ELEK F + Y R +A+ +TE ++
Sbjct: 27 ETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 72
>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 = 39.4 bits (92), Expect = 3e-05
Identities = 17/47 (36%), Positives = 25/47 (53%)
Query: 96 RKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
+RR R T+T Q ELEK F +HY R +A+ +TE ++
Sbjct: 18 GLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQI 64
>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 = 38.9 bits (91), Expect = 4e-05
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 98 QRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
++R R T+T Q ELEK F + Y R +A+ +TE ++
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 46
>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 = 36.9 bits (85), Expect = 3e-04
Identities = 9/45 (20%), Positives = 15/45 (33%)
Query: 100 RSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRVQQ 144
S T QL L+ F + + + L G+ + Q
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQ 49
>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 = 36.7 bits (85), Expect = 3e-04
Identities = 9/47 (19%), Positives = 22/47 (46%)
Query: 96 RKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
R+ R ++ QL ELE+ + + + R ++ ++E ++
Sbjct: 5 SSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQI 51
>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 = 36.0 bits (83), Expect = 5e-04
Identities = 16/47 (34%), Positives = 22/47 (46%)
Query: 96 RKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
R R+ R +T Q ELEK F + Y R +A +TE +V
Sbjct: 11 RSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQV 57
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 35.6 bits (82), Expect = 6e-04
Identities = 11/47 (23%), Positives = 24/47 (51%)
Query: 96 RKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKFGMTETRV 142
+ R+ R +T QL+ELE+ + + + R ++ ++E +V
Sbjct: 5 LEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQV 51
>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 = 36.4 bits (83), Expect = 7e-04
Identities = 10/38 (26%), Positives = 16/38 (42%)
Query: 96 RKQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALAN 133
R+R + A + L +++ R P REAL
Sbjct: 4 GSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVE 41
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 34.7 bits (79), Expect = 0.006
Identities = 18/86 (20%), Positives = 33/86 (38%), Gaps = 20/86 (23%)
Query: 47 VATPDVEKRIEEYKKTNP-NITSW-EVRDKLIKVSRLDDSDTESEPGIVLKRKQRRSRTT 104
+A D + +E P +I W E + K ++ LD + E + K ++
Sbjct: 74 IAQAD--RLTQE-----PESIRKWREEQRKRLQ--ELDAASKVME--QEWREKAKKDLEE 122
Query: 105 FTSAQLEELEKSFQRSHYPDIYTREA 130
+ Q E++EK+ R A
Sbjct: 123 WNQRQSEQVEKNKIN-------NRIA 141
>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 = 32.8 bits (75), Expect = 0.007
Identities = 9/45 (20%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 100 RSRTTFTSAQLEELEKSFQR-SHYPDIYTREALANKFGMTETRVQ 143
+ + LEK F + YPD + L+ + + ++Q
Sbjct: 10 KDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQ 54
>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 = 32.2 bits (72), Expect = 0.038
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 15/37 (40%)
Query: 97 KQRRSRTTFTSAQLEELEKSFQRSHY-PDIYTREALA 132
KQ L++L+ S + Y D + ALA
Sbjct: 19 KQ----------ALKKLQASLKL--YADD--SAPALA 41
Score = 27.6 bits (60), Expect = 1.4
Identities = 13/59 (22%), Positives = 18/59 (30%), Gaps = 29/59 (49%)
Query: 53 EKRIEEYKKTNPNITSWEVRDKLIKVSRLDDSDTESEPGIVLKRKQRRSRTTFTSAQLE 111
EK + KK + KL DDS P + +K A +E
Sbjct: 18 EK--QALKKL-------QASLKLYA----DDS----APALAIK------------ATME 47
