RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3281
(317 letters)
>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 = 162 bits (411), Expect = 6e-51
Identities = 57/80 (71%), Positives = 62/80 (77%), Gaps = 3/80 (3%)
Query: 223 SLPSPLYPWMRSQ---FERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTE 279
+ YPWM R+RGRQTYTRYQTLELEKEFH N YLTRRRRIE+AHAL LTE
Sbjct: 2 ASNHTFYPWMAIAGTNGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTE 61
Query: 280 RQIKIWFQNRRMKWKKENKS 299
RQIKIWFQNRRMK KKE ++
Sbjct: 62 RQIKIWFQNRRMKLKKEIQA 81
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A
{Drosophila melanogaster} PDB: 2r5z_A*
Length = 88
Score = 155 bits (392), Expect = 6e-48
Identities = 61/84 (72%), Positives = 66/84 (78%), Gaps = 10/84 (11%)
Query: 225 PSPLYPWMR----------SQFERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHA 274
P +YPWM+ + E KR R +YTRYQTLELEKEFHFNRYLTRRRRIEIAHA
Sbjct: 5 PPQIYPWMKRVHLGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHA 64
Query: 275 LCLTERQIKIWFQNRRMKWKKENK 298
L LTERQIKIWFQNRRMKWKKE+K
Sbjct: 65 LSLTERQIKIWFQNRRMKWKKEHK 88
>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 = 153 bits (388), Expect = 1e-47
Identities = 61/63 (96%), Positives = 62/63 (98%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHAL LTERQIKIWFQNRRMKWKKEN
Sbjct: 2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKEN 61
Query: 298 KSK 300
K+K
Sbjct: 62 KTK 64
>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 = 152 bits (386), Expect = 4e-47
Identities = 44/75 (58%), Positives = 55/75 (73%), Gaps = 1/75 (1%)
Query: 226 SPLYPWMRSQFERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIW 285
+P W+ ++ ++ R YT++QTLELEKEF FN YLTR RR E+A L LTERQ+KIW
Sbjct: 2 NPAANWLHAR-STRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIW 60
Query: 286 FQNRRMKWKKENKSK 300
FQNRRMK KK NK +
Sbjct: 61 FQNRRMKMKKINKDR 75
>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 = 148 bits (376), Expect = 2e-45
Identities = 38/92 (41%), Positives = 49/92 (53%), Gaps = 14/92 (15%)
Query: 223 SLPSPLYPWMRSQF--------------ERKRGRQTYTRYQTLELEKEFHFNRYLTRRRR 268
+ + + WM+ + R +T Q ELEKEFHFN+YL+R RR
Sbjct: 5 TPTARTFDWMKVKRNPPKTAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARR 64
Query: 269 IEIAHALCLTERQIKIWFQNRRMKWKKENKSK 300
+EIA L L E Q+KIWFQNRRMK KK +
Sbjct: 65 VEIAATLELNETQVKIWFQNRRMKQKKREREG 96
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA
complex, transcription/DNA complex; 2.42A {Mesocricetus
auratus}
Length = 63
Score = 147 bits (372), Expect = 3e-45
Identities = 42/61 (68%), Positives = 47/61 (77%)
Query: 237 ERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKE 296
KR R YTR Q LELEKEF FN+Y++R RR+E+A L LTER IKIWFQNRRMKWKKE
Sbjct: 2 SNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKKE 61
Query: 297 N 297
Sbjct: 62 E 62
>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 = 146 bits (370), Expect = 6e-45
Identities = 28/64 (43%), Positives = 40/64 (62%)
Query: 237 ERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKE 296
K G+ ++ QT+ELEK+F +YL+ R +A L L+ERQ+K WFQNRR KW++
Sbjct: 6 SGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRRS 65
Query: 297 NKSK 300
S
Sbjct: 66 GPSS 69
>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 = 146 bits (369), Expect = 8e-45
Identities = 26/67 (38%), Positives = 37/67 (55%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
+R R T+T Q ELE+ F RYLT R +++ L L Q+KIWF+NRR + K ++
Sbjct: 2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQS 61
Query: 298 KSKDGGS 304
S
Sbjct: 62 DQHKDQS 68
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB:
2ld5_A*
Length = 73
Score = 145 bits (368), Expect = 1e-44
Identities = 29/73 (39%), Positives = 43/73 (58%)
Query: 232 MRSQFERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRM 291
M E ++ R YT+ Q ELE+E+ N+++T+ +R I+ L+ERQ+ IWFQNRR+
Sbjct: 1 MSHMLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRV 60
Query: 292 KWKKENKSKDGGS 304
K KK S
Sbjct: 61 KEKKVINKLKTTS 73
>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 = 145 bits (368), Expect = 1e-44
Identities = 28/64 (43%), Positives = 43/64 (67%)
Query: 237 ERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKE 296
++ R Y++ Q ELE+E+ N+++T+ +R +I+ A L+ERQI IWFQNRR+K KK
Sbjct: 6 SGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKKS 65
Query: 297 NKSK 300
S
Sbjct: 66 GPSS 69
>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 = 141 bits (357), Expect = 5e-43
Identities = 29/57 (50%), Positives = 39/57 (68%)
Query: 239 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKK 295
KR R ++ Q L++EF+ NRYLT RRR +++ L L E QIKIWF+N+R K KK
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>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 = 141 bits (357), Expect = 5e-43
Identities = 30/58 (51%), Positives = 39/58 (67%)
Query: 239 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKE 296
+R R +TR Q LEKEF+ Y++R RR E+A L L E IK+WFQNRRMK K++
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQ 59
>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 = 134 bits (340), Expect = 3e-40
Identities = 28/64 (43%), Positives = 41/64 (64%)
Query: 237 ERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKE 296
+ +R R +T Q + LEK F +YL+ RI++A +L L++ Q+K W+QNRRMKWKK
Sbjct: 16 KGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRMKWKKS 75
Query: 297 NKSK 300
S
Sbjct: 76 GPSS 79
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex,
DNA-binding, homeobox, NUC developmental protein; 2.70A
{Drosophila melanogaster}
Length = 93
Score = 133 bits (336), Expect = 1e-39
Identities = 31/87 (35%), Positives = 51/87 (58%), Gaps = 2/87 (2%)
Query: 229 YPWM-RSQFERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQ 287
+P+ R+ +RK+ R ++TR Q ELEK FH +YL R +A L +T+ Q+K WFQ
Sbjct: 7 HPYQNRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQ 66
Query: 288 NRRMKWKKENKSK-DGGSDAGSDITPA 313
NRR KW+++ + + A + + +
Sbjct: 67 NRRTKWRRQTAEEREAERQAANRLMLS 93
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 70
Score = 122 bits (307), Expect = 2e-35
Identities = 25/64 (39%), Positives = 37/64 (57%)
Query: 237 ERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKE 296
++ R Y+ +Q L++ F +YL R E+A +L LT+ Q+KIWFQN+R K KK
Sbjct: 6 SGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIKKS 65
Query: 297 NKSK 300
S
Sbjct: 66 GPSS 69
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Homo sapiens}
Length = 69
Score = 117 bits (296), Expect = 6e-34
Identities = 26/67 (38%), Positives = 37/67 (55%)
Query: 237 ERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKE 296
+ Q +ELE++F +YL+ R +A L LTE Q+KIWFQNRR K K++
Sbjct: 3 HHHHHHSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRK 62
Query: 297 NKSKDGG 303
S + G
Sbjct: 63 QLSSELG 69
>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 = 114 bits (287), Expect = 1e-32
Identities = 15/58 (25%), Positives = 31/58 (53%)
Query: 237 ERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWK 294
+ +G+ + + LE+ F + L + + E+A +T Q+++WF N+RM+ K
Sbjct: 4 KSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA
complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Length = 58
Score = 110 bits (278), Expect = 3e-31
Identities = 26/57 (45%), Positives = 37/57 (64%)
Query: 239 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKK 295
++ R +T Q L LE++F +YL+ R E + +L LTE Q+KIWFQNRR K K+
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription,
transcription facto developmental protein, transcription
regulation, NUC homeobox; 2.6A {Mus musculus}
Length = 62
Score = 108 bits (273), Expect = 1e-30
Identities = 19/59 (32%), Positives = 37/59 (62%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKE 296
+++ R +++ Q L+ F +YL+ ++ E++ L L+ +Q+K WFQN+RMK K+
Sbjct: 3 KQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKRW 61
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics,
protein structure initiative, PSI, center for eukaryotic
structural genomics; NMR {Homo sapiens}
Length = 84
Score = 105 bits (263), Expect = 7e-29
Identities = 23/94 (24%), Positives = 43/94 (45%), Gaps = 11/94 (11%)
Query: 206 SQPPNQPPNQQPNNTSASLPSPLYPWMRSQFERKRGRQTYTRYQTLELEKEFHFNRYLTR 265
S+ P N ++++ R ++ Q L F +YL+
Sbjct: 1 SKQPTSAENSVAKKEDKVPV-----------KKQKTRTVFSSTQLCVLNDRFQRQKYLSL 49
Query: 266 RRRIEIAHALCLTERQIKIWFQNRRMKWKKENKS 299
++ E+++ L L+ +Q+K WFQN+RMK K+ K+
Sbjct: 50 QQMQELSNILNLSYKQVKTWFQNQRMKSKRWQKN 83
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental
protein, DNA-binding, N gene regulation; 1.54A {Homo
sapiens}
Length = 56
Score = 102 bits (255), Expect = 6e-28
