RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15969
(111 letters)
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 59.9 bits (144), Expect = 1e-12
Identities = 52/94 (55%), Positives = 73/94 (77%)
Query: 14 KKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEM 73
++ + ++ + +++E + +D+ +TPKKPRLVFTD+QRRTL AIFKE KRPSKE+
Sbjct: 67 QEPEFQRMSALRLAACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKEL 126
Query: 74 QVTIARQLGLEPTTVGNFFMNARRRSMDKWKDDD 107
Q+TI++QLGLE +TV NFFMNARRRS+DKW +
Sbjct: 127 QITISQQLGLELSTVSNFFMNARRRSLDKWLEHH 160
>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 = 39.8 bits (93), Expect = 7e-06
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 1/60 (1%)
Query: 40 QSSTPKKPRLVFTDLQRRTLQAIFKET-KRPSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
S+ + R + LQ+ + P +E T++ QL L T+ FF N R
Sbjct: 3 SGSSGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYH 62
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 40.4 bits (94), Expect = 2e-05
Identities = 16/71 (22%), Positives = 25/71 (35%), Gaps = 2/71 (2%)
Query: 33 EPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFF 92
+K R + L++ F + +PS +A L LE V +F
Sbjct: 88 TNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWF 147
Query: 93 MNARRRSMDKW 103
N RR +K
Sbjct: 148 CN--RRQKEKR 156
>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 = 38.8 bits (90), Expect = 6e-05
Identities = 19/84 (22%), Positives = 35/84 (41%)
Query: 15 KKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQ 74
K K K ++ + + + +K R + + L+ F E +PS +
Sbjct: 58 KLKAILSKWLEEAEQVGALYNEKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEI 117
Query: 75 VTIARQLGLEPTTVGNFFMNARRR 98
+ +A +L LE V +F N R+R
Sbjct: 118 MRMAEELNLEKEVVRVWFCNRRQR 141
>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 = 38.0 bits (88), Expect = 1e-04
Identities = 17/75 (22%), Positives = 26/75 (34%)
Query: 22 KKKKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQL 81
+ S +K R R L+ F E ++P+ E IA QL
Sbjct: 79 SSDSSLSSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQL 138
Query: 82 GLEPTTVGNFFMNAR 96
+E + +F N R
Sbjct: 139 NMEKEVIRVWFSNRR 153
>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 = 35.8 bits (83), Expect = 3e-04
Identities = 18/59 (30%), Positives = 28/59 (47%)
Query: 40 QSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
S+ K+PR TD Q R L+ F PS+E +A + GL + ++F N +
Sbjct: 3 SGSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFK 61
>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 = 37.0 bits (85), Expect = 3e-04
Identities = 22/87 (25%), Positives = 41/87 (47%)
Query: 12 KKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSK 71
K + +K ++ + +E S+ K+ R + R +L+ +F ++ +PS
Sbjct: 64 SKLRPLLEKWVEEADNNENLQEISKSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSL 123
Query: 72 EMQVTIARQLGLEPTTVGNFFMNARRR 98
+ IA QLGLE V +F N R++
Sbjct: 124 QQITHIANQLGLEKDVVRVWFSNRRQK 150
>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 = 35.4 bits (81), Expect = 0.001
Identities = 15/71 (21%), Positives = 30/71 (42%)
Query: 28 CKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTT 87
++ + + S +K R FT L A F++ P+ + +A++L +
Sbjct: 77 EGQQNLMEFVGGEPSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREV 136
Query: 88 VGNFFMNARRR 98
V +F N R+
Sbjct: 137 VRVWFSNRRQT 147
>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 = 34.4 bits (79), Expect = 0.001
Identities = 15/65 (23%), Positives = 26/65 (40%)
Query: 32 EEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNF 91
++ K+ R T Q L + P+++M IA ++GL+ V +
Sbjct: 5 SSGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVW 64
Query: 92 FMNAR 96
F N R
Sbjct: 65 FQNTR 69
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 32.4 bits (74), Expect = 0.006
Identities = 11/58 (18%), Positives = 20/58 (34%)
Query: 41 SSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
SS + + Q L+ F + P + + + GL V +F + R
Sbjct: 5 SSGASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYH 62
>1akh_A Protein (mating-type protein A-1); complex (TWO DNA-binding
proteins/DNA), complex, DNA- binding protein, DNA; HET:
DNA; 2.50A {Saccharomyces cerevisiae} SCOP: a.4.1.1
PDB: 1f43_A 1yrn_A*
Length = 61
Score = 31.8 bits (73), Expect = 0.006
Identities = 13/60 (21%), Positives = 29/60 (48%)
Query: 40 QSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRRS 99
+ K + + R L+ +F+ + + + + +A++ G+ P V +F+N R RS
Sbjct: 1 KKEKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRS 60
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding,
transcription, nucleus, phosphoprotein, DNA bindi
protein; 1.95A {Homo sapiens}
Length = 67
Score = 31.1 bits (71), Expect = 0.011
Identities = 14/30 (46%), Positives = 20/30 (66%)
Query: 69 PSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
PS+E + +A+ GL V N+F+NARRR
Sbjct: 26 PSEEQKKQLAQDTGLTILQVNNWFINARRR 55
>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 = 31.2 bits (71), Expect = 0.013
Identities = 17/57 (29%), Positives = 24/57 (42%)
Query: 40 QSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNAR 96
S+ + R FTD Q R LQ F P + ++ L L + +F NAR
Sbjct: 3 SGSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNAR 59
>3st8_A Bifunctional protein GLMU; acetyltransferase, pyrophosphorylase,
rossmann fold, LEFT-handed-beta-helix, cell shape; HET:
COA GP1 UD1; 1.98A {Mycobacterium tuberculosis} PDB:
3spt_A* 3foq_A 3dk5_A 3d8v_A 3d98_A* 3dj4_A 2qkx_A*
Length = 501
Score = 32.2 bits (74), Expect = 0.019
Identities = 8/43 (18%), Positives = 17/43 (39%), Gaps = 2/43 (4%)
Query: 4 KRRKKE--KKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTP 44
+R E ++K+ + K+ + ++P D TP
Sbjct: 459 PQRNIENWVQRKRPGSPAAQASKRASEMACQQPTQPPDADQTP 501
