RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15107
(135 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 = 106 bits (266), Expect = 2e-31
Identities = 29/53 (54%), Positives = 38/53 (71%)
Query: 61 PSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
RKQRR RTTF+ +QLD LE F +T+YPDI+ REE+A + NL E+R+Q
Sbjct: 11 GIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQ 63
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 103 bits (258), Expect = 3e-30
Identities = 24/50 (48%), Positives = 36/50 (72%)
Query: 64 NHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
+ +R RT+FT+ Q++ LE F +T YPD+F RE +A KI+LPE+R+Q
Sbjct: 3 SGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQ 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 = 102 bits (257), Expect = 4e-30
Identities = 23/50 (46%), Positives = 35/50 (70%)
Query: 64 NHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
+ RR RT FT QL+ LE+LF +T+YPD+ RE++A K++L E +V+
Sbjct: 3 SGSSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVE 52
>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 = 102 bits (255), Expect = 8e-30
Identities = 43/50 (86%), Positives = 45/50 (90%)
Query: 64 NHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
+ RRERTTFTRAQLDVLE+LF KTRYPDIFMREEVALKINLPESRVQ
Sbjct: 3 SGSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQ 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 = 99.7 bits (249), Expect = 6e-29
Identities = 25/47 (53%), Positives = 33/47 (70%)
Query: 67 KQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
QRR+RT FT QL LE+ F + RYPD+ REE+A+ NL E+RV+
Sbjct: 2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVR 48
>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 = 95.8 bits (239), Expect = 2e-27
Identities = 21/45 (46%), Positives = 31/45 (68%)
Query: 69 RRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
RR RT FT+ Q++VLE++F YP I + E++A K+NL R+Q
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQ 46
>2dmq_A LIM/homeobox protein LHX9; homeobox domain, three helices with the
DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 92.1 bits (229), Expect = 6e-26
Identities = 14/50 (28%), Positives = 24/50 (48%)
Query: 64 NHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
+ +R RT+F QL ++S F PD +++A K L + +Q
Sbjct: 3 SGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQ 52
>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 = 90.9 bits (226), Expect = 1e-25
Identities = 16/51 (31%), Positives = 23/51 (45%)
Query: 63 GNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
+ R RT FT QL VL+ F YP E+++ +NLP +
Sbjct: 2 SSGSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIV 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 = 87.0 bits (216), Expect = 5e-24
Identities = 12/47 (25%), Positives = 19/47 (40%)
Query: 67 KQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
K R RT QL L + + PD M+E++ L ++
Sbjct: 2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIR 48
>3a02_A Homeobox protein aristaless; homeodomain, developmental protein,
DNA-binding, N gene regulation; 1.00A {Drosophila
melanogaster} PDB: 3lnq_A 3cmy_A
Length = 60
Score = 86.1 bits (214), Expect = 7e-24
Identities = 23/42 (54%), Positives = 30/42 (71%)
Query: 72 RTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
TFT QL+ LE F +T YPD+F REE+A+KI L E+R+Q
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 44
>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 = 83.3 bits (206), Expect = 2e-22
Identities = 16/60 (26%), Positives = 27/60 (45%)
Query: 54 HSSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
S G ++ +R RTT T QL++L + P M + +A ++ L + VQ
Sbjct: 3 SGSSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQ 62
>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 = 77.0 bits (190), Expect = 4e-20
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 69 RRERTTFTRAQLDVLESLFGKT-RYPDIFMREEVALKINLPESRVQ 113
T T Q+++LE F K ++PD +A + L E + Q
Sbjct: 2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 47
>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 = 76.6 bits (188), Expect = 1e-19
Identities = 17/66 (25%), Positives = 26/66 (39%), Gaps = 15/66 (22%)
Query: 63 GNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKIN---------------L 107
+ R R T+ + L V+ES F + +YPD REE+A N +