Identities = 24/53 (45%), Positives = 36/53 (67%)
Query: 244 TYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKE 296
+++R Q LELE+ F +YL R +A AL +T+ Q+K WFQNRR KW+++
Sbjct: 3 SFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 55
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus,
transcription-DNA CO; 1.70A {Homo sapiens}
Length = 58
Score = 101 bits (253), Expect = 1e-27
Identities = 26/57 (45%), Positives = 36/57 (63%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWK 294
R++ R +++ Q ELE+ F RYL+ R ++A L LT Q+KIWFQNRR K K
Sbjct: 2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
>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 = 101 bits (254), Expect = 1e-27
Identities = 26/64 (40%), Positives = 37/64 (57%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
+++ R +T+ QT ELE+ F RYL+ R +A + LT Q+KIWFQN R K K+
Sbjct: 9 KRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKRAQ 68
Query: 298 KSKD 301
K
Sbjct: 69 NEKG 72
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding
protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Length = 68
Score = 100 bits (250), Expect = 4e-27
Identities = 25/63 (39%), Positives = 38/63 (60%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
R++ R +++ Q ELE+ F +YL+ R +A + LT Q+KIWFQN R K K++
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQA 61
Query: 298 KSK 300
K K
Sbjct: 62 KDK 64
>1e3o_C Octamer-binding transcription factor 1; transcription factor, POU
domain, dimer, DNA binding; 1.9A {Homo sapiens} SCOP:
a.4.1.1 a.35.1.1 PDB: 1gt0_C 1hf0_A* 1cqt_A* 1o4x_A
1oct_C* 1pou_A 1pog_A 1hdp_A
Length = 160
Score = 95.4 bits (237), Expect = 3e-24
Identities = 25/109 (22%), Positives = 40/109 (36%), Gaps = 6/109 (5%)
Query: 195 NHQQTPPNQPPSQPPNQPPNQQPNNTSASLPSPLYP------WMRSQFERKRGRQTYTRY 248
+ N +P + +S S P + R++ R +
Sbjct: 52 ALNLSFKNMSKLKPLLEKWLNDAEANLSSDSSLSSPSALNSPGIEGLSRRRKKRTSIETN 111
Query: 249 QTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
+ LEK F N+ T IA L + + I++WF NRR K K+ N
Sbjct: 112 IRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEKRIN 160
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA
complex, SOX; 2.05A {Mus musculus}
Length = 164
Score = 82.8 bits (204), Expect = 2e-19
Identities = 16/70 (22%), Positives = 30/70 (42%)
Query: 234 SQFERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKW 293
+Q +++ R + LE F + +A +L L + +++WF NRR K
Sbjct: 95 AQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWFCNRRQKE 154
Query: 294 KKENKSKDGG 303
K+ + G
Sbjct: 155 KRMTPAAGAG 164
>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 = 77.8 bits (192), Expect = 1e-18
Identities = 20/62 (32%), Positives = 29/62 (46%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
+ R +T YQ L+ F N Y ++++ L L R I +WFQN R K +K
Sbjct: 7 GRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKARKSG 66
Query: 298 KS 299
S
Sbjct: 67 PS 68
>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 = 80.0 bits (197), Expect = 1e-18
Identities = 19/101 (18%), Positives = 40/101 (39%), Gaps = 4/101 (3%)
Query: 195 NHQQTPPNQPPSQPPNQPPNQQPNNTSASLPSPLYPWMRSQFERKRGRQTYTRYQTLELE 254
N Q + N + ++ A + R +++ R T + LE
Sbjct: 48 NLQLSFKNACKLKAILSKWLEEAEQVGALYNEKVGANER----KRKRRTTISIAAKDALE 103
Query: 255 KEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKK 295
+ F + + + + +A L L + +++WF NRR + K+
Sbjct: 104 RHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREKR 144
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 76.7 bits (189), Expect = 3e-18
Identities = 12/64 (18%), Positives = 26/64 (40%)
Query: 239 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKENK 298
+ + Q L+ F N++ + + L+ R+++ WF +RR +
Sbjct: 9 SIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCRNLKG 68
Query: 299 SKDG 302
S+ G
Sbjct: 69 SRSG 72
>2da3_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three
helices with the DNA binding helix- turn-helix motif,
structural genomics; NMR {Homo sapiens}
Length = 80
Score = 74.8 bits (184), Expect = 2e-17
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
KR R T T Q L +++ + TR+ IAH + L +R +++WFQN R + +K
Sbjct: 17 DKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARERKSG 76
Query: 298 KS 299
S
Sbjct: 77 PS 78
>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 = 75.1 bits (184), Expect = 8e-17
Identities = 22/101 (21%), Positives = 40/101 (39%), Gaps = 2/101 (1%)
Query: 197 QQTPPNQPPSQPPNQPPNQQPNNTSASLPSPLYPWMRSQFERKRGRQTYTRYQTLELEKE 256
Q + N +P + ++ +N RKR R + LE
Sbjct: 57 QLSLKNMSKLRPLLEKWVEEADNNENLQEISKS--ETLVQARKRKRTSIENRVRWSLETM 114
Query: 257 FHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
F + + ++ IA+ L L + +++WF NRR K K+ +
Sbjct: 115 FLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGKRSS 155
>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 = 70.8 bits (174), Expect = 4e-16
Identities = 18/62 (29%), Positives = 27/62 (43%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
KR R T Q L + F N + + E+A L ++ IK WF+N K ++
Sbjct: 7 GKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKERQSG 66
Query: 298 KS 299
S
Sbjct: 67 PS 68
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP:
a.4.1.1
Length = 73
Score = 70.9 bits (174), Expect = 4e-16
Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 1/61 (1%)
Query: 239 KRGRQTYTRYQTLELEKEFH-FNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
+ T Q LE F+ N++ IA LTE Q + WF+ R +W++
Sbjct: 3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSE 62
Query: 298 K 298
Sbjct: 63 G 63
>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 = 69.4 bits (170), Expect = 2e-15
Identities = 24/71 (33%), Positives = 39/71 (54%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
+R R T+TR Q LE F RY R E+A + L E ++++WF+NRR K +++
Sbjct: 7 GRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQQ 66
Query: 298 KSKDGGSDAGS 308
+ + G +G
Sbjct: 67 QQQQNGGQSGP 77
>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 = 68.6 bits (168), Expect = 3e-15
Identities = 18/71 (25%), Positives = 36/71 (50%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
KR R ++ +Q ++ F N + ++A LT+R +++WFQN R K+++
Sbjct: 7 GKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNL 66
Query: 298 KSKDGGSDAGS 308
++ G +G
Sbjct: 67 LRQENGGVSGP 77
>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 = 67.7 bits (166), Expect = 6e-15
Identities = 25/62 (40%), Positives = 36/62 (58%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
++R R +T Q +LE F NRY R EIA LTE ++++WF+NRR KW+K
Sbjct: 3 QRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRE 62
Query: 298 KS 299
+
Sbjct: 63 EF 64
>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 = 70.1 bits (171), Expect = 7e-15
Identities = 18/103 (17%), Positives = 32/103 (31%), Gaps = 2/103 (1%)
Query: 195 NHQQTPPNQPPSQPPNQPP--NQQPNNTSASLPSPLYPWMRSQFERKRGRQTYTRYQTLE 252
P P N+ + + ++++ R ++T
Sbjct: 48 EKLDITPKSAQKLKPVLEKWLNEAELRNQEGQQNLMEFVGGEPSKKRKRRTSFTPQAIEA 107
Query: 253 LEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKK 295
L F N T + E+A L +++WF NRR K
Sbjct: 108 LNAYFEKNPLPTGQEITEMAKELNYDREVVRVWFSNRRQTLKN 150
>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 = 67.8 bits (166), Expect = 8e-15
Identities = 24/62 (38%), Positives = 38/62 (61%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
++R R T++ Q ELE+ F +Y R E+A LTE +I++WFQNRR + +K++
Sbjct: 18 QRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRKQH 77
Query: 298 KS 299
S
Sbjct: 78 TS 79
>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 = 67.3 bits (165), Expect = 8e-15
Identities = 22/62 (35%), Positives = 32/62 (51%)
Query: 239 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKENK 298
+R R +T+ Q LE F N Y ++A L L +I+IWFQNRR K K+ ++
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRSHR 61
Query: 299 SK 300
Sbjct: 62 ES 63
>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 = 67.4 bits (165), Expect = 9e-15
Identities = 20/62 (32%), Positives = 33/62 (53%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
+R R +T Q LE F +Y R ++A + L E ++++WF+NRR KW++
Sbjct: 7 GRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRRSG 66
Query: 298 KS 299
S
Sbjct: 67 PS 68
>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 = 67.0 bits (164), Expect = 1e-14
Identities = 16/62 (25%), Positives = 25/62 (40%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
R R Q L + N + ++ L+ R I++WFQN+R K KK +
Sbjct: 3 TTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKRS 62
Query: 298 KS 299
Sbjct: 63 IM 64
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 80
Score = 67.0 bits (164), Expect = 1e-14