Score = 26.0 bits (58), Expect = 3.2
Identities = 2/34 (5%), Positives = 8/34 (23%)
Query: 14 KKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKP 47
++K+ + + + P
Sbjct: 468 QRKRPGSPAAQASKRASEMACQQPTQPPDADQTP 501
>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 = 31.3 bits (70), Expect = 0.019
Identities = 17/69 (24%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 41 SSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNAR---R 97
S T Q L++ F T+ PS E +A++ GL T + ++F + R +
Sbjct: 22 KSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWK 81
Query: 98 RSMDKWKDD 106
KW
Sbjct: 82 NGNLKWYYY 90
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 30.3 bits (69), Expect = 0.025
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 4/60 (6%)
Query: 45 KKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRRSMDKWK 104
+KPR++F+ Q L+ FK+ + S + +A L L T V +F N RR K K
Sbjct: 3 RKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQN--RRY--KSK 58
>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 = 30.4 bits (68), Expect = 0.030
Identities = 9/56 (16%), Positives = 20/56 (35%)
Query: 43 TPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
+ T Q L++ F + + +E + + GL + +F + R
Sbjct: 2 SSGSSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYA 57
>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 = 30.2 bits (68), Expect = 0.031
Identities = 10/71 (14%), Positives = 23/71 (32%)
Query: 39 DQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
S+ Q R L++ F + P E + + + + ++F R++
Sbjct: 2 SSGSSGPTKYKERAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKK 61
Query: 99 SMDKWKDDDPP 109
+ P
Sbjct: 62 VNAEETKKSGP 72
>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 = 30.1 bits (68), Expect = 0.039
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 31 KEEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGN 90
++ ++ R VFT+LQ L+ F++ K S ++ +A LGL V
Sbjct: 4 GSSGGEPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKT 63
Query: 91 FFMNARRRSMDKWKDDDPPK 110
++ N RR KWK P
Sbjct: 64 WYQN--RRM--KWKKSGPSS 79
>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 = 29.8 bits (67), Expect = 0.043
Identities = 11/57 (19%), Positives = 21/57 (36%)
Query: 42 STPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
+ T Q L+A F +++ P + GL + + +F + R R
Sbjct: 2 AHHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYR 58
>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 = 0.045
Identities = 13/66 (19%), Positives = 24/66 (36%), Gaps = 18/66 (27%)
Query: 30 RKEEPDISQDQSSTP---KKPRLV--F--------TDLQRRTLQAIFKETKR-----PSK 71
RK + DQS P +K + F + L I K+ + +K
Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAK 453
Query: 72 EMQVTI 77
++Q+ +
Sbjct: 454 DIQIPV 459
Score = 30.0 bits (67), Expect = 0.13
Identities = 15/71 (21%), Positives = 26/71 (36%), Gaps = 21/71 (29%)
Query: 33 EPDISQDQSS----TPKKPRLVFTDLQRRTLQAIFKETKR--PSKEMQVTIARQLGLEPT 86
P I +D P P L ++L + +Q +T P+ + QV I+ L
Sbjct: 320 PPSILEDSLENNEGVPS-PMLSISNLTQEQVQDYVNKTNSHLPAGK-QVEIS--L----- 370
Query: 87 TVGNFFMNARR 97
+N +
Sbjct: 371 ------VNGAK 375
>2dmn_A Homeobox protein TGIF2LX; TGFB-induced factor 2-like protein,
X-linked TGF(beta) induced transcription factor 2-like
protein, TGIF-like on the X; NMR {Homo sapiens}
Length = 83
Score = 29.7 bits (67), Expect = 0.051
Identities = 16/74 (21%), Positives = 31/74 (41%), Gaps = 3/74 (4%)
Query: 41 SSTPKKPRLVFTDLQRRTLQAIFKETKR---PSKEMQVTIARQLGLEPTTVGNFFMNARR 97
S+ KK + + L+ + + PS+E + ++ + L + N+F+NARR
Sbjct: 4 GSSGKKRKGNLPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARR 63
Query: 98 RSMDKWKDDDPPKP 111
R + P
Sbjct: 64 RILPDMLQQRRNDP 77
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 29.1 bits (66), Expect = 0.059
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 4/60 (6%)
Query: 45 KKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRRSMDKWK 104
+KPR FT Q L+ F++ + S + + L L T V +F N RR+ K K
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQN--RRA--KAK 56
>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 = 30.6 bits (68), Expect = 0.066
Identities = 12/79 (15%), Positives = 32/79 (40%)
Query: 3 EKRRKKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAI 62
++ +K+++ ++ EEP + + ++ R + ++ L
Sbjct: 74 KRAALYTWYVRKQREVAQQFTHAGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQILFQA 133
Query: 63 FKETKRPSKEMQVTIARQL 81
++ K PSKE + T+ +
Sbjct: 134 YERQKNPSKEERETLVEEC 152
>1x2n_A Homeobox protein pknox1; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1
Length = 73
Score = 29.3 bits (66), Expect = 0.084
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 69 PSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
P+++ + IA Q L V N+F+NARRR
Sbjct: 35 PTEDEKKQIAAQTNLTLLQVNNWFINARRR 64
>1mnm_C Protein (MAT alpha-2 transcriptional repressor); transcription
regulation, transcriptional repression, DNA- binding
protein; HET: DNA; 2.25A {Saccharomyces cerevisiae}
SCOP: a.4.1.1
Length = 87
Score = 29.1 bits (65), Expect = 0.11
Identities = 12/70 (17%), Positives = 21/70 (30%), Gaps = 3/70 (4%)
Query: 32 EEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKR---PSKEMQVTIARQLGLEPTTV 88
ST FT R L++ F + + + + L +
Sbjct: 15 NVVTQDMINKSTKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQI 74
Query: 89 GNFFMNARRR 98
N+ N RR+
Sbjct: 75 KNWVSNRRRK 84
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR
{Mus musculus} SCOP: a.4.1.1
Length = 64
Score = 28.4 bits (64), Expect = 0.11
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 69 PSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
PS+E + +A++ G+ + V N+F N R R
Sbjct: 31 PSEEAKEELAKKCGITVSQVSNWFGNKRIR 60
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 28.9 bits (65), Expect = 0.11
Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 4/71 (5%)
Query: 40 QSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRRS 99
S+ +KPR +++ Q LQ F++T+ + + +A LGL T V +F N R
Sbjct: 3 SGSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRS-- 60
Query: 100 MDKWKDDDPPK 110
K K P
Sbjct: 61 --KIKKSGPSS 69
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 29.0 bits (65), Expect = 0.13
Identities = 19/83 (22%), Positives = 30/83 (36%)
Query: 24 KKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGL 83
K+ T +K R VF+ Q L F+ K S + ++ L L
Sbjct: 2 KQPTSAENSVAKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNL 61
Query: 84 EPTTVGNFFMNARRRSMDKWKDD 106
V +F N R +S K++
Sbjct: 62 SYKQVKTWFQNQRMKSKRWQKNN 84
>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 = 28.5 bits (64), Expect = 0.13
Identities = 14/53 (26%), Positives = 22/53 (41%)
Query: 44 PKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNAR 96
+ R V + Q TL+ + RP M+ + GL P + +F N R
Sbjct: 3 TTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKR 55
>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 = 28.2 bits (63), Expect = 0.19
Identities = 17/60 (28%), Positives = 29/60 (48%)
Query: 37 SQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNAR 96
S + +K R++FT Q L+ F++ + S + +A + L PT V +F N R
Sbjct: 2 SDGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHR 61
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 28.1 bits (63), Expect = 0.20
Identities = 17/52 (32%), Positives = 27/52 (51%)
Query: 45 KKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNAR 96
+K R++F+ Q L+ FK+ K S + +A + L PT V +F N R
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHR 54
>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A
{Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A*
1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A*
1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A*
2ga2_A* 2oaz_A*
Length = 478
Score = 29.5 bits (66), Expect = 0.22
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKRKEEPDI 36
+ KKKKKKKKK+ + + P +
Sbjct: 89 DGDGDGATGKKKKKKKKKRGPKVQTDPPSV 118
Score = 28.7 bits (64), Expect = 0.35
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKRKEEP 34
KKKKKKKKK+ K + +P
Sbjct: 88 GDGDGDGATGKKKKKKKKKRGPKVQTDP 115
Score = 28.3 bits (63), Expect = 0.49
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 3 EKRRKKEKKKKKKKKKKKKKKKKKTC 28
+ KKKKKKKKK+ K +T
Sbjct: 89 DGDGDGATGKKKKKKKKKRGPKVQTD 114
Score = 27.6 bits (61), Expect = 0.88
Identities = 13/45 (28%), Positives = 16/45 (35%), Gaps = 8/45 (17%)
Query: 3 EKRRKKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKP 47
E + KKKKKKKKK + Q+ P P
Sbjct: 83 EDDEDGDGDGDGATGKKKKKKKKKRGPKV--------QTDPPSVP 119
Score = 26.0 bits (57), Expect = 2.8
Identities = 14/48 (29%), Positives = 22/48 (45%)
Query: 2 VEKRRKKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPRL 49
E ++ KKK++KKKK K + ++EPD S +L
Sbjct: 24 EEGAASTAEEAAKKKRRKKKKSKGPSAAGEQEPDKESGASVDEVARQL 71
>1k61_A Mating-type protein alpha-2; protein-DNA complex, homeodomain,
hoogsteen base PAIR, transcription/DNA complex; HET:
5IU; 2.10A {Synthetic} SCOP: a.4.1.1
Length = 60
Score = 27.6 bits (62), Expect = 0.23
Identities = 5/30 (16%), Positives = 11/30 (36%)
Query: 69 PSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
+ + + L + N+ N RR+
Sbjct: 26 LDTKGLENLMKNTSLSRIQIKNWVSNRRRK 55
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 28.2 bits (63), Expect = 0.23
Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 3/73 (4%)
Query: 42 STPKKPRLVFTDLQRRTLQAIFKETKR---PSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
+ + L+ E + PS++ + +++Q L V N+F+NARRR
Sbjct: 3 HHHHHHSHMLPKESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRR 62
Query: 99 SMDKWKDDDPPKP 111
+ D P
Sbjct: 63 LLPDMLRKDGKDP 75
>1b72_B Protein (PBX1); homeodomain, DNA, complex, DNA-binding protein,
protein/DNA complex; HET: DNA; 2.35A {Homo sapiens}
SCOP: a.4.1.1 PDB: 1lfu_P
Length = 87
Score = 28.2 bits (63), Expect = 0.25
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 69 PSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
PS+E + +A++ G+ + V N+F N R R
Sbjct: 29 PSEEAKEELAKKCGITVSQVSNWFGNKRIR 58
>2hz7_A Glutaminyl-tRNA synthetase; rossmann fold, GLNRS core, class I
aminoacyl-tRNA synthetase, ligase; 2.30A {Deinococcus
radiodurans}
Length = 851
Score = 29.0 bits (65), Expect = 0.33
Identities = 8/50 (16%), Positives = 16/50 (32%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQR 56
K+ ++K + KK+ K + + S + T Q
Sbjct: 633 KQGGGTQQKAEGKKRPSTKGRGPDEVRGEGSSSPAKAHAPKAQPLTPEQD 682
Score = 28.7 bits (64), Expect = 0.37
Identities = 9/39 (23%), Positives = 20/39 (51%)
Query: 10 KKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPR 48
K+ ++K + KK+ + K + ++ + SS+P K
Sbjct: 632 GKQGGGTQQKAEGKKRPSTKGRGPDEVRGEGSSSPAKAH 670
Score = 27.9 bits (62), Expect = 0.71
Identities = 11/73 (15%), Positives = 21/73 (28%), Gaps = 1/73 (1%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKET 66
K+ ++K + KK+ K E + P+ ++
Sbjct: 632 GKQGGGTQQKAEGKKRPSTKGRGPDEVRGEGSSSPAKAHAPKAQPLTPEQDAEFTRLLGL 691
Query: 67 KRPSKEMQVTIAR 79
+ TIAR
Sbjct: 692 GASEGD-ARTIAR 703
Score = 25.2 bits (55), Expect = 6.5
Identities = 8/41 (19%), Positives = 17/41 (41%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKP 47
K K+ ++K + KK+ + PD + + S+
Sbjct: 628 KDTWGKQGGGTQQKAEGKKRPSTKGRGPDEVRGEGSSSPAK 668
>3oqs_A Importin subunit alpha-2; importin alpha, karyopherin alpha,
nuclear localisation SIGN recognition, chloride
intracellular channel 4, CLIC4 NLS; 2.00A {Mus
musculus} PDB: 3rz9_A 3rzx_A 1q1s_C 1q1t_C 3tpo_A
3knd_A 1ejy_I 1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C
3fex_C 1ial_A 1y2a_C 3btr_C 3l3q_A* 3ve6_A 2c1m_A ...