Sbjct: 2 SSGSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERV 61
Query: 108 PESRVQ 113
+V
Sbjct: 62 TSLKVY 67
>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 = 73.9 bits (182), Expect = 6e-19
Identities = 15/50 (30%), Positives = 22/50 (44%)
Query: 64 NHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
+ +R RT T QL VL F P +E+A K LP+ ++
Sbjct: 3 SGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIK 52
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 73.6 bits (181), Expect = 9e-19
Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 69 RRERTTFTRAQLDVLESLFGKT-RYPDIFMREEVALKINLPESRVQ 113
+ + T Q+++LE F K ++PD +A + L E + Q
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQ 48
>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 = 75.7 bits (185), Expect = 3e-18
Identities = 14/97 (14%), Positives = 26/97 (26%)
Query: 22 GTSCGGGGAAMASYLKSAPYGVNGIGLSMDSLHSSLGYIPSGNHRKQRRERTTFTRAQLD 81
A Y++ + +K RR R + A
Sbjct: 69 PMKTQKRAALYTWYVRKQREVAQQFTHAGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQ 128
Query: 82 VLESLFGKTRYPDIFMREEVALKINLPESRVQGYPDI 118
+L + + + P RE + + N E +G
Sbjct: 129 ILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPS 165
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 72.0 bits (175), Expect = 1e-16
Identities = 15/93 (16%), Positives = 26/93 (27%)
Query: 26 GGGGAAMASYLKSAPYGVNGIGLSMDSLHSSLGYIPSGNHRKQRRERTTFTRAQLDVLES 85
G S + S ++K RR R + A +L
Sbjct: 100 SSGNMTDKSSQDQLLFLFPEFSQQSHGPGQSDDACSEPTNKKMRRNRFKWGPASQQILYQ 159
Query: 86 LFGKTRYPDIFMREEVALKINLPESRVQGYPDI 118
+ + + P RE + + N E +G
Sbjct: 160 AYDRQKNPSKEEREALVEECNRAECLQRGVSPS 192
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 67.2 bits (163), Expect = 8e-16
Identities = 12/51 (23%), Positives = 21/51 (41%)
Query: 66 RKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQGYP 116
+K RR R + A +L + + + P RE + + N E +G
Sbjct: 7 KKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVS 57
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 63.6 bits (155), Expect = 8e-15
Identities = 10/53 (18%), Positives = 19/53 (35%), Gaps = 1/53 (1%)
Query: 61 PSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
SG+ + + QL L+ F + ++P E + L V+
Sbjct: 2 SSGSSGASIY-KNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVR 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 = 64.3 bits (156), Expect = 3e-14
Identities = 15/53 (28%), Positives = 25/53 (47%)
Query: 61 PSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
G K+R+ RT+FT ++ L + F K P E+A ++N V+
Sbjct: 86 VGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVR 138
>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 = 62.8 bits (152), Expect = 1e-13
Identities = 13/82 (15%), Positives = 34/82 (41%)
Query: 32 MASYLKSAPYGVNGIGLSMDSLHSSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTR 91
+ + K P + + ++ + + ++R+RT+ LE++F K+
Sbjct: 60 LKNMSKLRPLLEKWVEEADNNENLQEISKSETLVQARKRKRTSIENRVRWSLETMFLKSP 119
Query: 92 YPDIFMREEVALKINLPESRVQ 113
P + +A ++ L + V+
Sbjct: 120 KPSLQQITHIANQLGLEKDVVR 141
>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 = 60.6 bits (147), Expect = 1e-13
Identities = 8/47 (17%), Positives = 19/47 (40%)
Query: 67 KQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
T+ Q+ L++ F ++++PD + L S ++
Sbjct: 3 HHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIK 49
>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 = 61.9 bits (150), Expect = 2e-13
Identities = 18/66 (27%), Positives = 30/66 (45%)
Query: 48 LSMDSLHSSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINL 107
L +L G + ++R+ RTT + A D LE FG+ P +A ++NL
Sbjct: 67 LEEAEQVGALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNL 126
Query: 108 PESRVQ 113
+ V+
Sbjct: 127 EKEVVR 132
>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 = 56.7 bits (137), Expect = 4e-12
Identities = 11/48 (22%), Positives = 21/48 (43%), Gaps = 1/48 (2%)
Query: 67 KQRRERTTFTRAQLDVLESLFGKT-RYPDIFMREEVALKINLPESRVQ 113
R RT + L +L+S YPD ++ +++LP+ +
Sbjct: 6 SGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTII 53
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 57.3 bits (138), Expect = 1e-11
Identities = 14/65 (21%), Positives = 24/65 (36%)
Query: 49 SMDSLHSSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLP 108