Identities = 25/71 (35%), Positives = 39/71 (54%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
+R R ++T+ Q LEKEF Y R +A + L E +I++WF NRR KW++E
Sbjct: 7 GQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRREE 66
Query: 298 KSKDGGSDAGS 308
K ++ +G
Sbjct: 67 KLRNQRRQSGP 77
>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 = 64.6 bits (158), Expect = 6e-14
Identities = 26/57 (45%), Positives = 35/57 (61%)
Query: 242 RQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKENK 298
T+T +Q ELEK F Y R E+A + LTE +I++WFQNRR KW+K+ K
Sbjct: 3 HMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQEK 59
>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 = 62.1 bits (151), Expect = 6e-13
Identities = 10/59 (16%), Positives = 22/59 (37%)
Query: 237 ERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKK 295
+ T+ Q L+ F +++ + L +IK WF + R + ++
Sbjct: 3 HHHHHHRKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQR 61
>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 = 61.4 bits (149), Expect = 1e-12
Identities = 14/64 (21%), Positives = 22/64 (34%), Gaps = 1/64 (1%)
Query: 237 ERKRGRQTYTRYQTLELEKEFH-FNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKK 295
R R + L+ H Y + ++ L L + I +FQN+R K
Sbjct: 6 SGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVKH 65
Query: 296 ENKS 299
S
Sbjct: 66 SGPS 69
>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 = 61.9 bits (150), Expect = 1e-12
Identities = 14/72 (19%), Positives = 26/72 (36%)
Query: 242 RQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKENKSKD 301
+ T+ Q LE F + + T+ + L+ R+I WF RR ++
Sbjct: 17 FKEKTQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSMEQAVL 76
Query: 302 GGSDAGSDITPA 313
+G +
Sbjct: 77 DSMGSGKSGPSS 88
>2d5v_A Hepatocyte nuclear factor 6; transcription factor,
transcription-DNA complex; 2.00A {Rattus norvegicus}
PDB: 1s7e_A
Length = 164
Score = 63.4 bits (153), Expect = 2e-12
Identities = 15/92 (16%), Positives = 28/92 (30%)
Query: 210 NQPPNQQPNNTSASLPSPLYPWMRSQFERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRI 269
+ +A K+ R +T Q L F N+ ++ +I
Sbjct: 69 PEFQRMSALRLAACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQI 128
Query: 270 EIAHALCLTERQIKIWFQNRRMKWKKENKSKD 301
I+ L L + +F N R + +
Sbjct: 129 TISQQLGLELSTVSNFFMNARRRSLDKWLEHH 160
>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 = 60.3 bits (146), Expect = 4e-12
Identities = 17/71 (23%), Positives = 23/71 (32%), Gaps = 1/71 (1%)
Query: 234 SQFERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKW 293
+ ++ Q LE F N + +T R+I WF RR K
Sbjct: 4 GSSGPTKYKER-APEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKV 62
Query: 294 KKENKSKDGGS 304
E K G S
Sbjct: 63 NAEETKKSGPS 73
>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 = 58.9 bits (143), Expect = 8e-12
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 240 RGRQTYTRYQTLELEKEFH-FNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKENK 298
G T T Q LE F+ N++ IA LTE Q + WF+ R +W++
Sbjct: 3 EGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSEG 62
>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 = 58.1 bits (140), Expect = 3e-11
Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 15/76 (19%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALC---------------LTERQI 282
+ R T+ + +E F+ N+Y +R EIA+A +T ++
Sbjct: 7 GRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKV 66
Query: 283 KIWFQNRRMKWKKENK 298
WF NRR + K+
Sbjct: 67 YNWFANRRKEIKRRAN 82
>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 = 56.9 bits (137), Expect = 6e-11
Identities = 13/74 (17%), Positives = 25/74 (33%)
Query: 242 RQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKENKSKD 301
+ T Q L+ F + LT + LT R+I WF ++ + + +
Sbjct: 15 FKEKTAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEEKME 74
Query: 302 GGSDAGSDITPATS 315
+ +S
Sbjct: 75 IDESNAGSSSGPSS 88
>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 = 48.6 bits (116), Expect = 5e-08
Identities = 15/63 (23%), Positives = 26/63 (41%), Gaps = 3/63 (4%)
Query: 238 RKRGRQTYTRYQTLELEKEF-HFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKE 296
+ LEK F +Y +R ++ L + R+I+ WF++RR + K
Sbjct: 10 KDSPVNKVE--PNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKPS 67
Query: 297 NKS 299
S
Sbjct: 68 GPS 70
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 49.1 bits (116), Expect = 1e-06
Identities = 24/156 (15%), Positives = 35/156 (22%), Gaps = 8/156 (5%)
Query: 86 YGAHEGGMEQYPRPDSPSMGHMGPQNGHQTPVVYASCKLQAAVGNGIIPGPESPNDLVDP 145
Y + Q P M PQ+ + Y G+ P P+
Sbjct: 9 YPQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYG--------QMGMPPQGAVPSMGQQQ 60
Query: 146 TLNNHHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPP 205
L H ++ P Y Q P + QQ P P
Sbjct: 61 FLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPA 120
Query: 206 SQPPNQPPNQQPNNTSASLPSPLYPWMRSQFERKRG 241
P+ Q + P L +
Sbjct: 121 YGQPSAAMGQNMRPMNQLYPIDLLTELPPPITDLTL 156
Score = 48.3 bits (114), Expect = 2e-06
Identities = 23/141 (16%), Positives = 35/141 (24%), Gaps = 1/141 (0%)
Query: 95 QYPRPDSPSMGHMGPQNGHQTPVVYASCKLQAAVGNGIIPGPESPNDLVDPTLNNHHHHQ 154
Q+ P P+ M P Q D ++N+ H H
Sbjct: 28 QFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQATTSMNDMHLHN 87
Query: 155 HHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPN 214
++ + + PQ P Q P Q P P +
Sbjct: 88 VPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRPMNQLY-PIDLLTE 146
Query: 215 QQPNNTSASLPSPLYPWMRSQ 235
P T +LP P +
Sbjct: 147 LPPPITDLTLPPPPLVIPPER 167
Score = 44.0 bits (103), Expect = 4e-05
Identities = 31/218 (14%), Positives = 59/218 (27%), Gaps = 22/218 (10%)
Query: 23 HHQQHHYGATVLPQNNGVEDPSMYDPRQVHHYGQVPNNGQPVHGMPYPRFPPYDRMDIRN 82
HH++ Y L + P Q +P GM Y + + + +
Sbjct: 3 HHKKRVYPQAQLQYGQNA--TPLQQPAQ-----FMPPQDPAAAGMSYGQMGMPPQGAVPS 55
Query: 83 AAYYGAHEGGMEQYPRPDSPSMGHMGPQNGHQTPVVYASCKLQAAVGNGIIPGPESPNDL 142
EQ + + M + H P+V + +Q V
Sbjct: 56 MGQQQFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVP------------- 102
Query: 143 VDPTLNNHHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPN 202
+ Q M + P Q P + +Y + + + PP
Sbjct: 103 --VQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRPMNQLYPIDLLTELPPPITDLTLPPPP 160
Query: 203 QPPSQPPNQPPNQQPNNTSASLPSPLYPWMRSQFERKR 240
P++ N + + S L ++ K+
Sbjct: 161 LVIPPERMLVPSELSNASPDYIRSTLNAVPKNSSLLKK 198
Score = 43.7 bits (102), Expect = 6e-05
Identities = 19/148 (12%), Positives = 26/148 (17%), Gaps = 2/148 (1%)
Query: 104 MGHMGPQNGHQTPVVYASCKLQAAVGNGIIP--GPESPNDLVDPTLNNHHHHQHHHMNHH 161
M H + Q + Y +P P +
Sbjct: 1 MSHHKKRVYPQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQ 60
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTS 221
Q+Q QQ V N P P Q Q +
Sbjct: 61 FLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPA 120
Query: 222 ASLPSPLYPWMRSQFERKRGRQTYTRYQ 249
PS + T
Sbjct: 121 YGQPSAAMGQNMRPMNQLYPIDLLTELP 148
Score = 27.1 bits (59), Expect = 9.0
Identities = 18/164 (10%), Positives = 35/164 (21%), Gaps = 13/164 (7%)
Query: 16 GGVLPPEHHQQHHYGATVLPQNNGVEDPSMYDPRQVHHYGQVPNNGQPVHGMPYPRFPPY 75
+PP+ + PSM + + + +
Sbjct: 27 AQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQATTSMNDMHL- 85
Query: 76 DRMDIRNAAYYGAHEGGMEQYPRPDSPSMGHMGPQNGHQTPVVYASCKLQAAVGNGIIPG 135
+ Y +P P Q Q A + AA+G
Sbjct: 86 ----------HNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQN--MR 133
Query: 136 PESPNDLVDPTLNNHHHHQHHHMNHHPHPHPQQQQPQQPPPQHM 179
P + +D + P P ++ +
Sbjct: 134 PMNQLYPIDLLTELPPPITDLTLPPPPLVIPPERMLVPSELSNA 177
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A
{Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Length = 99
Score = 44.8 bits (105), Expect = 2e-06
Identities = 12/82 (14%), Positives = 25/82 (30%), Gaps = 21/82 (25%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALC--------------------- 276
+R R + L + + + ++ R +
Sbjct: 9 GRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNL 68
Query: 277 LTERQIKIWFQNRRMKWKKENK 298
+TE ++ WF NRR + +K
Sbjct: 69 VTEVRVYNWFANRRKEEAFRHK 90
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 46.5 bits (109), Expect = 3e-06
Identities = 18/139 (12%), Positives = 36/139 (25%), Gaps = 27/139 (19%)
Query: 177 QHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSASLPSPLYPWMRSQF 236
Q + Q + + + P + P + + P MR
Sbjct: 87 QREILRQFNQTVQSSGNMTDKSSQDQLLFLFPEFSQQSHGPGQSDDACSEPTNKKMR--- 143
Query: 237 ERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALC-------------------- 276
R R + L + + + ++ R +
Sbjct: 144 ---RNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSN 200
Query: 277 -LTERQIKIWFQNRRMKWK 294
+TE ++ WF NRR +
Sbjct: 201 LVTEVRVYNWFANRRKEEA 219