Length = 510
Score = 28.8 bits (64), Expect = 0.33
Identities = 9/80 (11%), Positives = 20/80 (25%)
Query: 3 EKRRKKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAI 62
+ K+ K + + PD+ D +++ I
Sbjct: 3 HHHHHSSGLVPRGSGMKETAAAKFERQHMDSPDLGTDDDDKAMADIGSNQGTVNWSVEDI 62
Query: 63 FKETKRPSKEMQVTIARQLG 82
K + E Q+ +
Sbjct: 63 VKGINSNNLESQLQATQAAR 82
>1puf_B PRE-B-cell leukemia transcription factor-1; homeodomian,
protein-DNA complex, HOX hexapeptide, TALE homeodomain,
homeodomain interaction; 1.90A {Homo sapiens} SCOP:
a.4.1.1 PDB: 1b8i_B* 2r5y_B* 2r5z_B*
Length = 73
Score = 27.3 bits (61), Expect = 0.42
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 69 PSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
PS+E + +A++ G+ + V N+F N R R
Sbjct: 29 PSEEAKEELAKKCGITVSQVSNWFGNKRIR 58
>1l3l_A Transcriptional activator protein TRAR; helix-turn-helix DNA
binding motif, alpha/beta/alpha sandwich; HET: LAE;
1.66A {Agrobacterium tumefaciens} SCOP: a.4.6.2
d.110.5.1 PDB: 1h0m_A*
Length = 234
Score = 28.1 bits (62), Expect = 0.48
Identities = 11/63 (17%), Positives = 23/63 (36%), Gaps = 6/63 (9%)
Query: 36 ISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNA 95
IS +++ + + L+ I + +E IA G++ +V A
Sbjct: 159 ISFLRTTPTAEDAAWLDPKEATYLRWIAVG--KTMEE----IADVEGVKYNSVRVKLREA 212
Query: 96 RRR 98
+R
Sbjct: 213 MKR 215
>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 = 27.3 bits (60), Expect = 0.48
Identities = 8/47 (17%), Positives = 20/47 (42%)
Query: 52 TDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
T Q + L+ F ++ P++ + + L + ++F R+
Sbjct: 21 TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKL 67
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 26.5 bits (59), Expect = 0.62
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 4/62 (6%)
Query: 43 TPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRRSMDK 102
T +K R VF+ Q L+ F++ K S + ++ L L V +F N R K
Sbjct: 2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRM----K 57
Query: 103 WK 104
K
Sbjct: 58 CK 59
>3owq_A LIN1025 protein; structural genomics, PSI-biology, protein
structure initiati northeast structural genomics
consortium, NESG, unknown FUN; 2.61A {Listeria innocua}
PDB: 3nro_A
Length = 321
Score = 27.8 bits (62), Expect = 0.66
Identities = 7/22 (31%), Positives = 10/22 (45%)
Query: 1 MVEKRRKKEKKKKKKKKKKKKK 22
M E R + ++KK K K
Sbjct: 1 MTETRTETKQKKPSTFTKVMKI 22
>1v9d_A Diaphanous protein homolog 1; helix bundle, protein binding; 2.60A
{Mus musculus} SCOP: a.207.1.1
Length = 340
Score = 27.8 bits (62), Expect = 0.73
Identities = 10/29 (34%), Positives = 20/29 (68%)
Query: 2 VEKRRKKEKKKKKKKKKKKKKKKKKTCKR 30
+KRR+ E+K ++ K K+K +K++ K+
Sbjct: 312 NQKRRETEEKMRRAKLAKEKAEKERLEKQ 340
Score = 26.3 bits (58), Expect = 2.6
Identities = 6/29 (20%), Positives = 20/29 (68%)
Query: 3 EKRRKKEKKKKKKKKKKKKKKKKKTCKRK 31
++R++ ++K ++ K K+K +K+ +++
Sbjct: 312 NQKRRETEEKMRRAKLAKEKAEKERLEKQ 340
Score = 24.7 bits (54), Expect = 8.3
Identities = 8/30 (26%), Positives = 19/30 (63%)
Query: 3 EKRRKKEKKKKKKKKKKKKKKKKKTCKRKE 32
E ++++E ++K ++ K K+K +K K+
Sbjct: 311 ENQKRRETEEKMRRAKLAKEKAEKERLEKQ 340
Score = 24.3 bits (53), Expect = 9.9
Identities = 7/26 (26%), Positives = 16/26 (61%)
Query: 1 MVEKRRKKEKKKKKKKKKKKKKKKKK 26
++R +EK ++ K K+K +K++
Sbjct: 312 NQKRRETEEKMRRAKLAKEKAEKERL 337
>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein,
ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP;
1.78A {Arabidopsis thaliana}
Length = 212
Score = 27.3 bits (61), Expect = 0.85
Identities = 3/21 (14%), Positives = 12/21 (57%)
Query: 9 EKKKKKKKKKKKKKKKKKTCK 29
+ ++K+ +++K ++ C
Sbjct: 180 QPPRRKEVPRRRKNHRRSGCS 200
Score = 25.0 bits (55), Expect = 6.4
Identities = 2/20 (10%), Positives = 10/20 (50%)
Query: 5 RRKKEKKKKKKKKKKKKKKK 24
+ +K+ +++K ++
Sbjct: 179 LQPPRRKEVPRRRKNHRRSG 198
Score = 24.6 bits (54), Expect = 7.3
Identities = 2/20 (10%), Positives = 11/20 (55%)
Query: 6 RKKEKKKKKKKKKKKKKKKK 25
+ ++K+ +++K ++
Sbjct: 179 LQPPRRKEVPRRRKNHRRSG 198
Score = 24.6 bits (54), Expect = 7.4
Identities = 2/19 (10%), Positives = 11/19 (57%)
Query: 8 KEKKKKKKKKKKKKKKKKK 26
+ ++K+ +++K ++
Sbjct: 180 QPPRRKEVPRRRKNHRRSG 198
Score = 24.2 bits (53), Expect = 9.7
Identities = 4/20 (20%), Positives = 12/20 (60%)
Query: 2 VEKRRKKEKKKKKKKKKKKK 21
++ R+KE +++K ++
Sbjct: 179 LQPPRRKEVPRRRKNHRRSG 198
>4gdv_A L-asparaginase; NTN enzyme, homodimer, hydrolase, L-asparagine;
1.75A {Homo sapiens} PDB: 4gdu_A 4gdt_A 4gdw_A
Length = 310
Score = 27.6 bits (62), Expect = 0.85
Identities = 4/34 (11%), Positives = 12/34 (35%)
Query: 78 ARQLGLEPTTVGNFFMNARRRSMDKWKDDDPPKP 111
A +G+ ++ ++K K + +
Sbjct: 128 AAAMGVPEIPGEKLVTERNKKRLEKEKHEKGAQK 161
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 26.7 bits (59), Expect = 0.87
Identities = 20/76 (26%), Positives = 30/76 (39%), Gaps = 4/76 (5%)
Query: 29 KRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTV 88
R+ KKPR FT +Q L+ F + K + + +AR L + V
Sbjct: 2 ARRIGHPYQNRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQV 61
Query: 89 GNFFMNARRRSMDKWK 104
+F N R KW+
Sbjct: 62 KTWFQNRRT----KWR 73
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 26.2 bits (58), Expect = 0.95
Identities = 15/61 (24%), Positives = 21/61 (34%), Gaps = 4/61 (6%)
Query: 44 PKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRRSMDKW 103
+ Q L+ F K S + +A+ L L T V +F N R K
Sbjct: 4 HHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRY----KT 59
Query: 104 K 104
K
Sbjct: 60 K 60