+ S S ++R++RT+ LES F K P +A + L
Sbjct: 80 TDSSSGSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLE 139
Query: 109 ESRVQ 113
+ V+
Sbjct: 140 KEVVR 144
>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 = 55.4 bits (133), Expect = 9e-11
Identities = 11/59 (18%), Positives = 26/59 (44%)
Query: 55 SSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
S+L ++R++RT+ LE F + + P +A ++N+ + ++
Sbjct: 88 SALNSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIR 146
>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 = 51.0 bits (123), Expect = 4e-10
Identities = 10/47 (21%), Positives = 23/47 (48%)
Query: 67 KQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
K + +++ + LE +F + + + +EEVA K + +V+
Sbjct: 4 KSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVR 50
>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 = 51.3 bits (123), Expect = 6e-10
Identities = 19/52 (36%), Positives = 26/52 (50%)
Query: 61 PSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
G K+R+ R FT+AQ LE F + RY RE +A I L ++V
Sbjct: 2 SDGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQV 53
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 52.2 bits (124), Expect = 1e-09
Identities = 10/64 (15%), Positives = 24/64 (37%)
Query: 50 MDSLHSSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPE 109
+ + ++ R FT Q L ++F + + P ++ ++ ++ L
Sbjct: 79 LAACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLEL 138
Query: 110 SRVQ 113
S V
Sbjct: 139 STVS 142
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 50.2 bits (120), Expect = 2e-09
Identities = 16/61 (26%), Positives = 30/61 (49%)
Query: 52 SLHSSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESR 111
S +S+ K+++ RT F+ QL VL F + +Y + +E++ +NL +
Sbjct: 6 SAENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQ 65
Query: 112 V 112
V
Sbjct: 66 V 66
>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 = 49.8 bits (119), Expect = 3e-09
Identities = 21/58 (36%), Positives = 28/58 (48%)
Query: 55 SSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
S G P +K RR RT FT QL LE F K +Y R ++A + L + +V
Sbjct: 4 GSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQV 61
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 48.6 bits (116), Expect = 5e-09
Identities = 15/50 (30%), Positives = 27/50 (54%)
Query: 63 GNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
+ R+ RT ++ QL L+ F KT+Y + R E+A + L +++V
Sbjct: 2 SSGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQV 51
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 48.0 bits (115), Expect = 7e-09
Identities = 14/46 (30%), Positives = 27/46 (58%)
Query: 67 KQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
+++ RT F++AQL L+ F K +Y + +E++ +NL +V
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQV 47
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 48.3 bits (115), Expect = 1e-08
Identities = 15/52 (28%), Positives = 28/52 (53%)
Query: 61 PSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
+ K+++ RT+FTR Q+ LE F K +Y R +A + + +++V
Sbjct: 10 QNRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQV 61
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 46.5 bits (111), Expect = 2e-08
Identities = 14/45 (31%), Positives = 26/45 (57%)
Query: 68 QRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
+R+ R F++AQ+ LE F + RY R+++A + L ++V
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQV 46
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 46.2 bits (110), Expect = 4e-08
Identities = 15/45 (33%), Positives = 26/45 (57%)
Query: 68 QRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
+R+ R F++AQ+ LE F + +Y RE +A I+L ++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 = 45.8 bits (109), Expect = 5e-08
Identities = 10/46 (21%), Positives = 18/46 (39%)
Query: 67 KQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
+ + Q+ LE F +Y R +A + L E++V
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQV 48
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 45.7 bits (109), Expect = 6e-08
Identities = 18/44 (40%), Positives = 26/44 (59%)
Query: 69 RRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
R+ RT FT AQL LE F + +Y I R E + ++L E++V
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQV 44