>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 = 42.5 bits (100), Expect = 5e-06
Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 253 LEKEF-HFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKENKS 299
LEK F ++ +R ++ L R I+ WF+ RR + K S
Sbjct: 15 LEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEKPSGPS 62
>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 = 1e-05
Identities = 15/89 (16%), Positives = 26/89 (29%), Gaps = 7/89 (7%)
Query: 209 PNQPPNQQPNNTSASLPSPLYPWMRSQFERKRGRQTYTRYQTLELEKEFHFNRYLTRRRR 268
+ + P+P + T Q L+ F ++ +
Sbjct: 3 HHHHHHSSGLEVLFQGPAP-------KSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEY 55
Query: 269 IEIAHALCLTERQIKIWFQNRRMKWKKEN 297
++A L I WF + R WK N
Sbjct: 56 DKLAKESGLARTDIVSWFGDTRYAWKNGN 84
>2nzz_A Penetratin conjugated GAS (374-394) peptide; conformational
analysis, G protein, GAS subunit, A2A adenosine
receptor, cell-penetrating peptides; NMR {Synthetic}
PDB: 2o00_A
Length = 37
Score = 39.6 bits (92), Expect = 3e-05
Identities = 18/24 (75%), Positives = 20/24 (83%), Gaps = 2/24 (8%)
Query: 280 RQIKIWFQNRRMKWKKE--NKSKD 301
RQIKIWFQNRRMKWKK N ++D
Sbjct: 1 RQIKIWFQNRRMKWKKRVFNDARD 24
>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 = 42.6 bits (99), Expect = 5e-05
Identities = 13/111 (11%), Positives = 29/111 (26%), Gaps = 21/111 (18%)
Query: 205 PSQPPNQPPNQQPNNTSASLPSPLYPWMRSQFERKRGRQTYTRYQTLELEKEFHFNRYLT 264
+ + Q + L + +R R + L + + + +
Sbjct: 82 YVRKQREVAQQFTHAGQGGLIEEPTGDELPTKKGRRNRFKWGPASQQILFQAYERQKNPS 141
Query: 265 RRRRIEIAHALC---------------------LTERQIKIWFQNRRMKWK 294
+ R + +TE ++ WF NRR +
Sbjct: 142 KEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRKEEA 192
>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 = 36.9 bits (84), Expect = 8e-04
Identities = 11/66 (16%), Positives = 24/66 (36%), Gaps = 4/66 (6%)
Query: 238 RKRGRQTYTRYQTLELEKEFH----FNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKW 293
+ R ++ L+K + + R + +A L + ++ W NRR K+
Sbjct: 8 ALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRRKY 67
Query: 294 KKENKS 299
+
Sbjct: 68 RLMGIE 73
>2ecc_A Homeobox and leucine zipper protein homez; homeobox domain,
transcription factor, leucine zipper- containing factor,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.4.1.1
Length = 76
Score = 35.0 bits (80), Expect = 0.003
Identities = 11/52 (21%), Positives = 19/52 (36%)
Query: 246 TRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
T+ Q L+ F ++ R ++ L +I WF + R K
Sbjct: 11 TKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKHGQ 62
>2x4f_A Myosin light chain kinase family member 4; LUNG, breast cancer,
transferase, serine/threonine-protein kinase,
nucleotide-binding; HET: 16X 1PE; 2.67A {Homo sapiens}
Length = 373
Score = 37.4 bits (87), Expect = 0.005
Identities = 17/104 (16%), Positives = 33/104 (31%), Gaps = 11/104 (10%)
Query: 152 HHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQ 211
HH HHH + + Q M + + N + +
Sbjct: 3 HHHHHHSSGVDLG------TENLYFQSMKNSGDQDSRSGH---NEAKEVWSNADLTERMP 53
Query: 212 PPNQQPNNTSASLPSPLYPWMRSQFERKRG--RQTYTRYQTLEL 253
+++ + + +P+P P+ K+G YT +T L
Sbjct: 54 VKSKRTSALAVDIPAPPAPFDHRIVTAKQGAVNSFYTVSKTEIL 97
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 36.6 bits (84), Expect = 0.010
Identities = 15/85 (17%), Positives = 22/85 (25%), Gaps = 2/85 (2%)
Query: 151 HHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPN 210
HH HHH++ Q P P H + +P
Sbjct: 2 AHHHHHHVDDDDKMFSTQVNSSLTSPTGRGSMAAPSL--HPSLGPGIGSPGQLHSPISTL 59
Query: 211 QPPNQQPNNTSASLPSPLYPWMRSQ 235
P + + SP+ P S
Sbjct: 60 SSPINGMGPPFSVISSPMGPHSMSV 84
Score = 27.0 bits (59), Expect = 8.8
Identities = 15/117 (12%), Positives = 27/117 (23%), Gaps = 2/117 (1%)
Query: 113 HQTPVVYASCKLQAAVGNGIIPGPESPNDLVDPTLNNH--HHHQHHHMNHHPHPHPQQQQ 170
H V K+ + N + P + P+L+ H P
Sbjct: 4 HHHHHVDDDDKMFSTQVNSSLTSPTGRGSMAAPSLHPSLGPGIGSPGQLHSPISTLSSPI 63
Query: 171 PQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSASLPSP 227
PP ++ + P P P P + + +
Sbjct: 64 NGMGPPFSVISSPMGPHSMSVPTTPTLGFSTGSPQLSSPMNPVSSSEDIKPPLGLNG 120
>2e19_A Transcription factor 8; homeobox domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 31.9 bits (72), Expect = 0.034
Identities = 9/47 (19%), Positives = 18/47 (38%)
Query: 253 LEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKENKS 299
L+ + N + +IA ++ L +K WF+ + S
Sbjct: 18 LKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQISVQSS 64
>3tx7_B Nuclear receptor subfamily 5 group A member 2; LRH-1, beta-catenin,
armadillo repeat, nuclear receptor LIGA binding domain,
protein binding; HET: P6L; 2.76A {Homo sapiens}
Length = 352
Score = 34.6 bits (79), Expect = 0.037
Identities = 10/94 (10%), Positives = 23/94 (24%), Gaps = 1/94 (1%)
Query: 137 ESPNDLVDPTLNNHHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNH 196
E+ + ++ ++ N H PP + + H
Sbjct: 5 EAMSQVIQAMPSDLTISSAIQ-NIHSASKGLPLNHAALPPTDYDRSPFVTSPISMTMPPH 63
Query: 197 QQTPPNQPPSQPPNQPPNQQPNNTSASLPSPLYP 230
Q P++ + + S P +
Sbjct: 64 GSLQGYQTYGHFPSRAIKSEYPDPYTSSPESIMG 97
Score = 33.8 bits (77), Expect = 0.067
Identities = 10/99 (10%), Positives = 19/99 (19%), Gaps = 5/99 (5%)
Query: 134 PGPESPNDLVDPTLNNHHHHQHH-----HMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQ 188
D T+++ + H +NH P + M
Sbjct: 7 MSQVIQAMPSDLTISSAIQNIHSASKGLPLNHAALPPTDYDRSPFVTSPISMTMPPHGSL 66
Query: 189 HHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSASLPSP 227
H + + P + S
Sbjct: 67 QGYQTYGHFPSRAIKSEYPDPYTSSPESIMGYSYMDSYQ 105
>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 = 31.7 bits (72), Expect = 0.046
Identities = 19/77 (24%), Positives = 29/77 (37%), Gaps = 5/77 (6%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNR---YLTRRRRIEIAHALCLTERQIKIWFQNRRMKWK 294
RG + +T+ LE F N YL + + L+ QIK W RR K K
Sbjct: 3 PYRGHR-FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKEK 61
Query: 295 KENKSKDGGSD-AGSDI 310
+ + +G +
Sbjct: 62 TITIAPELADLLSGEPL 78
>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 = 31.8 bits (72), Expect = 0.052
Identities = 20/87 (22%), Positives = 30/87 (34%), Gaps = 4/87 (4%)
Query: 211 QPPNQQPNNTSASLPSPLYPWMRSQFERKRGRQTYTRYQTLELEKEFHFNR---YLTRRR 267
Q + + + + RG + +T+ LE F N YL +
Sbjct: 1 QLTQKNKSADGLVFNVVTQDMINKSTKPYRGHR-FTKENVRILESWFAKNIENPYLDTKG 59
Query: 268 RIEIAHALCLTERQIKIWFQNRRMKWK 294
+ L+ QIK W NRR K K
Sbjct: 60 LENLMKNTSLSRIQIKNWVSNRRRKEK 86
>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 = 34.4 bits (78), Expect = 0.053
Identities = 21/154 (13%), Positives = 44/154 (28%), Gaps = 22/154 (14%)
Query: 42 DPSMYDPRQVHHYGQVPNNGQPVHGMPYPRFPPYDRMDIRNAAYYGAHEGGMEQYPRPDS 101
PSM + ++ N+ Q R PY + +R A +
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK--LRQALLELRPAKNVLID----- 156
Query: 102 PSMGHMGPQNGHQTPVVYASC---KLQAAVGNGI----IPGPESPNDLVDPTLNNHHH-- 152
+ G +T V C K+Q + I + SP +++ +
Sbjct: 157 -GVLGSG-----KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID 210
Query: 153 HQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPP 186
+ H + Q + ++ ++
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE 244
Score = 29.8 bits (66), Expect = 1.4
Identities = 20/156 (12%), Positives = 38/156 (24%), Gaps = 38/156 (24%)
Query: 152 HHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPP-- 209
HH HHHM+ + Q + Q P S+
Sbjct: 1 HHHHHHMDFETG---EHQYQYKDILSVFE-----DAFVDNFDCKDVQDMPKSILSKEEID 52
Query: 210 ---NQPPN------------QQPNNTSA----SLPSPLYPWMRSQFERKRGRQT---YTR 247
+ + Y ++ S + RQ
Sbjct: 53 HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPI-KTEQRQPSMMTRM 111
Query: 248 YQTLELEKEFHFNRYLTRR--RRIEIAHAL--CLTE 279
Y + ++ ++ N+ + R++ L L E
Sbjct: 112 YIE-QRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE 146
Score = 29.4 bits (65), Expect = 1.7
Identities = 23/159 (14%), Positives = 44/159 (27%), Gaps = 60/159 (37%)
Query: 18 VLPPEHHQQHHYGATVLPQNNGV---------EDPSMYDPRQV----HHYGQVPNNGQP- 63
VL P +++ +V P + + D D V H Y V +
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES 424
Query: 64 ---VHGMPYPRFPPYDRMDIRNAAYYGAHEGGMEQYPRPDSPSMGHMGPQNGHQTPVVYA 120
+ + Y + ++ Y H ++ Y P +
Sbjct: 425 TISIPSI-------YLELKVKLENEYALHRSIVDHY-----------------NIPKTF- 459
Query: 121 SCKLQAAVGNGIIPGPESPNDLVDPTLNNH-HHHQHHHM 158
+DL+ P L+ + + H HH+
Sbjct: 460 -----------------DSDDLIPPYLDQYFYSHIGHHL 481
>2z6h_A Catenin beta-1, beta-catenin; C-terminal domain, activator,
alternative splicing, cell adhesion, cytoplasm,
cytoskeleton, disease mutation, nucleus; 2.20A {Homo
sapiens}
Length = 644
Score = 33.8 bits (77), Expect = 0.082
Identities = 9/50 (18%), Positives = 13/50 (26%), Gaps = 2/50 (4%)
Query: 129 GNGIIPGPESPNDLVDPTLNNHHHHQHHHMNHHPHPHPQQQQPQQPPPQH 178