>1le8_B Mating-type protein alpha-2; matalpha2, isothermal titration
calorimetry, protein-DNA complex, transcription/DNA
complex; 2.30A {Saccharomyces cerevisiae} SCOP: a.4.1.1
PDB: 1akh_B* 1apl_C* 1yrn_B*
Length = 83
Score = 26.3 bits (58), Expect = 0.95
Identities = 9/59 (15%), Positives = 18/59 (30%), Gaps = 3/59 (5%)
Query: 43 TPKKPRLVFTDLQRRTLQAIFKETKR---PSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
T FT R L++ F + + + + L + N+ R +
Sbjct: 1 TKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAK 59
>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 = 26.2 bits (58), Expect = 0.96
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 41 SSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRRSM 100
S+ K ++ F++ Q L+ F+ K S + +A+ L L V +F N R
Sbjct: 4 GSSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRA--- 60
Query: 101 DKWKDDDPPK 110
KW+ P
Sbjct: 61 -KWRRSGPSS 69
>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC
repeat; 2.70A {Saccharomyces cerevisiae}
Length = 963
Score = 27.5 bits (60), Expect = 0.99
Identities = 10/38 (26%), Positives = 20/38 (52%)
Query: 10 KKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKP 47
+ K + KK KK+K + K+KE + +++ + K
Sbjct: 820 RAKARAKKTKKEKGPNEEEKKKEHEEKEKERETNKKGI 857
Score = 24.8 bits (53), Expect = 9.9
Identities = 11/37 (29%), Positives = 20/37 (54%)
Query: 10 KKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKK 46
+ K + KK KK+K ++K+E + + + T KK
Sbjct: 819 ARAKARAKKTKKEKGPNEEEKKKEHEEKEKERETNKK 855
>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A
{Homo sapiens}
Length = 522
Score = 27.4 bits (61), Expect = 1.0
Identities = 10/32 (31%), Positives = 15/32 (46%)
Query: 2 VEKRRKKEKKKKKKKKKKKKKKKKKTCKRKEE 33
K E++ KK+KK+ + KKK R
Sbjct: 470 FVKPAPIEQEPSKKQKKQHEGSKKKAAARDVT 501
Score = 27.0 bits (60), Expect = 1.3
Identities = 8/35 (22%), Positives = 17/35 (48%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQS 41
+++ KK+KK+ + KKK + + Q+
Sbjct: 476 IEQEPSKKQKKQHEGSKKKAAARDVTLENRLQNME 510
Score = 25.1 bits (55), Expect = 7.4
Identities = 7/30 (23%), Positives = 14/30 (46%)
Query: 4 KRRKKEKKKKKKKKKKKKKKKKKTCKRKEE 33
++ KK+KK+ + KKK + +
Sbjct: 476 IEQEPSKKQKKQHEGSKKKAAARDVTLENR 505
>3szt_A QCSR, quorum-sensing control repressor; quorum sensing
acyl-homoserine lactone, helix-turn-helix, transcription
factor, 3-OXO-C12 HSL; HET: OHN; 2.55A {Pseudomonas
aeruginosa}
Length = 237
Score = 27.2 bits (60), Expect = 1.1
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 77 IARQLGLEPTTVGNFFMNARRR 98
I L ++ TV +NA R+
Sbjct: 196 IGLILSIDQRTVKFHIVNAMRK 217
>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 = 26.3 bits (58), Expect = 1.1
Identities = 19/75 (25%), Positives = 35/75 (46%), Gaps = 3/75 (4%)
Query: 40 QSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNAR--- 96
S+ K+ R F Q RT+++ F P + +A++ GL + +F NAR
Sbjct: 3 SGSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKF 62
Query: 97 RRSMDKWKDDDPPKP 111
RR++ + ++ P
Sbjct: 63 RRNLLRQENGGVSGP 77
>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop,
OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}
Length = 396
Score = 27.1 bits (61), Expect = 1.3
Identities = 6/30 (20%), Positives = 11/30 (36%)
Query: 1 MVEKRRKKEKKKKKKKKKKKKKKKKKTCKR 30
M+ K +K + KK K + +
Sbjct: 159 MIGPIIDKLEKVAVRGGDKKLKPEYDIMCK 188
>2q0o_A Probable transcriptional activator protein TRAR; helix-turn-helix,
two-helix coiled coil; HET: LAE; 2.00A {Rhizobium SP}
Length = 236
Score = 26.9 bits (59), Expect = 1.3
Identities = 6/22 (27%), Positives = 10/22 (45%)
Query: 77 IARQLGLEPTTVGNFFMNARRR 98
A G+ TV ++ AR +
Sbjct: 196 TANLTGINARTVQHYLDKARAK 217
>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 = 26.1 bits (57), Expect = 1.4
Identities = 11/47 (23%), Positives = 18/47 (38%)
Query: 52 TDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
T Q R LQA F + + E + Q L + +F ++
Sbjct: 19 TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKS 65
>1i7d_A DNA topoisomerase III; decatenating enzyme, protein-DNA complex,
single-stranded DNA, isomerase/DNA complex; HET: DNA;
2.05A {Escherichia coli} SCOP: e.10.1.1 PDB: 2o5c_A*
2o54_A* 2o59_A* 2o19_A* 2o5e_A* 1d6m_A*
Length = 659
Score = 27.2 bits (61), Expect = 1.4
Identities = 7/34 (20%), Positives = 10/34 (29%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQ 40
KKK +K+ KK I+
Sbjct: 623 GGSADKKKAAPRKRSAKKSPPADEVGSGAIAHHH 656
>3ixz_A Potassium-transporting ATPase alpha; ION pump, H+, K+-ATPase,
P-type ATPase, membrane protein, hydrolase, aluminium
fluoride, ATP-binding; 6.50A {Sus scrofa} PDB: 2xzb_A
1iwc_A 1iwf_A
Length = 1034
Score = 26.8 bits (60), Expect = 1.5
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 3 EKRRKKEKKKKKKKKKKKKKKKKKTCKRKE 32
+ KKK + K+K+K +KE
Sbjct: 19 SGDMAAKMSKKKAGRGGGKRKEKLENMKKE 48
Score = 26.8 bits (60), Expect = 1.9
Identities = 10/32 (31%), Positives = 15/32 (46%)
Query: 5 RRKKEKKKKKKKKKKKKKKKKKTCKRKEEPDI 36
K KKK + K+K+K K+E +I
Sbjct: 20 GDMAAKMSKKKAGRGGGKRKEKLENMKKEMEI 51
>3qp6_A CVIR transcriptional regulator; quorum sensing, agonist,
antagonist, LUXR, acylated homoseri lactone,
transcription factor; HET: HL6; 2.00A {Chromobacterium
violaceum} PDB: 3qp5_A*
Length = 265
Score = 26.8 bits (59), Expect = 1.6
Identities = 12/63 (19%), Positives = 21/63 (33%), Gaps = 8/63 (12%)
Query: 36 ISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNA 95
I+ ++P L + + + K + E IA L + TV N
Sbjct: 185 IANLPPASPSNMPL--SQREYDIFHWM-SRGKT-NWE----IATILNISERTVKFHVANV 236
Query: 96 RRR 98