>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 = 45.3 bits (107), Expect = 1e-07
Identities = 9/52 (17%), Positives = 18/52 (34%), Gaps = 2/52 (3%)
Query: 62 SGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
SG+ + + QL LES F + P + + + + +
Sbjct: 3 SGSSGPTKYKERA--PEQLRALESSFAQNPLPLDEELDRLRSETKMTRREID 52
>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-07
Identities = 10/51 (19%), Positives = 22/51 (43%)
Query: 63 GNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
+ T QL +L+S F +T++P +++A + L + +
Sbjct: 20 APKSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIV 70
>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 = 43.4 bits (102), Expect = 7e-07
Identities = 8/56 (14%), Positives = 17/56 (30%), Gaps = 2/56 (3%)
Query: 58 GYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
+ Q+ + T QL VL++ F + + + L +
Sbjct: 3 SGSSGPDFTPQKFKEKT--AEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREID 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 = 42.8 bits (101), Expect = 8e-07
Identities = 11/49 (22%), Positives = 20/49 (40%)
Query: 64 NHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
+ + + F+ Q LE F +Y R+ +A + L E +V
Sbjct: 3 SGSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQV 51
>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 = 42.3 bits (100), Expect = 9e-07
Identities = 22/44 (50%), Positives = 26/44 (59%)
Query: 69 RRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
RR RT FTR QL LE F K Y R E+A ++NLPES +
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTI 45
>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 = 43.0 bits (101), Expect = 1e-06
Identities = 11/60 (18%), Positives = 24/60 (40%), Gaps = 2/60 (3%)
Query: 55 SSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQG 114
SS + Q+ + T + Q+ +LE F K+ +P + + ++ L +
Sbjct: 2 SSGSSGAYPDFAPQKFKEKT--QGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDS 59
>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 = 39.7 bits (93), Expect = 1e-05
Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 68 QRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
RR RTTFT +Q+ LE F + RY +++ K+ L ++V
Sbjct: 2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQV 46
>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 = 39.6 bits (93), Expect = 1e-05
Identities = 13/45 (28%), Positives = 27/45 (60%)
Query: 68 QRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
++R RT F+ QL L+ F + RY R++++ ++ L E+++
Sbjct: 3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 47
>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 = 40.6 bits (94), Expect = 1e-05
Identities = 11/54 (20%), Positives = 20/54 (37%)
Query: 63 GNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQGYP 116
G+ R R + A +L + + + P RE + + N E +G
Sbjct: 1 GSSGSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVS 54
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 38.1 bits (89), Expect = 4e-05
Identities = 11/40 (27%), Positives = 23/40 (57%)
Query: 73 TTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
T+F+R+Q+ LE F + +Y R +A + + +++V
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQV 41
>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 = 38.3 bits (89), Expect = 5e-05
Identities = 17/52 (32%), Positives = 26/52 (50%)
Query: 61 PSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
+G + +RR R T+TR Q LE F Y R E+A ++L E ++
Sbjct: 13 IAGTNGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQI 64
>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 = 38.7 bits (90), Expect = 5e-05
Identities = 16/59 (27%), Positives = 22/59 (37%)
Query: 54 HSSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
+ RT FT QL LE F +Y R E+A + L E++V
Sbjct: 20 PPKTAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQV 78
>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 = 38.1 bits (88), Expect = 6e-05
Identities = 8/44 (18%), Positives = 18/44 (40%)
Query: 70 RERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
T+ QL +L+S F + ++ +++ LP +
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEII 48
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 37.9 bits (88), Expect = 8e-05
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 50 MDSLHSSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPE 109
M +H + + K R+RT++TR Q LE F RY R E+A ++L E