G G P + HH + ++ P Q PP
Sbjct: 586 GYGQDALGMDPMMEHEMG--GHHPGADYPVDGLPDLGHAQDLMDGLPPGD 633
Score = 29.9 bits (67), Expect = 1.2
Identities = 12/56 (21%), Positives = 17/56 (30%), Gaps = 2/56 (3%)
Query: 138 SPNDLVDPTLNNHHHHQHHHMNHHPH-PHPQQQQPQQPPPQHMMYAQQPPPQHHQV 192
L +H HHP +P P Q +M PP +Q+
Sbjct: 583 HSGGYGQDALGMDPMMEHEMGGHHPGADYPVDGLPDLGHAQDLM-DGLPPGDSNQL 637
>2es4_D Lipase chaperone; protein-protein complex, steric chaperone,
triacylglycerol hydrolase, all alpha helix protein, A/B
hydrolase fold; 1.85A {Burkholderia glumae} SCOP:
a.137.15.1
Length = 332
Score = 33.2 bits (75), Expect = 0.096
Identities = 15/70 (21%), Positives = 21/70 (30%), Gaps = 2/70 (2%)
Query: 148 NNHHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQ 207
++HHHH HHH + H P P A P + P +
Sbjct: 2 HHHHHHHHHHSSGHIEGRHMPAAPSPAPAG--AVAGGPAAGVPAAASGAAEAAMPLPAAL 59
Query: 208 PPNQPPNQQP 217
P + P
Sbjct: 60 PGALAGSHAP 69
>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 = 33.5 bits (76), Expect = 0.10
Identities = 25/125 (20%), Positives = 41/125 (32%), Gaps = 49/125 (39%)
Query: 197 QQTPPNQ--PPSQPPNQPPNQQPNNTSASLPSPLYPWMRSQFERKRGRQTYTRYQTLELE 254
+ PN PPS + + +PSP M S T+ Q ++
Sbjct: 311 YEAYPNTSLPPSI------LEDSLENNEGVPSP----MLSI----SN---LTQEQ---VQ 350
Query: 255 KE-FHFNRYLTRRRRIEIA-----------------HALCLTER---------QIKIWFQ 287
N +L +++EI+ + L LT R Q +I F
Sbjct: 351 DYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS 410
Query: 288 NRRMK 292
R++K
Sbjct: 411 ERKLK 415
>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 = 30.3 bits (69), Expect = 0.10
Identities = 13/38 (34%), Positives = 16/38 (42%)
Query: 258 HFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKK 295
N YL + + L+ QIK W NRR K K
Sbjct: 21 IENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 58
>1pk8_A RAT synapsin I; ATP binding, ATP grAsp, calcium (II) ION, membrane
protein; HET: ATP; 2.10A {Rattus norvegicus} SCOP:
c.30.1.5 d.142.1.3 PDB: 1px2_A*
Length = 422
Score = 33.3 bits (75), Expect = 0.11
Identities = 16/126 (12%), Positives = 27/126 (21%), Gaps = 15/126 (11%)
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQP---- 217
Q+ QP PPP P P P + P
Sbjct: 22 YMTDLQRPQPPPPPPSAASPGATPGSAAASAERASTAAPVASPAAPSPGSSGGGGFFSSL 81
Query: 218 ----NNTSASLPSPLYPWM------RSQFERKRGRQTYTRYQTLELEKEFHFNRYLT-RR 266
T+A+ + + + + K F +
Sbjct: 82 SNAVKQTTAAAAATFSEQVGGGSGGAGRGGAAARVLLVIDEPHTDWAKYFKGKKIHGEID 141
Query: 267 RRIEIA 272
++E A
Sbjct: 142 IKVEQA 147
>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor,
chromophore, glycoprotein, lipoprotein, membrane,
palmitate phosphorylation; HET: BOG RET PLM TWT PC1;
2.50A {Todarodes pacificus} PDB: 3aym_A* 3ayn_A* 2ziy_A*
Length = 448
Score = 33.0 bits (75), Expect = 0.11
Identities = 16/59 (27%), Positives = 17/59 (28%), Gaps = 6/59 (10%)
Query: 159 NHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQP 217
P PQ PPQ PPQ + Q P P PP P P
Sbjct: 385 QAAYPPQGYAPPPQGYPPQ------GYPPQGYPPQGYPPQGYPPPPQGAPPQGAPPAAP 437
Score = 32.2 bits (73), Expect = 0.24
Identities = 18/55 (32%), Positives = 20/55 (36%), Gaps = 4/55 (7%)
Query: 163 HPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQP 217
QQQQ PP + Q PPQ + Q PP P Q PP P
Sbjct: 378 MQKMQQQQAAYPPQGYAPPPQGYPPQGYPP----QGYPPQGYPPQGYPPPPQGAP 428
Score = 29.1 bits (65), Expect = 2.1
Identities = 20/83 (24%), Positives = 21/83 (25%), Gaps = 16/83 (19%)
Query: 151 HHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQ--- 207
QQQ PPQ PPPQ PP P Q
Sbjct: 365 SADAAQMKEMMAMMQKMQQQQAAYPPQ----GYAPPPQ---------GYPPQGYPPQGYP 411
Query: 208 PPNQPPNQQPNNTSASLPSPLYP 230
P PP P + P P
Sbjct: 412 PQGYPPQGYPPPPQGAPPQGAPP 434
Score = 28.4 bits (63), Expect = 3.6
Identities = 14/66 (21%), Positives = 16/66 (24%), Gaps = 5/66 (7%)
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTS 221
P Q + Q M Q P + P PP P Q Q
Sbjct: 364 PSADAAQMKEMMAMMQKMQQQQAAYPPQ-----GYAPPPQGYPPQGYPPQGYPPQGYPPQ 418
Query: 222 ASLPSP 227
P P
Sbjct: 419 GYPPPP 424
>2yew_A Capsid protein, coat protein; alphavirus, molecular dynamics; 5.00A
{Barmah forest virus}
Length = 253
Score = 32.3 bits (73), Expect = 0.14
Identities = 9/54 (16%), Positives = 15/54 (27%)
Query: 164 PHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQP 217
PQ Q P P + Q + + + +P PP +
Sbjct: 22 YIPQPQPPAPPRRRRGPSQLQQLVAALGALALQPKQKQKRAQKKPKKTPPPKPK 75
Score = 31.9 bits (72), Expect = 0.23
Identities = 13/58 (22%), Positives = 21/58 (36%)
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNN 219
P Q QQ A QP + + ++TPP +P + P Q+ +
Sbjct: 32 PRRRRGPSQLQQLVAALGALALQPKQKQKRAQKKPKKTPPPKPKKTQKPKKPTQKKKS 89
Score = 28.8 bits (64), Expect = 2.0
Identities = 8/56 (14%), Positives = 15/56 (26%)
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQP 217
P P +++ P Q + ++ PP Q P +
Sbjct: 29 PAPPRRRRGPSQLQQLVAALGALALQPKQKQKRAQKKPKKTPPPKPKKTQKPKKPT 84
>3egg_C Spinophilin; PP1, serine/threonine phosphatase, post synapti
density, glutametergic receptors, carbohydrate
metabolism, cycle, cell division; HET: MES; 1.85A
{Rattus norvegicus} PDB: 3egh_C* 3hvq_C 2fn5_A
Length = 170
Score = 31.8 bits (72), Expect = 0.16
Identities = 18/100 (18%), Positives = 31/100 (31%), Gaps = 12/100 (12%)
Query: 157 HMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQ 216
HM+ P + + + + P P H T P Q S N+ +++
Sbjct: 2 HMDEEDGEPPYEPESGCVEIPGLSEEEDPAPSRKI----HFSTAPIQVFSTYSNEDYDRR 57
Query: 217 PNNTSASLPSPLYPWMRSQFERKRGRQTYTRYQTLELEKE 256
+ S Y + R +ELEK+
Sbjct: 58 NEDVDPMAASAEYELEK--------RVERLELFPVELEKD 89
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.1 bits (72), Expect = 0.17
Identities = 15/90 (16%), Positives = 29/90 (32%), Gaps = 27/90 (30%)
Query: 216 QPNNTSASLPSPLYPWMRSQFERKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEI-AHA 274
Q + + P + W Q +R + EL+ ++ E A
Sbjct: 76 QADRLTQE-PESIRKWREEQRKRLQ-----------ELDAA-------SKVMEQEWREKA 116
Query: 275 LCLTERQIKIWFQNRR---MKWKKENKSKD 301
++ ++ W Q + K K N+ D
Sbjct: 117 ----KKDLEEWNQRQSEQVEKNKINNRIAD 142
Score = 27.8 bits (61), Expect = 3.3
Identities = 6/31 (19%), Positives = 11/31 (35%), Gaps = 4/31 (12%)
Query: 231 WMRSQFERKRGRQTYTRYQTLELEKEFHFNR 261
W + Q E+ + R +K F+
Sbjct: 123 WNQRQSEQVEKNKINNR----IADKAFYQQP 149
>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring
E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A
{Saccharomyces cerevisiae}
Length = 371
Score = 32.2 bits (72), Expect = 0.23
Identities = 15/73 (20%), Positives = 24/73 (32%), Gaps = 1/73 (1%)
Query: 164 PHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSAS 223
P + QQ P Q ++T S+ P P N +++S+S
Sbjct: 2 LTPLSAITVRSMEGPPTVQQQSPSVIRQSPTQRRKTSTTSSTSRAPP-PTNPDASSSSSS 60
Query: 224 LPSPLYPWMRSQF 236
P + S F
Sbjct: 61 FAVPTIHFKESPF 73
>3ijr_A Oxidoreductase, short chain dehydrogenase/reducta; structural
genomics, infectious D center for structural genomics of
infectious diseases; HET: NAD; 2.05A {Bacillus anthracis
str} PDB: 3i3o_A*
Length = 291
Score = 31.7 bits (73), Expect = 0.29
Identities = 9/31 (29%), Positives = 13/31 (41%), Gaps = 3/31 (9%)
Query: 159 NHHPHPHPQQQQPQQPPPQHMMYAQQPPPQH 189
+ P Q Q +QP + +M P PQ
Sbjct: 7 QKNFVTMPAQHQNKQPGIESLM---NPLPQF 34
Score = 29.4 bits (67), Expect = 1.3
Identities = 8/22 (36%), Positives = 9/22 (40%), Gaps = 4/22 (18%)
Query: 166 PQQQQPQQPPPQHMMYAQQPPP 187
PQQ+ P QH Q P
Sbjct: 5 PQQKNFVTMPAQH----QNKQP 22
Score = 26.7 bits (60), Expect = 10.0
Identities = 9/33 (27%), Positives = 12/33 (36%)
Query: 197 QQTPPNQPPSQPPNQPPNQQPNNTSASLPSPLY 229
P + P Q N+QP S P P +
Sbjct: 2 NAMPQQKNFVTMPAQHQNKQPGIESLMNPLPQF 34
>3gdb_A Endo-D, putative uncharacterized protein SPR0440;
alpha-beta-barrels, cell WALL, peptidoglycan-anchor,
secreted, hydrolase; HET: PGE; 1.87A {Streptococcus
pneumoniae} PDB: 2xqx_A
Length = 937
Score = 31.9 bits (71), Expect = 0.30
Identities = 12/86 (13%), Positives = 18/86 (20%), Gaps = 11/86 (12%)
Query: 152 HHQHHHMNHH----------PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPP 201
HH HHH +HH P+ Q H +
Sbjct: 3 HHHHHHGHHHQLENLYFQGEETAVPENSGANTELVSGES-EHSTNEADKQNEGEHARENK 61
Query: 202 NQPPSQPPNQPPNQQPNNTSASLPSP 227
+ P + A+
Sbjct: 62 LEKAEGVATASETASPASNEAATTET 87
Score = 30.7 bits (68), Expect = 0.74
Identities = 9/77 (11%), Positives = 20/77 (25%)
Query: 151 HHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPN 210
HHH HH +H Q + P + + + + +
Sbjct: 3 HHHHHHGHHHQLENLYFQGEETAVPENSGANTELVSGESEHSTNEADKQNEGEHARENKL 62
Query: 211 QPPNQQPNNTSASLPSP 227
+ + + P+
Sbjct: 63 EKAEGVATASETASPAS 79
Score = 28.8 bits (63), Expect = 3.4
Identities = 8/80 (10%), Positives = 25/80 (31%)
Query: 148 NNHHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQ 207