>1u78_A TC3 transposase, transposable element TC3 transposase; transposon
DNA, bipartite DNA-binding, HTH- motif, DNA binding
protein/DNA complex; 2.69A {Caenorhabditis elegans}
SCOP: a.4.1.2 a.4.1.2
Length = 141
Score = 30.8 bits (69), Expect = 0.097
Identities = 10/80 (12%), Positives = 25/80 (31%), Gaps = 4/80 (5%)
Query: 1 MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVEKRIEEYK 60
M V +SR++ S C+ L G+ + + + + E+ +
Sbjct: 18 MKLLNVSLHEMSRKISRSRHCIRVYLKDPVSYGTSKR----APRRKALSVRDERNVIRAA 73
Query: 61 KTNPNITSWEVRDKLIKVSR 80
+ + + S+
Sbjct: 74 SNSCKTARDIRNELQLSASK 93
>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 = 31.6 bits (71), Expect = 0.10
Identities = 30/162 (18%), Positives = 48/162 (29%), Gaps = 55/162 (33%)
Query: 1 MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPD---VEKRIE 57
M A RP L +SH GS+ ++ V T + E
Sbjct: 1 MDAYSTRP------LTLSH-------------GSLEHVLL------VPTASFFIASQLQE 35
Query: 58 EYKKTNPNITSWEVRD-----------KLIK-VSRLDDSDTESEPGIVLKRKQRRSRTTF 105
++ K P T D K + VS L + + VL
Sbjct: 36 QFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLN---------- 85
Query: 106 TSAQLEELEKSFQRSHYPDIYTREA-LANKFGMTETRVQQFV 146
L E E + + DI+ A L + T + ++ +
Sbjct: 86 --LCLTEFENCYLEGN--DIHALAAKLLQENDTTLVKTKELI 123
>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 = 28.8 bits (63), Expect = 0.25
Identities = 11/60 (18%), Positives = 21/60 (35%), Gaps = 4/60 (6%)
Query: 91 GIVLKRKQRRSRTTFTSAQLEELEKSFQRS----HYPDIYTREALANKFGMTETRVQQFV 146
G + RT F+ L L+K + EA+A + + V+ ++
Sbjct: 1 GSSGSSGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWI 60
>2heu_A Sugar ABC transporter, sugar-binding protein; periplasmic binding
protein, transport protein; 1.04A {Streptococcus
pneumoniae} PDB: 2hq0_A 2i58_A* 2hfb_A
Length = 401
Score = 30.1 bits (68), Expect = 0.26
Identities = 8/39 (20%), Positives = 17/39 (43%), Gaps = 8/39 (20%)
Query: 48 ATPDVEKRIEEYKKTNPNITSWEVRDKLIKVSRLDDSDT 86
T +E+ +++K NP I +KV + ++
Sbjct: 30 MTKTLEEITRDFEKENPKIK--------VKVVNVPNAGE 60
>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 = 30.2 bits (67), Expect = 0.32
Identities = 21/115 (18%), Positives = 37/115 (32%), Gaps = 36/115 (31%)
Query: 51 DVEKRIEEYKKTNPNITSWEVRDKLIKVSRLDDSDTESEPGIVLKRKQRRSRTTFTSAQL 110
D E +Y+ +I S D + D D + P ++ + ++
Sbjct: 8 DFETGEHQYQ--YKDILS-VFEDAFVD--NFDCKDVQDMP-----------KSILSKEEI 51
Query: 111 EELEKSFQRSHYPDIYTR-----EALANKFGMTETRVQQFVLGTA-----GFLLS 155
+ + S D + L +K E VQ+FV FL+S
Sbjct: 52 DHIIMS------KDAVSGTLRLFWTLLSK---QEEMVQKFV-EEVLRINYKFLMS 96
Score = 28.3 bits (62), Expect = 1.4
Identities = 14/72 (19%), Positives = 22/72 (30%), Gaps = 16/72 (22%)
Query: 57 EEYKKTNP---NITSWEVRDKLIKVSRLDDSDTESEPGIVLKRKQRRSRTTFTSAQLEEL 113
E TNP +I + +RD L + + L S L L
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK-----LTTIIESS--------LNVL 366
Query: 114 EKSFQRSHYPDI 125
E + R + +
Sbjct: 367 EPAEYRKMFDRL 378
>3quf_A Extracellular solute-binding protein, family 1; structural
genomics, PSI-biology, midwest center for structu
genomics, MCSG; HET: MSE; 1.70A {Bifidobacterium longum
subsp}
Length = 414
Score = 29.4 bits (66), Expect = 0.50
Identities = 5/20 (25%), Positives = 12/20 (60%)
Query: 48 ATPDVEKRIEEYKKTNPNIT 67
+ + ++ ++K NP+IT
Sbjct: 39 KDNQIGEVVKGFEKKNPDIT 58
>2w7y_A FCSSBP, probable sugar ABC transporter, sugar-binding protein;
solute-binding protein, blood group antigen,
carbohydrate transport; HET: A2G GAL FUC; 2.35A
{Streptococcus pneumoniae}
Length = 430
Score = 29.0 bits (65), Expect = 0.81
Identities = 0/27 (0%), Positives = 7/27 (25%)