Sbjct: 12 MKRVHLGTSTVNANGETK--RQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTE 69
Query: 110 SRV 112
++
Sbjct: 70 RQI 72
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 37.4 bits (87), Expect = 9e-05
Identities = 18/46 (39%), Positives = 25/46 (54%)
Query: 67 KQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
+R RT +TRAQL LE F +Y R E+A+ +NL E +
Sbjct: 2 SNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHI 47
>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 = 39.6 bits (92), Expect = 1e-04
Identities = 24/139 (17%), Positives = 41/139 (29%), Gaps = 43/139 (30%)
Query: 34 SYLKSAPYGVNGIGLS-----MDSLHSSLGYIPSGNHRKQRRERTT-------------- 74
YL S P IG+ + + LG+ P G R + T
Sbjct: 229 DYLLSIPISCPLIGVIQLAHYVVTAK-LLGFTP-GELRSYLKGATGHSQGLVTAVAIAET 286
Query: 75 -----FTRAQLDVLESLF-----GKTRYPDIFMREEVALKINLPESR--------VQGYP 116
F + + LF YP+ + + L+ +L + +
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSI-LEDSLENNEGVPSPMLSISNLT 345
Query: 117 DIFMREEVALKIN--LPES 133
+++ V K N LP
Sbjct: 346 QEQVQDYVN-KTNSHLPAG 363
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 36.8 bits (85), Expect = 2e-04
Identities = 12/49 (24%), Positives = 24/49 (48%)
Query: 64 NHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
+ + R++R +T+ QL LE + ++ R ++ NL E +V
Sbjct: 3 HMLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQV 51
>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 = 35.5 bits (82), Expect = 5e-04
Identities = 16/45 (35%), Positives = 24/45 (53%)
Query: 68 QRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
++R R T+TR Q LE F RY R E+A ++L E ++
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQI 46
>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 = 34.4 bits (79), Expect = 0.001
Identities = 9/47 (19%), Positives = 23/47 (48%)
Query: 66 RKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
R++R +++ QL LE + ++ R +++ +L 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 = 34.8 bits (80), Expect = 0.001
Identities = 17/52 (32%), Positives = 24/52 (46%)
Query: 61 PSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRV 112
+ R R++R +T+ Q LE F Y R EVA +NL E +V
Sbjct: 6 NWLHARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQV 57
>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 = 32.5 bits (74), Expect = 0.007
Identities = 9/45 (20%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 70 RERTTFTRAQLDVLESLFGK-TRYPDIFMREEVALKINLPESRVQ 113
++ D LE +F T+YPD + ++ +++ ++Q
Sbjct: 10 KDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQ 54
>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 = 32.9 bits (74), Expect = 0.022
Identities = 12/77 (15%), Positives = 25/77 (32%), Gaps = 11/77 (14%)
Query: 36 LKSAPYGVNGIGLSMDSLHSSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPD- 94
L + P ++ I S+ ++ N K + L+VLE + +
Sbjct: 323 LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS----LNVLEPAEYRKMFDRL 378
Query: 95 -IFMREEVALKINLPES 110
+F ++P
Sbjct: 379 SVF-PPSA----HIPTI 390
>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 = 29.9 bits (66), Expect = 0.17
Identities = 7/30 (23%), Positives = 11/30 (36%), Gaps = 12/30 (40%)
Query: 100 EVALKINLPESRVQGYPDIFMREEVALKIN 129
+ +LK+ +S P AL I
Sbjct: 26 QASLKLYADDSA----P--------ALAIK 43
>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 = 28.0 bits (61), Expect = 0.34
Identities = 13/77 (16%), Positives = 27/77 (35%), Gaps = 4/77 (5%)
Query: 62 SGNHRKQRRERTTFTRAQLDVLESLFGK----TRYPDIFMREEVALKINLPESRVQGYPD 117
S ++RT F+ L L+ + E VA ++N+ V+ +
Sbjct: 2 SSGSSGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIG 61
Query: 118 IFMREEVALKINLPEST 134
R+ + I + +
Sbjct: 62 NRRRKYRLMGIEVSGPS 78
>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 = 27.1 bits (60), Expect = 0.57
Identities = 8/37 (21%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 78 AQLDVLESLFGK-TRYPDIFMREEVALKINLPESRVQ 113
+LE +F T++PD E ++ +++ +Q
Sbjct: 10 QPNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQ 46
>3cym_A Uncharacterized protein BAD_0989; structural genomics, unknown
function; 2.10A {Bifidobacterium adolescentis atcc
1570ORGANISM_TAXID}
Length = 440
Score = 28.3 bits (63), Expect = 0.74
Identities = 7/78 (8%), Positives = 25/78 (32%), Gaps = 17/78 (21%)