++HHH HH + + + P+ + + + ++ ++ + +
Sbjct: 4 HHHHHGHHHQLENLYFQGEETAVPENSGANTELVSGESEHSTNEADKQNEGEHARENKLE 63
Query: 208 PPNQPPNQQPNNTSASLPSP 227
+ AS +
Sbjct: 64 KAEGVATASETASPASNEAA 83
>2y7j_A Phosphorylase B kinase gamma catalytic chain, testis/liver isoform;
transferase; HET: B49; 2.50A {Homo sapiens} PDB: 1h0t_A
1lp1_B 1q2n_A 2spz_A 3mzw_B* 1ss1_A 2jwd_A 1bdc_A 1bdd_A
1fc2_C* 2b87_A 2b88_A 1h0t_B 1lp1_A 2b87_B 2b89_A 3s1k_A
Length = 365
Score = 31.6 bits (72), Expect = 0.30
Identities = 11/88 (12%), Positives = 19/88 (21%), Gaps = 9/88 (10%)
Query: 150 HHHHQH-------HHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPN 202
HHHH H + + P Q + + Q +
Sbjct: 2 HHHHHHSSGVDNKFNKERRRARREIRHLPNLNREQRRAFIRSLRDDPSQ--SANLLAEAK 59
Query: 203 QPPSQPPNQPPNQQPNNTSASLPSPLYP 230
+ P N + P +
Sbjct: 60 KLNDAQPKGTENLYFQSMGPEDELPDWA 87
Score = 27.0 bits (60), Expect = 9.3
Identities = 11/104 (10%), Positives = 25/104 (24%), Gaps = 3/104 (2%)
Query: 160 HHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNN 219
HH H H + + + +H + Q+ + P+Q N
Sbjct: 2 HHHHHHSSGVDNKFNKERR---RARREIRHLPNLNREQRRAFIRSLRDDPSQSANLLAEA 58
Query: 220 TSASLPSPLYPWMRSQFERKRGRQTYTRYQTLELEKEFHFNRYL 263
+ P + E +++ +
Sbjct: 59 KKLNDAQPKGTENLYFQSMGPEDELPDWAAAKEFYQKYDPKDVI 102
>1mh3_A Maltose binding-A1 homeodomain protein chimera; MATA1, binding
cooperativity, maltose binding protein, MBP, sugar
binding, DNA binding protein; 2.10A {Escherichia coli}
SCOP: a.4.1.1 c.94.1.1 PDB: 1mh4_A 1le8_A
Length = 421
Score = 31.7 bits (72), Expect = 0.31
Identities = 14/56 (25%), Positives = 26/56 (46%)
Query: 239 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWK 294
+ LE+ F + L + + E+A +T Q+++WF N+RM+ K
Sbjct: 366 TAAAAAISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>3v1v_A 2-MIB synthase, 2-methylisoborneol synthase; class I terpenoid
cyclase fold, DDXXXXD motif, NDXXSXXXE MOT
methylisoborneol biosynthesis; HET: GST; 1.80A
{Streptomyces coelicolor} PDB: 3v1x_A*
Length = 433
Score = 31.7 bits (71), Expect = 0.34
Identities = 10/70 (14%), Positives = 16/70 (22%), Gaps = 2/70 (2%)
Query: 160 HHPHP-HPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQP-PNQPPNQQP 217
HH H + P + + P PP P PP+
Sbjct: 7 HHHHSSGLVPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGNPPDTVT 66
Query: 218 NNTSASLPSP 227
++
Sbjct: 67 GDSVLQRILR 76
Score = 30.9 bits (69), Expect = 0.53
Identities = 5/35 (14%), Positives = 11/35 (31%)
Query: 196 HQQTPPNQPPSQPPNQPPNQQPNNTSASLPSPLYP 230
H P P+ + ++ + L+P
Sbjct: 7 HHHHSSGLVPRGSHMVIPSASVTSAASDFLAALHP 41
Score = 27.8 bits (61), Expect = 6.0
Identities = 12/95 (12%), Positives = 18/95 (18%), Gaps = 4/95 (4%)
Query: 150 HHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPP 209
HHHH + H + P PP
Sbjct: 7 HHHHSSGLVPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGNPPDTVT 66
Query: 210 N----QPPNQQPNNTSASLPSPLYPWMRSQFERKR 240
Q + P + +P + R
Sbjct: 67 GDSVLQRILRGPTGPGTTSLAPAVRYGRQPGPEAP 101
>3sjs_A URE3-BP sequence specific DNA binding protein; EF-hand, structural
genomics, seattle S genomics center for infectious
disease, ssgcid; 1.90A {Entamoeba histolytica} PDB:
3sia_A 3sib_A
Length = 220
Score = 30.9 bits (70), Expect = 0.36
Identities = 8/52 (15%), Positives = 13/52 (25%)
Query: 173 QPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSASL 224
QPP + P Q + P + N P + +
Sbjct: 2 QPPVANFCLWNLQPIQGSWMGAACIYQMPPSVRNTWWFPLLNTIPLDQYTRI 53
Score = 27.8 bits (62), Expect = 4.3
Identities = 9/47 (19%), Positives = 15/47 (31%), Gaps = 1/47 (2%)
Query: 184 QPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSASLPSPLYP 230
QPP + + N Q + + Q P N L + +
Sbjct: 2 QPPVAN-FCLWNLQPIQGSWMGAACIYQMPPSVRNTWWFPLLNTIPL 47
Score = 27.1 bits (60), Expect = 7.0
Identities = 10/67 (14%), Positives = 15/67 (22%), Gaps = 9/67 (13%)
Query: 172 QQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSASLPSPLYPW 231
Q P ++ QP Q P N ++P Y
Sbjct: 2 QPPVANFCLWNLQPIQGSW---------MGAACIYQMPPSVRNTWWFPLLNTIPLDQYTR 52
Query: 232 MRSQFER 238
+ F
Sbjct: 53 IYQWFMG 59
>1juo_A Sorcin; calcium-binding proteins, penta-EF-hand, PEF, X-RAY, metal
transport; 2.20A {Homo sapiens} SCOP: a.39.1.8 PDB:
2jc2_A
Length = 198
Score = 30.9 bits (70), Expect = 0.37
Identities = 6/42 (14%), Positives = 10/42 (23%)
Query: 201 PNQPPSQPPNQPPNQQPNNTSASLPSPLYPWMRSQFERKRGR 242
P P + P + P + F G+
Sbjct: 4 PGHPGAGGGYYPGGYGGAPGGPAFPGQTQDPLYGYFAAVAGQ 45
>1pcx_A Protein transport protein SEC24; 2.50A {Saccharomyces cerevisiae}
SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 PDB:
1pd0_A 1pd1_A
Length = 810
Score = 31.5 bits (70), Expect = 0.38
Identities = 11/77 (14%), Positives = 23/77 (29%)
Query: 164 PHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSAS 223
P Q P + +Y + + + PP P++ N +
Sbjct: 6 GQPSAAMGQNMRPMNQLYPIDLLTELPPPITDLTLPPPPLVIPPERMLVPSELSNASPDY 65
Query: 224 LPSPLYPWMRSQFERKR 240
+ S L ++ K+
Sbjct: 66 IRSTLNAVPKNSSLLKK 82
Score = 30.7 bits (68), Expect = 0.68
Identities = 14/56 (25%), Positives = 19/56 (33%), Gaps = 6/56 (10%)
Query: 166 PQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTS 221
P QP Q+M Q P + + + PP + PP PP P
Sbjct: 3 PAYGQPSAAMGQNMRPMNQLYP----IDLLTELPPPITDLTLPP--PPLVIPPERM 52
Score = 27.7 bits (60), Expect = 7.1
Identities = 9/56 (16%), Positives = 11/56 (19%)
Query: 170 QPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSASLP 225
P P M P + + PP P P P
Sbjct: 2 APAYGQPSAAMGQNMRPMNQLYPIDLLTELPPPITDLTLPPPPLVIPPERMLVPSE 57
>2ys9_A Homeobox and leucine zipper protein homez; homeodomain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 70
Score = 28.7 bits (63), Expect = 0.55
Identities = 10/63 (15%), Positives = 24/63 (38%)
Query: 240 RGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKENKS 299
LE+ + ++ L +++ A L+ +Q+ WF +R + + +
Sbjct: 8 PLPIPPPPPDIQPLERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDSRLPQPAEVSGP 67
Query: 300 KDG 302
G
Sbjct: 68 SSG 70
>3odm_A Pepcase, PEPC, phosphoenolpyruvate carboxylase; beta-barrel, lyase;
2.95A {Clostridium perfringens}
Length = 560
Score = 30.8 bits (69), Expect = 0.57
Identities = 15/36 (41%), Positives = 15/36 (41%), Gaps = 3/36 (8%)
Query: 150 HHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQP 185
HHHH HHH HH H P MM Q P
Sbjct: 3 HHHHHHHH--HHSSGHIDDDDKHMKIPCSMM-TQHP 35
>2oay_A C1-inhibitor, plasma protease C1 inhibitor, C1 INH, C1INH; latent
serpin, RCL insertion, immune system,hydrolase inhibi;
HET: NAG; 2.35A {Homo sapiens}
Length = 390
Score = 30.7 bits (70), Expect = 0.68
Identities = 7/30 (23%), Positives = 12/30 (40%)
Query: 151 HHHQHHHMNHHPHPHPQQQQPQQPPPQHMM 180
HHH HH + P P + + ++
Sbjct: 3 HHHHHHTGSFCPGPVTLCSDLESHSTEAVL 32
>2grx_C Protein TONB; beta barrel, outer membrane, heterocomplex,
inter-protein beta sheet, protein-protein, metal
transport; HET: GCN KDO GMH FTT DAO MYR FCI; 3.30A
{Escherichia coli} SCOP: d.212.1.2 PDB: 1xx3_A
Length = 229
Score = 30.1 bits (67), Expect = 0.69
Identities = 12/66 (18%), Positives = 18/66 (27%)
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTS 221
P Q P+ P P VV + P +P +P + Q +
Sbjct: 46 EPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQEQPKRDVK 105
Query: 222 ASLPSP 227
P
Sbjct: 106 PVESRP 111
Score = 28.1 bits (62), Expect = 3.2
Identities = 9/66 (13%), Positives = 21/66 (31%)
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTS 221
P P+ + +PP + + ++P P+ ++ P + P +
Sbjct: 59 VEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENT 118
Query: 222 ASLPSP 227
A
Sbjct: 119 APARLT 124
Score = 27.0 bits (59), Expect = 6.9
Identities = 11/74 (14%), Positives = 21/74 (28%)
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTS 221
+ +P+ P +QP V N P++ + +
Sbjct: 77 VVIEKPKPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAPARLTSSTATAATSKPV 136
Query: 222 ASLPSPLYPWMRSQ 235
S+ S R+Q
Sbjct: 137 TSVASGPRALSRNQ 150
Score = 27.0 bits (59), Expect = 8.2
Identities = 8/66 (12%), Positives = 16/66 (24%)
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTS 221
P + PP + +P P+ +P +P +P +
Sbjct: 40 VTPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQEQ 99
Query: 222 ASLPSP 227
Sbjct: 100 PKRDVK 105
Score = 27.0 bits (59), Expect = 8.2
Identities = 13/66 (19%), Positives = 22/66 (33%)
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTS 221
P P P+ ++ +P P+ V Q P + ++P + N
Sbjct: 61 PEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAP 120
Query: 222 ASLPSP 227
A L S
Sbjct: 121 ARLTSS 126
>1mnn_A NDT80 protein; IG fold, protein_DNA complex, transcription-DNA
complex; 1.40A {Saccharomyces cerevisiae} SCOP: b.2.5.7
PDB: 2evg_A 2euv_A 2euw_A 2etw_A 2eux_A 2evf_A 2euz_A