Query: 41 GGSKPRVATPDVEKRIEEYKKTNPNIT 67
+ +++ + + +
Sbjct: 48 HSEDEWPVAKTMRDLYDKFAEEHKDSG 74
>3i3v_A Probable secreted solute-binding lipoprotein; transporter,
PSI-II, structural genomics, protein structure
initiative; 2.30A {Streptomyces coelicolor}
Length = 405
Score = 28.6 bits (64), Expect = 0.99
Identities = 5/28 (17%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 40 IGGSKPRVATPDVEKRIEEYKKTNPNIT 67
+G + P T ++ +++ NP +
Sbjct: 16 LGTTAPGSPT--YLAAVDRFREENPGVK 41
>2uvj_A TOGB, ABC type periplasmic sugar-binding protein; periplasmic
binding protein, pectin degradation, trigalacturonic
acid; HET: ADA; 1.8A {Yersinia enterocolitica} PDB:
2uvi_A* 2uvh_A* 2uvg_A 3u1o_A
Length = 408
Score = 28.2 bits (63), Expect = 1.1
Identities = 9/26 (34%), Positives = 12/26 (46%), Gaps = 2/26 (7%)
Query: 42 GSKPRVATPDVEKRIEEYKKTNPNIT 67
G R K +EE+ K +PNI
Sbjct: 14 GGNGR--HQVTLKALEEFHKQHPNIN 37
>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 = 28.1 bits (62), Expect = 1.3
Identities = 14/93 (15%), Positives = 30/93 (32%), Gaps = 6/93 (6%)
Query: 48 ATPDVEKRIEEYKKTNPNITSWEVRDKLIKVSRLDDSDTESEPGIVLKRKQR----RSRT 103
+ R + W + D SD+E E V + + +++T
Sbjct: 29 SIKWQRPRFTRQALMRCCLIKWILSSA--APQGSDSSDSELELSTVRHQPEGLDQLQAQT 86
Query: 104 TFTSAQLEELEKSFQRSHYPDIYTREALANKFG 136
FT +L+ L + F+ + + +
Sbjct: 87 KFTKKELQSLYRGFKNECPTGLVDEDTFKLIYS 119
>2z8f_A Galacto-N-biose/lacto-N-biose I transporter subst binding
protein; ABC transporter, mucin core-1, human MILK
oligosacchalide; HET: BGC GAL NAG MES; 1.65A
{Bifidobacterium longum} PDB: 2z8e_A* 2z8d_A*
Length = 412
Score = 28.2 bits (63), Expect = 1.5
Identities = 4/20 (20%), Positives = 9/20 (45%)
Query: 48 ATPDVEKRIEEYKKTNPNIT 67
V + ++ K +P+I
Sbjct: 29 GMTLVNDIVAKWNKQHPDIQ 48
>1uk5_A BAG-family molecular chaperone regulator-3; triple helix bandle,
CAIR-1, BIS, riken structural genomics/proteomics
initiative, RSGI; NMR {Mus musculus} SCOP: a.7.7.1
Length = 111
Score = 27.0 bits (59), Expect = 1.7
Identities = 14/66 (21%), Positives = 27/66 (40%), Gaps = 4/66 (6%)
Query: 51 DVEKRIEEYKKTNPNITSWEVRDKLIKV-SRLDDSDTESEPGIVLKRKQRRSRTTFTSAQ 109
+E+ ++ ++ + + + L K LD D E + R+ RR
Sbjct: 41 GLEQAVDSFEGKKTDKKYLMIEEYLTKELLALDSVDPEGRADV---RQARRDGVRKVQTI 97
Query: 110 LEELEK 115
LE+LE+
Sbjct: 98 LEKLEQ 103
>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 = 25.9 bits (57), Expect = 1.8
Identities = 10/40 (25%), Positives = 16/40 (40%), Gaps = 1/40 (2%)
Query: 106 TSAQLEELEKSFQRSH-YPDIYTREALANKFGMTETRVQQ 144
T+ LEK F +PD E L+ + +Q+
Sbjct: 8 TAQPNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQR 47
>1m62_A BAG-family molecular chaperone regulator-4; BAG domain, SODD,
silencer of death domains, HSP70/HSC70 CO-chaperone; NMR
{Homo sapiens} SCOP: a.7.7.1
Length = 87
Score = 26.4 bits (58), Expect = 2.0
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 4/66 (6%)
Query: 51 DVEKRIEEYKKTNPNITSWEVRDKLIKV-SRLDDSDTESEPGIVLKRKQRRSRTTFTSAQ 109
+E+ +EE+ + W + + L K LD +T + + R+ R+ A
Sbjct: 22 YLEQEVEEFVGKKTDKAYWLLEEMLTKELLELDSVETGGQDSV---RQARKEAVCKIQAI 78
Query: 110 LEELEK 115
LE+LEK
Sbjct: 79 LEKLEK 84
>3ly1_A Putative histidinol-phosphate aminotransferase; structural G joint
center for structural genomics, JCSG; HET: MSE PLP CIT;
1.80A {Erwinia carotovora atroseptica}
Length = 354
Score = 27.1 bits (61), Expect = 2.4
Identities = 3/37 (8%), Positives = 9/37 (24%), Gaps = 4/37 (10%)
Query: 110 LEELEKSFQRSH-YPDIYT---REALANKFGMTETRV 142
+ +++ Y LA + +
Sbjct: 35 QAAARDAVVKANRYAKNEILMLGNKLAAHHQVEAPSI 71
>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 = 27.1 bits (61), Expect = 2.5