R+
Sbjct: 237 IRK 239
>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 = 25.7 bits (55), Expect = 1.8
Identities = 15/76 (19%), Positives = 27/76 (35%), Gaps = 4/76 (5%)
Query: 39 DQSSTPKKPRLVFTDLQRRTLQAIFKE----TKRPSKEMQVTIARQLGLEPTTVGNFFMN 94
SS + R F+D TL+ + +E +A +L ++ V + N
Sbjct: 3 SGSSGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGN 62
Query: 95 ARRRSMDKWKDDDPPK 110
RR+ + P
Sbjct: 63 RRRKYRLMGIEVSGPS 78
>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 = 25.8 bits (56), Expect = 1.9
Identities = 9/57 (15%), Positives = 19/57 (33%)
Query: 41 SSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARR 97
S+ + R + +++ F E + P + + IA G + R
Sbjct: 4 GSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLER 60
>1toa_A Tromp-1, protein (periplasmic binding protein TROA); zinc binding
protein, ABC trans binding protein; 1.80A {Treponema
pallidum} SCOP: c.92.2.2 PDB: 1k0f_A
Length = 313
Score = 26.5 bits (59), Expect = 2.1
Identities = 10/53 (18%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 36 ISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTV 88
+S ++ + + + +R L AIF E+ P K ++ + + V
Sbjct: 224 VSTASEASAHDMQELAAFIAQRKLPAIFIESSIPHKNVE-ALRDAVQARGHVV 275
>3pe5_A Uncharacterized protein; structural genomics, PSI-biology,
protein structure initiati northeast structural
genomics consortium, NESG; 2.38A {Clostridium leptum}
Length = 403
Score = 26.5 bits (58), Expect = 2.1
Identities = 4/23 (17%), Positives = 8/23 (34%)
Query: 4 KRRKKEKKKKKKKKKKKKKKKKK 26
+ R + K K+ +K
Sbjct: 11 QNRDISSRSNGKNPFKRSTGRKV 33
Score = 26.1 bits (57), Expect = 2.6
Identities = 3/24 (12%), Positives = 6/24 (25%)
Query: 3 EKRRKKEKKKKKKKKKKKKKKKKK 26
+ K K+ +K
Sbjct: 13 RDISSRSNGKNPFKRSTGRKVSNV 36
Score = 26.1 bits (57), Expect = 2.6
Identities = 4/27 (14%), Positives = 9/27 (33%)
Query: 3 EKRRKKEKKKKKKKKKKKKKKKKKTCK 29
E + + + K K+ +K
Sbjct: 9 EPQNRDISSRSNGKNPFKRSTGRKVSN 35
Score = 26.1 bits (57), Expect = 2.7
Identities = 3/24 (12%), Positives = 6/24 (25%)
Query: 4 KRRKKEKKKKKKKKKKKKKKKKKT 27
+ K K+ +K
Sbjct: 13 RDISSRSNGKNPFKRSTGRKVSNV 36
>3bbn_K Ribosomal protein S11; small ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea} SCOP:
i.1.1.1
Length = 140
Score = 26.1 bits (58), Expect = 2.1
Identities = 4/26 (15%), Positives = 10/26 (38%)
Query: 1 MVEKRRKKEKKKKKKKKKKKKKKKKK 26
M + K ++ + +K +K
Sbjct: 1 MAKPIPKIGSRRNGRISSRKSASARK 26
>3hh8_A Metal ABC transporter substrate-binding lipoprote; lipoprotein,
metal binding, cell membrane, copper transport, iron;
1.87A {Streptococcus pyogenes serotype M1} PDB: 1psz_A
3ztt_A
Length = 294
Score = 26.5 bits (59), Expect = 2.2
Identities = 10/49 (20%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 36 ISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLE 84
I+ ++ TP + + L+ A+F E+ + M+ T+++ G+
Sbjct: 210 INTEEEGTPDQISSLIEKLKVIKPSALFVESSVDRRPME-TVSKDSGIP 257
>3mfq_A TROA, high-affinity zinc uptake system protein ZNUA; metal binding
protein; 2.60A {Streptococcus suis}
Length = 282
Score = 26.1 bits (58), Expect = 2.3
Identities = 8/53 (15%), Positives = 18/53 (33%), Gaps = 1/53 (1%)
Query: 36 ISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTV 88
+S D + ++AIF E+ + M+ + + + V
Sbjct: 190 VSTDSEVANSDMIETVNLIIDHNIKAIFTESTTNPERMK-KLQEAVKAKGGQV 241
>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase,
conformational change, cysteine-modified, G-protein
hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B*
2ht6_A*
Length = 192
Score = 26.1 bits (58), Expect = 2.3
Identities = 5/21 (23%), Positives = 15/21 (71%)
Query: 5 RRKKEKKKKKKKKKKKKKKKK 25
R +++ K+K +++ +K+K+
Sbjct: 171 RLRRDSKEKNERRLAYQKRKE 191
Score = 25.7 bits (57), Expect = 3.0
Identities = 6/27 (22%), Positives = 17/27 (62%)
Query: 1 MVEKRRKKEKKKKKKKKKKKKKKKKKT 27
+V + R + K+K +++ +K+K++
Sbjct: 166 IVRQVRLRRDSKEKNERRLAYQKRKES 192
>2gez_A L-asparaginase alpha subunit; isoaspartyl aminopeptidase,
NTN-hydrolase, autoproteolysis, taspase, sodium binding,
hydrolase; 2.60A {Lupinus luteus}
Length = 195
Score = 26.3 bits (58), Expect = 2.3
Identities = 4/34 (11%), Positives = 11/34 (32%)
Query: 78 ARQLGLEPTTVGNFFMNARRRSMDKWKDDDPPKP 111
A+Q G+E + + + + +
Sbjct: 133 AKQQGVETVDSSHLITAENVERLKLAIEANRVQV 166
>1lqa_A TAS protein; TIM barrel, structure 2 function project, S2F,
structural GE oxidoreductase; HET: NDP; 1.60A
{Escherichia coli} SCOP: c.1.7.1
Length = 346
Score = 26.4 bits (59), Expect = 2.3
Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 44 PKKPRL-VFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNAR 96
P R +F+ R E + + V IAR+ GL+P + F+ +
Sbjct: 251 PAGARNTLFSRFTRY-----SGEQTQKAVAAYVDIARRHGLDPAQMALAFVRRQ 299
>1xvl_A Mn transporter, MNTC protein; manganese, ABC-type transport
systems, photosynthesis, cyanobacteria, disulfide bond,
metal transport; 2.90A {Synechocystis SP} SCOP: c.92.2.2
Length = 321
Score = 26.2 bits (58), Expect = 2.4
Identities = 12/47 (25%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 36 ISQDQSSTPKKPRLVFTDLQRRTLQAIFKETKRPSKEMQVTIARQLG 82
I+ +Q TPK+ + V +++ + IF E+ K + +A+ G
Sbjct: 231 INAEQQFTPKQVQTVIEEVKTNNVPTIFCESTVSDKGQK-QVAQATG 276
>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis,
CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA
synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A*
3qo8_A* 3qo5_A
Length = 485
Score = 26.4 bits (59), Expect = 2.4
Identities = 9/26 (34%), Positives = 11/26 (42%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKRKE 32
K+ K KK K K K T K+