2evh_A 2evi_A 2evj_A 1mn4_A 1m6u_A 1m7u_A
Length = 340
Score = 30.6 bits (68), Expect = 0.70
Identities = 7/94 (7%), Positives = 21/94 (22%), Gaps = 3/94 (3%)
Query: 164 PHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSAS 223
P P P + ++ ++ + +
Sbjct: 185 PSVCPLVPSPLPKHQTIREASNVRNITKMKKYDSTFYLHRDHVNYEEYGVDSLLFSYPED 244
Query: 224 LPSPLYPWMRSQFE---RKRGRQTYTRYQTLELE 254
+ + R QF + ++ +L +
Sbjct: 245 SIQKVARYERVQFASSISVKKPSQQNKHFSLHVI 278
>2da7_A Zinc finger homeobox protein 1B; homeobox domain, three helices
with the DNA binding helix- turn-helix motif, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 28.2 bits (62), Expect = 0.82
Identities = 10/62 (16%), Positives = 24/62 (38%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEN 297
+ L+ + N ++I+ A+ L + +K WF+ R++ +
Sbjct: 5 SSGSPINPYKDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVYQYSNS 64
Query: 298 KS 299
+S
Sbjct: 65 RS 66
>3gvc_A Oxidoreductase, probable short-chain type dehydrogenase/reductase;
ssgcid, decode, niaid, UWPPG, SBRI, structural genomics;
2.45A {Mycobacterium tuberculosis}
Length = 277
Score = 29.8 bits (68), Expect = 1.0
Identities = 8/23 (34%), Positives = 9/23 (39%)
Query: 158 MNHHPHPHPQQQQPQQPPPQHMM 180
M HH H H + Q P M
Sbjct: 1 MAHHHHHHMGTLEAQTQGPGSMN 23
Score = 27.9 bits (63), Expect = 4.8
Identities = 9/20 (45%), Positives = 9/20 (45%), Gaps = 3/20 (15%)
Query: 152 HHQHHHMNHHPHPHPQQQQP 171
HH HHHM Q Q P
Sbjct: 3 HHHHHHM---GTLEAQTQGP 19
>3d31_C Sulfate/molybdate ABC transporter, permease protein; ATP-binding,
nucleotide-binding, membrane, transmembrane, transport
protein; 3.00A {Methanosarcina acetivorans} SCOP:
f.58.1.1
Length = 295
Score = 29.7 bits (67), Expect = 1.0
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 152 HHQHHHMNHH 161
HH HHH +HH
Sbjct: 3 HHHHHHHHHH 12
Score = 28.5 bits (64), Expect = 3.1
Identities = 8/27 (29%), Positives = 12/27 (44%)
Query: 151 HHHQHHHMNHHPHPHPQQQQPQQPPPQ 177
HHH HHH +H + Q + +
Sbjct: 3 HHHHHHHHHHSSGENLYFQGHMKAKNR 29
>2z6g_A B-catenin; FULL-length, beta-catenin, cell adhesion; 3.40A {Danio
rerio}
Length = 780
Score = 30.0 bits (67), Expect = 1.1
Identities = 10/55 (18%), Positives = 17/55 (30%), Gaps = 2/55 (3%)
Query: 139 PNDLVDPTLNNHHHHQHHHMNHHPH-PHPQQQQPQQPPPQHMMYAQQPPPQHHQV 192
+ +H HHP +P P Q ++ PP +Q+
Sbjct: 720 SGGYGQDAMGMDPMMEHEMAGHHPGPDYPVDGLPDLGHTQDLI-DGLPPGDSNQL 773
>1unl_D Cyclin-dependent kinase 5 activator 1; inhibitor, ATP-analogue,
neurodegen diseases; HET: RRC; 2.2A {Homo sapiens} SCOP:
a.74.1.1 PDB: 1unh_D* 1ung_D*
Length = 208
Score = 29.3 bits (65), Expect = 1.2
Identities = 13/49 (26%), Positives = 21/49 (42%)
Query: 198 QTPPNQPPSQPPNQPPNQQPNNTSASLPSPLYPWMRSQFERKRGRQTYT 246
Q PP QPP+ P +Q Q +S+ +P + ++ Q T
Sbjct: 1 QPPPAQPPAPPASQLSGSQTGGSSSVKKAPHPAVTSAGTPKRVIVQAST 49
>3tla_A MCCF; serine protease, hydrolase; 1.20A {Escherichia coli} PDB:
3tle_A* 3tlg_A 3tlb_A* 3tlc_A* 3tlz_A* 3tly_A
Length = 371
Score = 29.8 bits (67), Expect = 1.2
Identities = 14/38 (36%), Positives = 17/38 (44%), Gaps = 6/38 (15%)
Query: 150 HHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPP 187
HHHH HHH +HH H +HM+ Q P
Sbjct: 3 HHHHHHHHHHHHSSGHIDD------DDKHMLEMIQSHP 34
>3oun_A Putative uncharacterized protein TB39.8; peptidoglycan, Ser/Thr
kinase, pseudokinase, FHA domain, REG phosphorylation;
HET: TPO; 2.71A {Mycobacterium tuberculosis}
Length = 157
Score = 29.1 bits (65), Expect = 1.2
Identities = 11/60 (18%), Positives = 15/60 (25%)
Query: 150 HHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPP 209
HHHH + PQ +P + Y Q P + Q
Sbjct: 6 HHHHHSSGLVPRGSHMPQGGGYAEPAGRDYDYGQSGAPDYGQPAPGGYSGYGQGGYGSAG 65
>2prs_A High-affinity zinc uptake system protein ZNUA; protein consists of
two (beta/ALFA)4 domains, metal transport; 1.70A
{Escherichia coli} PDB: 2osv_A 2ps0_A 2ps3_A 2ps9_A
2ogw_A 2xy4_A* 2xqv_A* 2xh8_A
Length = 284
Score = 29.6 bits (67), Expect = 1.2
Identities = 6/40 (15%), Positives = 10/40 (25%)
Query: 124 LQAAVGNGIIPGPESPNDLVDPTLNNHHHHQHHHMNHHPH 163
+ + D D HHH + + H
Sbjct: 78 IAQLEDVKPLLMKSIHGDDDDHDHAEKSDEDHHHGDFNMH 117
Score = 27.7 bits (62), Expect = 4.5
Identities = 5/43 (11%), Positives = 12/43 (27%)
Query: 123 KLQAAVGNGIIPGPESPNDLVDPTLNNHHHHQHHHMNHHPHPH 165
++ A + P D ++ H + + H
Sbjct: 75 QVTIAQLEDVKPLLMKSIHGDDDDHDHAEKSDEDHHHGDFNMH 117
>4af8_A Metacaspase MCA2; hydrolase, cysteine peptidase, caspase/hemoglobin
fold; 1.40A {Trypanosoma brucei} PDB: 4afp_A 4afv_A
4afr_A
Length = 367
Score = 29.6 bits (65), Expect = 1.3
Identities = 14/90 (15%), Positives = 21/90 (23%)
Query: 153 HQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQP 212
H HHH + P V+ Q QPP +
Sbjct: 5 HHHHHHSSGLVPGGSHMCSLITQLCDAGQLADYVGLGWLNAVSSQPYLVQALGLQPPPRR 64
Query: 213 PNQQPNNTSASLPSPLYPWMRSQFERKRGR 242
+ A PW+ + + R
Sbjct: 65 VDVDAAFRDAKGLHGHQPWVATPLPGQTVR 94
>3oec_A Carveol dehydrogenase (mytha.01326.C, A0R518 HOMO; ssgcid,
structural genomics; 1.95A {Mycobacterium
thermoresistibile}
Length = 317
Score = 29.5 bits (67), Expect = 1.4
Identities = 8/39 (20%), Positives = 10/39 (25%), Gaps = 10/39 (25%)
Query: 152 HHQHHHMN----------HHPHPHPQQQQPQQPPPQHMM 180
HH HHHM P + + M
Sbjct: 3 HHHHHHMGTLEAQTQGPGSMVDPVRRSTRVSARGQGARM 41
>3end_A Light-independent protochlorophyllide reductase iron-sulfur
ATP-binding protein; BCHL, electron donor, DPOR, Fe
protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter
sphaeroides 2} PDB: 3fwy_A*
Length = 307
Score = 29.4 bits (66), Expect = 1.5
Identities = 9/42 (21%), Positives = 11/42 (26%), Gaps = 7/42 (16%)
Query: 150 HHHHQHHHMNHHPHPHPQQ-------QQPQQPPPQHMMYAQQ 184
HHHH HH M Q + A+
Sbjct: 2 HHHHHHHGMGSPKDLTIPTGADGEGSVQVHLDEADKITGAKV 43
>3a4u_B Multiple coagulation factor deficiency protein 2; lectin, ergic,
ER, golgi, transport, disulfide bond, endopla reticulum,
ER-golgi transport; 1.84A {Homo sapiens} PDB: 2vrg_A
3lcp_C
Length = 143
Score = 28.4 bits (63), Expect = 1.5
Identities = 10/41 (24%), Positives = 15/41 (36%)
Query: 152 HHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQV 192
HH HHH +HH H + + + P + V
Sbjct: 3 HHHHHHHHHHSSGHIEGRHMLEEPAASFSQPGSMGLDKNTV 43
Score = 27.6 bits (61), Expect = 3.1
Identities = 7/29 (24%), Positives = 8/29 (27%)
Query: 150 HHHHQHHHMNHHPHPHPQQQQPQQPPPQH 178
HHHH H+ QP
Sbjct: 9 HHHHSSGHIEGRHMLEEPAASFSQPGSMG 37
Score = 27.2 bits (60), Expect = 4.5
Identities = 10/40 (25%), Positives = 13/40 (32%), Gaps = 8/40 (20%)
Query: 148 NNHHHHQHH--------HMNHHPHPHPQQQQPQQPPPQHM 179
++HHHH HH HM P Q +
Sbjct: 4 HHHHHHHHHSSGHIEGRHMLEEPAASFSQPGSMGLDKNTV 43
>1yje_A Orphan nuclear receptor NR4A1; NGFI-B, NUR77, ligand-binding
domain, novel coregulator interface, cell-specific;
2.40A {Rattus norvegicus} PDB: 2qw4_A
Length = 264
Score = 29.0 bits (65), Expect = 1.6
Identities = 14/83 (16%), Positives = 24/83 (28%), Gaps = 13/83 (15%)
Query: 149 NHHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPN--QPPS 206
+ HHH HH P QP P +++ ++ H + PN +
Sbjct: 2 SSHHHHHHSSG--LVPRGSHMQPPDASPTNLL---------TSLIRAHLDSGPNTAKLDY 50
Query: 207 QPPNQPPNQQPNNTSASLPSPLY 229
+ + A Y
Sbjct: 51 SKFQELVLPRFGKEDAGDVQQFY 73
>3qtc_A Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP B
O-methyl tyrosine binding, magnesium binding,
aminoacylatio esterification; HET: 0A1 ANP; 1.75A
{Methanosarcina mazei} PDB: 2q7e_A* 2q7g_A* 2q7h_A*
2zim_A* 2zin_A* 2e3c_A* 2zcd_A* 2zce_A* 2zio_A*
Length = 290
Score = 29.1 bits (65), Expect = 1.7
Identities = 13/115 (11%), Positives = 32/115 (27%), Gaps = 9/115 (7%)
Query: 150 HHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPP 209
HHHH HHH P P + +Q + + +P +
Sbjct: 3 HHHHHHHHGGLVPRGSHGASAPA------LTKSQTDRLEVLLNPKDEISLNSGKPFRELE 56
Query: 210 NQPPNQQPNNTSASLPSPLYPWMRSQFERKR---GRQTYTRYQTLELEKEFHFNR 261
++ +++ + ++ + + ++ L + R
Sbjct: 57 SELLSRRKKDLQQIYAEERENYLGKLEREITRFFVDRGFLEIKSPILIPLEYIER 111
>3njd_A Enoyl-COA hydratase; ssgcid, mycobacerium smegmatis, structu
genomics, seattle structural genomics center for
infectious lyase; 1.75A {Mycobacterium smegmatis} PDB:
3njb_A
Length = 333
Score = 29.4 bits (66), Expect = 1.7
Identities = 10/30 (33%), Positives = 13/30 (43%)
Query: 158 MNHHPHPHPQQQQPQQPPPQHMMYAQQPPP 187
M HH H H + Q P M +A +P
Sbjct: 1 MAHHHHHHMGTLEAQTQGPGSMTHAIRPVD 30
>3b9f_I Protein C inhibitor; michaelis complex, acute phase, blood
coagulation, cleavage of basic residues, disease
mutation; HET: NAG FUC SGN IDS; 1.60A {Homo sapiens}
PDB: 2ol2_A*
Length = 395
Score = 29.1 bits (66), Expect = 1.7
Identities = 10/28 (35%), Positives = 10/28 (35%), Gaps = 2/28 (7%)
Query: 150 HHHHQHHHMNHHPHPHPQQQQPQQPPPQ 177
HHHH HHH HH H
Sbjct: 3 HHHHHHHH--HHSSGHIDDDDKHMVGAT 28