Query: 59 YIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQGYPDI 118
R L ++ +L+ + R+E+A + ++ + +
Sbjct: 213 EHLIPWMHVSHITEVMRDRQALAIVRALWTR--------RDELAREYDIAPTLL------ 258
Query: 119 FMREEVALKI--NLPEST 134
+ + +++ P +
Sbjct: 259 -LSDSSIIEVAKRKPHNA 275
>3saf_A Exosome component 10; exoribonuclease, RNA exosome, hydrolase;
2.50A {Homo sapiens} PDB: 3sag_A 3sah_A 2cpr_A
Length = 428
Score = 27.5 bits (61), Expect = 1.6
Identities = 13/71 (18%), Positives = 24/71 (33%), Gaps = 17/71 (23%)
Query: 66 RKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQGYPDIFMREEVA 125
R+++ QL + LF R++ A + + V + +
Sbjct: 315 ELYRKQKKHLNTQQLTAFQLLFA--------WRDKTARREDESYGYV-------LPNHMM 359
Query: 126 LKI--NLPEST 134
LKI LP+
Sbjct: 360 LKIAEELPKEP 370
>1r6x_A ATP:sulfate adenylyltransferase; APS kinase-like domain; 1.40A
{Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5
Length = 395
Score = 26.6 bits (57), Expect = 3.1
Identities = 8/45 (17%), Positives = 12/45 (26%), Gaps = 2/45 (4%)
Query: 58 GYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVA 102
Y P + + +L L P+ F EV
Sbjct: 338 RYAPIDQIDTTKTRTLNISGTELR--RRLRVGGEIPEWFSYPEVV 380
>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 = 3.5
Identities = 10/36 (27%), Positives = 16/36 (44%)
Query: 54 HSSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGK 89
S G PS + +R RT FT Q + + + +
Sbjct: 3 SGSSGSNPSSSGGTTKRFRTKFTAEQKEKMLAFAER 38
>1yt3_A Ribonuclease D, RNAse D; exoribonuclease, exonuclease, hydrolase,
tRNA processing, hydrolase,translation; 1.60A
{Escherichia coli} SCOP: a.60.8.3 a.60.8.3 c.55.3.5
Length = 375
Score = 25.8 bits (57), Expect = 4.8
Identities = 11/57 (19%), Positives = 17/57 (29%), Gaps = 15/57 (26%)
Query: 72 RTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQGYPDIFMREEVALKI 128
QL L+ L R A + +L + V +REE +
Sbjct: 206 AWQLRTRQLACLQLLADW--------RLRKARERDLAVNFV-------VREEHLWSV 247
>3o10_A Sacsin; all-helical domain, homodimerization, chaperone; 1.90A
{Homo sapiens}
Length = 141
Score = 25.4 bits (55), Expect = 5.6
Identities = 19/90 (21%), Positives = 29/90 (32%), Gaps = 3/90 (3%)
Query: 12 ADGELAFPSFGTSCGGGGAAMASYLKSAPYGVNGIGLSMDSLHSSLGYIPSGNHRKQRRE 71
A +L + C + L +A Y V G + I Q+ E
Sbjct: 23 ARNDLHKNANEWVCFKCYLSTKLALIAADYAVRGKSDKDVKPTALAQKIEE---YSQQLE 79
Query: 72 RTTFTRAQLDVLESLFGKTRYPDIFMREEV 101
T L+ KTRYPD+ ++
Sbjct: 80 GLTNDVHTLEAYGVDSLKTRYPDLLPFPQI 109
>3v9r_B MHF2, uncharacterized protein YDL160C-A; histone fold, fanconi
anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces
cerevisiae}
Length = 88
Score = 24.9 bits (54), Expect = 5.8
Identities = 7/27 (25%), Positives = 13/27 (48%), Gaps = 3/27 (11%)
Query: 76 TRAQLDVLESLFGKTRYPDIFMREEVA 102
+ +V+ + +Y DIF+ E V
Sbjct: 20 MKIADEVVPMI---QKYLDIFIDEAVL 43
>2hbj_A Exosome complex exonuclease RRP6; RNA metabolism, RNA surveillance,
RNA processing, hydrolase, gene regulation; 2.10A
{Saccharomyces cerevisiae} SCOP: a.60.8.4 c.55.3.5 PDB:
2hbk_A 2hbl_A* 2hbm_A*
Length = 410
Score = 25.6 bits (56), Expect = 6.4
Identities = 6/67 (8%), Positives = 18/67 (26%), Gaps = 17/67 (25%)
Query: 70 RERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQGYPDIFMREEVALKI- 128
+ + ++ L+ R+ +A + + V M ++ +
Sbjct: 303 MYQYNIPPEREVLVRELYQW--------RDLIARRDDESPRFV-------MPNQLLAALV 347
Query: 129 -NLPEST 134
P
Sbjct: 348 AYTPTDV 354
>1lba_A T7 lysozyme; hydrolase(acting on linear amides); 2.20A
{Enterobacteria phage T7} SCOP: d.118.1.1 PDB: 1aro_L
Length = 146
Score = 24.7 bits (54), Expect = 8.7
Identities = 11/41 (26%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 56 SLGYIPSGNHRKQRRERTTFTRAQLDVLESLF--GKTRYPD 94
S+G G + + FT AQ+ L SL +Y
Sbjct: 72 SIGVCLVGGIDDKGKFDANFTPAQMQSLRSLLVTLLAKYEG 112
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
0.318 0.135 0.400
Gapped
Lambda K H
0.267 0.0568 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,085,013
Number of extensions: 112640
Number of successful extensions: 319
Number of sequences better than 10.0: 1
Number of HSP's gapped: 316
Number of HSP's successfully gapped: 73
Length of query: 135
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 51
Effective length of database: 4,356,429
Effective search space: 222177879
Effective search space used: 222177879
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 (21.7 bits)
S2: 52 (24.2 bits)