Identities = 11/43 (25%), Positives = 22/43 (51%), Gaps = 7/43 (16%)
Query: 110 LEELEKSFQRSH-YPD---IYTREALANKFGMTETRVQQFVLG 148
+E L ++ ++H YPD I + LA K+ + + ++G
Sbjct: 49 IECLRQNANKAHLYPDDSMIELKSTLAQKYKVQN---ENIIIG 88
>2nq5_A 5-methyltetrahydropteroyltriglutamate-- homocysteine
methyltransferase; structural genomics, target 6426D,
PSI; 1.90A {Streptococcus mutans} PDB: 3l7s_A 3l7r_A
3t0c_A
Length = 755
Score = 27.1 bits (60), Expect = 3.5
Identities = 16/50 (32%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 10 VISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPD-VEKRIEE 58
VIS + SHG + + I GV PRV T + V IE
Sbjct: 652 VISIETSRSHGDIIESFETAVYPLGIGLGVYDIHSPRVPTKEEVVANIER 701
>3ffh_A Histidinol-phosphate aminotransferase; APC88260, listeria in
CLIP11262, structural genomics, PSI-2; 2.31A {Listeria
innocua}
Length = 363
Score = 26.4 bits (59), Expect = 4.4
Identities = 7/43 (16%), Positives = 17/43 (39%), Gaps = 7/43 (16%)
Query: 110 LEELEKSFQRSH-YPDIYT---REALANKFGMTETRVQQFVLG 148
S + YPD + R+ +A+ + + E ++ +
Sbjct: 51 AAIQANSSVETEIYPDGWASSLRKEVADFYQLEE---EELIFT 90
>1wh7_A ZF-HD homeobox family protein; homeobox domain, structural
genomics, riken structural genomics/proteomics
initiative, RSGI; NMR {Arabidopsis thaliana} SCOP:
a.4.1.1
Length = 80
Score = 25.3 bits (55), Expect = 4.9
Identities = 9/39 (23%), Positives = 17/39 (43%)
Query: 97 KQRRSRTTFTSAQLEELEKSFQRSHYPDIYTREALANKF 135
+R RT FT+ Q E++ +R + + +F
Sbjct: 16 TTKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQF 54
>2vch_A Hydroquinone glucosyltransferase; glycosyltransferase,
N-glucosyltransferase, UDP-glucose- dependent, plant
glycosyltransferase; HET: UDP; 1.45A {Arabidopsis
thaliana} SCOP: c.87.1.10 PDB: 2vce_A* 2vg8_A*
Length = 480
Score = 26.4 bits (59), Expect = 5.8
Identities = 10/23 (43%), Positives = 10/23 (43%), Gaps = 4/23 (17%)
Query: 101 SRTTFTSAQLEE----LEKSFQR 119
S T T QL E L S QR
Sbjct: 277 SGGTLTCEQLNELALGLADSEQR 299
>3o1n_A 3-dehydroquinate dehydratase; structural genomics, center for
structural genomics of infec diseases, csgid, TIM
barrel, lyase; 1.03A {Salmonella enterica subsp} PDB:
3s42_A 3l2i_A* 3lb0_A 3nnt_A* 3oex_A 3m7w_A 1gqn_A
1l9w_A* 1qfe_A*
Length = 276
Score = 25.8 bits (56), Expect = 8.4
Identities = 14/76 (18%), Positives = 29/76 (38%), Gaps = 17/76 (22%)
Query: 27 NRYQETGSIRPGVIGGSKPRVATP-------DVEKRIEEYKKTNPNITSWEVRDKLIKVS 79
+ +T ++R V+G P++ DV+ Y++ + +I W
Sbjct: 22 SNAMKTVTVRDLVVGEGAPKIIVSLMGKTITDVKSEALAYREADFDILEW---------- 71
Query: 80 RLDDSDTESEPGIVLK 95
R+D + VL+
Sbjct: 72 RVDHFANVTTAESVLE 87
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain,
DNA-binding domain, DNA binding protein; NMR
{Escherichia coli} SCOP: a.60.2.3
Length = 78
Score = 24.4 bits (54), Expect = 8.6
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 10/49 (20%)
Query: 72 RDKLIKVSRLDDSDTESEPGIVLKRKQR-----RSRTTFTSAQLEELEK 115
R + S L+ G+ KR+Q +A +EE+ K
Sbjct: 17 RGSHMNTSSLETI-----EGVGPKRRQMLLKYMGGLQGLRNASVEEIAK 60
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
0.317 0.132 0.376
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,444,666
Number of extensions: 136590
Number of successful extensions: 496
Number of sequences better than 10.0: 1
Number of HSP's gapped: 490
Number of HSP's successfully gapped: 98
Length of query: 163
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 77
Effective length of database: 4,300,587
Effective search space: 331145199
Effective search space used: 331145199
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.1 bits)