Sbjct: 446 KELPKNTTSVKKAKGKNPKNTTSVKK 471
Score = 26.0 bits (58), Expect = 2.7
Identities = 8/28 (28%), Positives = 10/28 (35%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKRKEEP 34
KE K KK K K K ++
Sbjct: 445 IKELPKNTTSVKKAKGKNPKNTTSVKKA 472
Score = 25.7 bits (57), Expect = 3.7
Identities = 8/26 (30%), Positives = 8/26 (30%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKRKE 32
KK K K K K K K
Sbjct: 451 NTTSVKKAKGKNPKNTTSVKKAKGKN 476
>2q8k_A Proliferation-associated protein 2G4; EBP1, PA2G4, methionine
aminopeptidase, PITA-bread, transcri; 1.60A {Homo
sapiens} PDB: 2v6c_A
Length = 401
Score = 26.3 bits (58), Expect = 2.5
Identities = 9/26 (34%), Positives = 13/26 (50%)
Query: 10 KKKKKKKKKKKKKKKKKTCKRKEEPD 35
+K +KKKKKK K + E +
Sbjct: 370 SRKTQKKKKKKASKTAENATSGETLE 395
Score = 25.9 bits (57), Expect = 3.6
Identities = 9/32 (28%), Positives = 16/32 (50%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQ 38
++ +KKKKKK K + + + EE +
Sbjct: 370 SRKTQKKKKKKASKTAENATSGETLEENEAGD 401
Score = 25.5 bits (56), Expect = 4.9
Identities = 8/31 (25%), Positives = 15/31 (48%)
Query: 12 KKKKKKKKKKKKKKKTCKRKEEPDISQDQSS 42
+K +KKKKKK K + ++++
Sbjct: 370 SRKTQKKKKKKASKTAENATSGETLEENEAG 400
>1wxq_A GTP-binding protein; structural genomics, riken structural
genomics/proteomics initiative, RSGI, NPPSFA; 2.60A
{Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2
Length = 397
Score = 26.1 bits (58), Expect = 2.6
Identities = 9/72 (12%), Positives = 23/72 (31%), Gaps = 3/72 (4%)
Query: 1 MVEKRRKKEKKKKKKKKKKKKKK--KKKTCKRKEEPDISQDQSSTPKKPRLV-FTDLQRR 57
++ K K K+ K +K K + + + E D+ + ++
Sbjct: 145 ILSKGWDKFAKRIKLQKIKLESAIAEHLSGIGVNENDVWEAMHKLNLPEDPTKWSQDDLL 204
Query: 58 TLQAIFKETKRP 69
+ + +P
Sbjct: 205 AFASEIRRVNKP 216
>3bdn_A Lambda repressor; repressor, allostery; HET: DNA; 3.91A
{Enterobacteria phage lambda}
Length = 236
Score = 25.7 bits (56), Expect = 3.0
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 6/64 (9%)
Query: 42 STPKKPRLVFTDLQRR---TLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRR 98
ST KKP T Q L+AI+++ K Q ++A ++G+ + VG F
Sbjct: 1 STKKKP---LTQEQLEDARRLKAIYEKKKNELGLSQESVADKMGMGQSGVGALFNGINAL 57
Query: 99 SMDK 102
+
Sbjct: 58 NAYN 61
>2ew5_A Peptide deformylase; inhibitor, hydrolase; HET: Y12; 2.20A
{Helicobacter pylori} PDB: 2ew6_A* 2ew7_A
Length = 181
Score = 25.6 bits (57), Expect = 3.3
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 4 KRRKKEKKKKKKKKKKKKKKKKK 26
KR+K EK+ K+ +KK+K K +
Sbjct: 155 KRKKFEKELKELQKKQKHKLEHH 177
>3obv_E Protein diaphanous homolog 1; autoinhibition, actin, nucleation,
cytoskeleton, structural; HET: SUC; 2.75A {Mus musculus}
PDB: 3o4x_E 2bap_D
Length = 457
Score = 26.0 bits (57), Expect = 3.4
Identities = 10/41 (24%), Positives = 24/41 (58%)
Query: 2 VEKRRKKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSS 42
+KRR+ E+K ++ K K+K +K++ K+++ + +
Sbjct: 383 NQKRRETEEKMRRAKLAKEKAEKERLEKQQKREQLIDMNAE 423
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 24.2 bits (53), Expect = 3.5
Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 4/55 (7%)
Query: 50 VFTDLQRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRRSMDKWK 104
F+ Q L+ F K + + +A+ L + V +F N R KW+
Sbjct: 3 SFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRT----KWR 53
>2j1d_G DAAM1, disheveled-associated activator of morphogenesis; actin
assembly, protein binding; 2.55A {Homo sapiens} PDB:
2z6e_A
Length = 483
Score = 25.6 bits (56), Expect = 3.7
Identities = 8/41 (19%), Positives = 23/41 (56%)
Query: 2 VEKRRKKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSS 42
E RKK+++++++ + + + K+++ +RK + S
Sbjct: 395 NENMRKKKEEEERRARMEAQLKEQRERERKMRKAKENSEES 435
>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis,
structural genomics, structural genomics consortium,
SGC, transport protein; HET: GDP; 1.90A {Homo sapiens}
SCOP: c.37.1.8
Length = 199
Score = 25.3 bits (56), Expect = 4.2
Identities = 5/28 (17%), Positives = 10/28 (35%)
Query: 1 MVEKRRKKEKKKKKKKKKKKKKKKKKTC 28
+ K+ K+K+ + K C
Sbjct: 169 ETRRNMSLNIDGKRSGKQKRTDRVKGKC 196
>1k2x_A Putative L-asparaginase; NTN hydrolase, asparginase,
autoproteolysis, hydrolase; HET: CME; 1.65A {Escherichia
coli} SCOP: d.153.1.5 PDB: 1jn9_A* 1t3m_A 2zal_A
Length = 177
Score = 25.4 bits (56), Expect = 4.3
Identities = 5/30 (16%), Positives = 11/30 (36%)
Query: 78 ARQLGLEPTTVGNFFMNARRRSMDKWKDDD 107
A G+E + F + R + + +
Sbjct: 130 AFARGMERVSPEIFSTSLRYEQLLAARKEG 159
>3fm5_A Transcriptional regulator; MCSG, PF04017, PSI, MARR, structu
genomics, protein structure initiative, midwest center
for structural genomics; HET: GOL; 2.00A {Rhodococcus
jostii}
Length = 150
Score = 25.0 bits (55), Expect = 4.5
Identities = 5/16 (31%), Positives = 10/16 (62%)
Query: 74 QVTIARQLGLEPTTVG 89
Q +A +GL+P+ +
Sbjct: 57 QRGVAATMGLDPSQIV 72
>4g22_A Hydroxycinnamoyl-COA shikimate/quinate hydroxycinnamoyltransferase;
BAHD superfamily; 1.70A {Coffea canephora} PDB: 4g2m_A
4g0b_A
Length = 439
Score = 25.4 bits (56), Expect = 4.9
Identities = 6/24 (25%), Positives = 9/24 (37%)
Query: 75 VTIARQLGLEPTTVGNFFMNARRR 98
AR L ++ T + R R
Sbjct: 271 ACKARGLEVDQGTKLYIATDGRAR 294
>1rl4_A Formylmethionine deformylase; crystal engineering, drug design,
malaria, PDF, peptide DEFO plasmodium, hydrolase; HET:
BRR BL5; 2.18A {Plasmodium falciparum} SCOP: d.167.1.1
PDB: 1rqc_A 1jym_A
Length = 188
Score = 25.2 bits (56), Expect = 5.0
Identities = 2/24 (8%), Positives = 6/24 (25%)
Query: 1 MVEKRRKKEKKKKKKKKKKKKKKK 24
V + + + K +
Sbjct: 163 KVRPKLNELIRDYKATHSLEHHHH 186
>1vpb_A Putative modulator of DNA gyrase; structural genomics, joint for
structural genomics, JCSG, protein structure initiative
hydrolase; 1.75A {Bacteroides thetaiotaomicron} SCOP:
d.283.1.1
Length = 451
Score = 25.3 bits (56), Expect = 5.1
Identities = 6/26 (23%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 78 ARQLGLEPTT--VGNFFMNARRRSMD 101
A+++G++PT M +++D
Sbjct: 337 AKKMGVDPTISGSSILVMETGDKNLD 362
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.1 bits (54), Expect = 5.1
Identities = 6/32 (18%), Positives = 18/32 (56%)
Query: 2 VEKRRKKEKKKKKKKKKKKKKKKKKTCKRKEE 33
+++ K +++ ++K KK ++ +R+ E
Sbjct: 98 LQELDAASKVMEQEWREKAKKDLEEWNQRQSE 129
Score = 24.3 bits (52), Expect = 9.7
Identities = 8/72 (11%), Positives = 27/72 (37%), Gaps = 13/72 (18%)
Query: 2 VEKRRKKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQA 61
+ K R++++K+ ++ K +++ + K + D+ + + Q ++
Sbjct: 87 IRKWREEQRKRLQELDAASKVMEQEW-REKAKKDLEE------------WNQRQSEQVEK 133
Query: 62 IFKETKRPSKEM 73
+ K
Sbjct: 134 NKINNRIADKAF 145
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 25.2 bits (55), Expect = 5.5
Identities = 10/74 (13%), Positives = 29/74 (39%)
Query: 6 RKKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKE 65
K++ ++ + + + K+ K K D+ + + + P + + + L+ E
Sbjct: 1973 IKQKDARELQVQLDVRNKEIAVQKVKAYADLEKAEPTGPLREEVEQLENAANELKLKQDE 2032
Query: 66 TKRPSKEMQVTIAR 79
++ +IA
Sbjct: 2033 IVATITALEKSIAT 2046
>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio
project on protein structural and functional analyses;
HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A
Length = 368
Score = 25.1 bits (56), Expect = 6.1
Identities = 3/22 (13%), Positives = 13/22 (59%)
Query: 1 MVEKRRKKEKKKKKKKKKKKKK 22
+E+R ++ +K+ + +++
Sbjct: 142 TLERRLERLRKEARADRERLPL 163
>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics,
GTP1OBG, PSI, protein structure initiative; 2.80A
{Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2
Length = 392
Score = 25.2 bits (56), Expect = 6.4
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 1 MVEKRRKKEKKKKKKKKKKKKKKKKK 26
VEK + +K + + K KK
Sbjct: 158 FVEKHLEGLRKITSRGANTLEMKAKK 183
>1v3y_A Peptide deformylase; protein synthesis, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, hydrolase; 1.81A {Thermus thermophilus} SCOP:
d.167.1.1
Length = 192
Score = 24.8 bits (55), Expect = 7.1
Identities = 3/29 (10%), Positives = 13/29 (44%)
Query: 5 RRKKEKKKKKKKKKKKKKKKKKTCKRKEE 33
+R+ + + + + +K+ + K +
Sbjct: 163 KREAFLEANRAELVRFQKEARALLKELSQ 191
Score = 24.8 bits (55), Expect = 7.3
Identities = 4/29 (13%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 4 KRR--KKEKKKKKKKKKKKKKKKKKTCKR 30
KR + + + + +K+ + K +
Sbjct: 163 KREAFLEANRAELVRFQKEARALLKELSQ 191
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 23.8 bits (51), Expect = 7.2
Identities = 10/45 (22%), Positives = 16/45 (35%)
Query: 55 QRRTLQAIFKETKRPSKEMQVTIARQLGLEPTTVGNFFMNARRRS 99
L+A + +PS E IA + L V +F +
Sbjct: 14 LLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQ 58
>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase;
1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A
Length = 370
Score = 24.7 bits (54), Expect = 8.3
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKR 30
+ E K K+K K +K K+K +
Sbjct: 344 QAELLKVKQKIKAQKDKEKAAYAK 367
>1jal_A YCHF protein; nucleotide-binding fold, structural genomics,
structure 2 function project, S2F, unknown function;
2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2
Length = 363
Score = 24.7 bits (55), Expect = 8.4
Identities = 5/23 (21%), Positives = 12/23 (52%)
Query: 1 MVEKRRKKEKKKKKKKKKKKKKK 23
E+ ++ +K+ K K+ K +
Sbjct: 139 SCERAIQRLQKRAKGGDKEAKFE 161
>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania
major}
Length = 467
Score = 24.6 bits (53), Expect = 8.6
Identities = 7/74 (9%), Positives = 16/74 (21%)
Query: 3 EKRRKKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAI 62
+KK ++ K + + KK ++
Sbjct: 80 GGAKKKATTGSPARRTSSAAKITNGDAGELIRTAEALAALNAKKSEKEIWSDVVPFVRRT 139
Query: 63 FKETKRPSKEMQVT 76
PS+ +
Sbjct: 140 TDSDFDPSRMYKFI 153
>2q2e_B Type 2 DNA topoisomerase 6 subunit B; DNA-binding, SPO11, ATPase;
4.00A {Methanosarcina mazei}
Length = 621
Score = 24.8 bits (53), Expect = 8.6
Identities = 9/66 (13%), Positives = 24/66 (36%)
Query: 7 KKEKKKKKKKKKKKKKKKKKTCKRKEEPDISQDQSSTPKKPRLVFTDLQRRTLQAIFKET 66
+K K K+ KK+++K+ K P ++ + +K + + + +
Sbjct: 457 RKLKHYLSKQSNLKKRREKEIIITKVLPKLAAKVAHVLEKDVPDINPVVAKIMGNLLVHR 516
Query: 67 KRPSKE 72
+
Sbjct: 517 VIKNNG 522
>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase;
HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A*
4dso_A*
Length = 189
Score = 24.5 bits (54), Expect = 9.1
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 5 RRKKEKKKKKKKKKKKKKKKK 25
R+ KEK K KKKKKK K K
Sbjct: 165 RKHKEKMSKDGKKKKKKSKTK 185
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 0.126 0.352
Gapped
Lambda K H
0.267 0.0754 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,582,419
Number of extensions: 82614
Number of successful extensions: 3196
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2106
Number of HSP's successfully gapped: 790
Length of query: 111
Length of database: 6,701,793
Length adjustment: 75
Effective length of query: 36
Effective length of database: 4,607,718
Effective search space: 165877848
Effective search space used: 165877848
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: 51 (23.4 bits)