Score = 27.2 bits (61), Expect = 7.1
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 148 NNHHHHQHHHMNHHPHPHPQQQQPQQ 173
++HHHH HHH + H +
Sbjct: 3 HHHHHHHHHHSSGHIDDDDKHMVGAT 28
>3vhu_A Mineralocorticoid receptor; nuclear receptor, transcription factor,
activating mutation, hypertension, antagonist,
spironolactone; HET: SNL; 2.11A {Homo sapiens}
Length = 294
Score = 28.8 bits (64), Expect = 2.2
Identities = 12/66 (18%), Positives = 21/66 (31%), Gaps = 5/66 (7%)
Query: 156 HHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQ-----VVVNHQQTPPNQPPSQPPN 210
HH +HH + + Q P + P + Q V+V P +
Sbjct: 8 HHHHHHENLYFQGSAPAKEPSVNTALVPQLSTISRALTPSPVMVLENIEPEIVYAGYDSS 67
Query: 211 QPPNQQ 216
+P +
Sbjct: 68 KPDTAE 73
>1vjo_A Alanine--glyoxylate aminotransferase; 17130350, ALR1004, STR
genomics, JCSG, PSI, protein structure initiative, joint
CE structural genomics; HET: PLP; 1.70A {Nostoc SP}
SCOP: c.67.1.3
Length = 393
Score = 28.8 bits (65), Expect = 2.2
Identities = 9/32 (28%), Positives = 14/32 (43%), Gaps = 3/32 (9%)
Query: 152 HHQHHHMNHH---PHPHPQQQQPQQPPPQHMM 180
HH HHHM Q +P + P + ++
Sbjct: 7 HHHHHHMAQIISINDNQRLQLEPLEVPSRLLL 38
>1gwm_A NCP1, non-catalytic protein 1; carbohydrate binding domain,
glucomannan, cellohexaose, mannohexaose, cellulosome;
HET: GLC BGC; 1.15A {Piromyces equi} SCOP: b.18.1.19
PDB: 1gwk_A* 1gwl_A* 1w90_A 1w8t_A* 1w8u_A* 1w8w_A
1w8z_A 1w9f_A 1oh3_A*
Length = 153
Score = 28.1 bits (62), Expect = 2.4
Identities = 16/40 (40%), Positives = 20/40 (50%), Gaps = 8/40 (20%)
Query: 124 LQAAVGNG-------IIPGPESPNDLVDPTLNNHHHHQHH 156
Q A GNG ++ S +D VDP +N HHH HH
Sbjct: 115 FQDAPGNGDRIWIKNLVHSTGSADDFVDP-INLEHHHHHH 153
>3bbn_U Ribosomal protein S21; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 190
Score = 28.3 bits (62), Expect = 2.4
Identities = 16/63 (25%), Positives = 22/63 (34%), Gaps = 1/63 (1%)
Query: 170 QPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSASLPSPLY 229
+P P P A P P +H + + P Q PN SA L S +
Sbjct: 22 KPPPPKPHQPFIASSPSPSNHAAPQFQTLKSRDGSVALNPQQGPNHS-EPLSAELASVIC 80
Query: 230 PWM 232
P +
Sbjct: 81 PSL 83
>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase,
wild type, viral protein; 2.38A {Sindbis virus} SCOP:
b.47.1.3 PDB: 1ld4_A 3j0f_A
Length = 264
Score = 28.6 bits (63), Expect = 2.4
Identities = 15/80 (18%), Positives = 22/80 (27%)
Query: 164 PHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSAS 223
+Q P QQ +V+ P N P PP Q
Sbjct: 24 RRRRQAAPMPARNGLASQIQQLTTAVSALVIGQATRPQNPRPRPPPRQKKQAPKQPPKPK 83
Query: 224 LPSPLYPWMRSQFERKRGRQ 243
P P + + K G++
Sbjct: 84 KPKPQEKKKKQPAKTKPGKR 103
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici
SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens}
PDB: 3cw1_A
Length = 231
Score = 28.5 bits (63), Expect = 2.4
Identities = 10/66 (15%), Positives = 13/66 (19%)
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTS 221
P Q+ PPP + P P P P +
Sbjct: 152 AAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGPPMGIPPGRGT 211
Query: 222 ASLPSP 227
P
Sbjct: 212 PMGMPP 217
Score = 26.5 bits (58), Expect = 9.6
Identities = 8/66 (12%), Positives = 11/66 (16%)
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTS 221
P Q + A + PP P P
Sbjct: 137 PSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMR 196
Query: 222 ASLPSP 227
+ P
Sbjct: 197 PPMGPP 202
>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP
replication, DNA-binding, hydrolase, nucleotide-B SOS
response; HET: DNA; 1.80A {Escherichia coli} PDB:
2is6_A* 2is2_A* 2is1_A* 2is4_A*
Length = 647
Score = 29.0 bits (66), Expect = 2.5
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 8/27 (29%)
Query: 65 HGMPY-----PRFPPYDRMDIRNA-AY 85
MPY RF ++R +I++A +Y
Sbjct: 370 ASMPYRIYGGMRF--FERQEIKDALSY 394
>4a8j_C Elongator complex protein 6; transcription; 2.10A {Saccharomyces
cerevisiae} PDB: 4ejs_C
Length = 280
Score = 28.5 bits (63), Expect = 2.5
Identities = 17/57 (29%), Positives = 20/57 (35%), Gaps = 14/57 (24%)
Query: 152 HHQHHHMNHHPHPHPQQQ-----QPQQPPPQHMMYAQQPPPQHHQVVVNHQQ-TPPN 202
HH HHHM Q+Q Q P H Q H+ + HQ T P
Sbjct: 2 HHHHHHMGSV-----QRQDLVLFSDQSVLPAHFF---QDSNSHNLFFITHQSCTQPL 50
>3hht_A NitrIle hydratase alpha subunit; alpha and beta proteins (A+B),
lyase; 1.16A {Geobacillus pallidus} PDB: 2dpp_A 1v29_A
Length = 216
Score = 28.1 bits (62), Expect = 3.2
Identities = 5/19 (26%), Positives = 6/19 (31%)
Query: 149 NHHHHQHHHMNHHPHPHPQ 167
+ H HP PQ
Sbjct: 4 GQKNTNIDPRFPHHHPRPQ 22
Score = 26.5 bits (58), Expect = 9.2
Identities = 4/17 (23%), Positives = 7/17 (41%)
Query: 148 NNHHHHQHHHMNHHPHP 164
+ + +HHP P
Sbjct: 5 QKNTNIDPRFPHHHPRP 21
>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 = 26.5 bits (58), Expect = 3.3
Identities = 10/62 (16%), Positives = 20/62 (32%), Gaps = 4/62 (6%)
Query: 238 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALC----LTERQIKIWFQNRRMKW 293
KR R +T Q ++ + ++ C + + +KIW N +
Sbjct: 17 TKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETGVRRQVLKIWMHNNKNSG 76
Query: 294 KK 295
Sbjct: 77 PS 78
>1pq4_A Periplasmic binding protein component of AN ABC T uptake
transporter; ZNUA, loop, metal-binding, metal binding
protein; 1.90A {Synechocystis SP} SCOP: c.92.2.2 PDB:
2ov3_A 2ov1_A
Length = 291
Score = 28.1 bits (63), Expect = 3.5
Identities = 3/14 (21%), Positives = 4/14 (28%)
Query: 150 HHHHQHHHMNHHPH 163
+ M PH
Sbjct: 120 KEKAKGALMVADPH 133
Score = 27.4 bits (61), Expect = 6.2
Identities = 2/16 (12%), Positives = 2/16 (12%)
Query: 150 HHHHQHHHMNHHPHPH 165
H H
Sbjct: 112 HDHGSESEKEKAKGAL 127
Score = 27.0 bits (60), Expect = 7.4
Identities = 8/38 (21%), Positives = 10/38 (26%)
Query: 128 VGNGIIPGPESPNDLVDPTLNNHHHHQHHHMNHHPHPH 165
GI P +D H H H +H
Sbjct: 82 SAQGITPLEMEKHDHSHGEEEGHDDHSHDGHDHGSESE 119
>2p0u_A Stilbenecarboxylate synthase 2; polyketide synthase, PKS type
transferase; 1.90A {Marchantia polymorpha}
Length = 413
Score = 28.4 bits (63), Expect = 3.6
Identities = 8/30 (26%), Positives = 11/30 (36%), Gaps = 3/30 (10%)
Query: 150 HHHHQHHH---MNHHPHPHPQQQQPQQPPP 176
HHHH HHH + H + +
Sbjct: 3 HHHHHHHHGGLVPRGSHGGSSRSRLIAQAV 32
>3di5_A DINB-like protein; structural genomics, joint center for structural
genomics, J protein structure initiative, PSI-2; HET:
MSE; 2.01A {Bacillus cereus atcc 10987}
Length = 168
Score = 27.6 bits (61), Expect = 3.7
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 24 HQQHHYG-ATVLPQNNGVEDPSMYDP 48
HQ HH G TVL + G+ P +Y P
Sbjct: 128 HQNHHRGQMTVLMRQAGLTVPGVYGP 153
>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition,
ATP-binding, DNA- cell division, DNA translocation,
KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas
aeruginosa} PDB: 2iuu_A*
Length = 574
Score = 28.1 bits (63), Expect = 4.1
Identities = 7/65 (10%), Positives = 15/65 (23%)
Query: 162 PHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTS 221
++ ++ M ++ P + P Q P
Sbjct: 8 QSKAKERLLEREEALAKHMSEREKRPPPKIDPPPSPKAPEPSKRVLKEKQAPLFVDTAVE 67
Query: 222 ASLPS 226
+LP
Sbjct: 68 GTLPP 72
>2c07_A 3-oxoacyl-(acyl-carrier protein) reductase; oxidoreductase, FABG,
short-chain alcohol reductase, fatty acid biosynthesis,
apicoplast; 1.5A {Plasmodium falciparum} SCOP: c.2.1.2
Length = 285
Score = 27.9 bits (63), Expect = 4.2
Identities = 10/16 (62%), Positives = 10/16 (62%), Gaps = 2/16 (12%)
Query: 150 HHHHQHHHMNHHPHPH 165
HHHH HHH HH H
Sbjct: 3 HHHHHHHH--HHSSGH 16
Score = 27.9 bits (63), Expect = 4.4
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 148 NNHHHHQHHHMNHH 161
++HHHH HHH + H
Sbjct: 3 HHHHHHHHHHSSGH 16
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast
structural genomics CON PSI-biology, transcription; NMR
{Homo sapiens}
Length = 89
Score = 26.3 bits (58), Expect = 4.3
Identities = 12/59 (20%), Positives = 24/59 (40%)
Query: 258 HFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKENKSKDGGSDAGSDITPATSP 316
+N Y + + + ++ L+ Q+ WF N R + + KDG I+ +
Sbjct: 28 RYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPDMLRKDGKDPNQFTISRRGAK 86
>2qhx_A Pteridine reductase 1; oxidoreductase, short-chain
dehydrogenase/reductase, trypanosomatid, pterin salvage,
drug resistance; HET: NAP FE1; 2.61A {Leishmania major}
SCOP: c.2.1.2
Length = 328
Score = 27.8 bits (62), Expect = 4.3
Identities = 10/38 (26%), Positives = 11/38 (28%), Gaps = 9/38 (23%)
Query: 152 HHQHHHMN---------HHPHPHPQQQQPQQPPPQHMM 180
HH HHH + H H P HM
Sbjct: 5 HHHHHHSSGLVPRGSHMGSSHHHHHHSSGLVPRGSHMT 42
>3dzy_D Peroxisome proliferator-activated receptor gamma; DNA-binding,
HOST-virus interaction, metal-binding, nucleus,
receptor, transcription, transcription regulation,
zinc-FIN activator; HET: DNA REA BRL; 3.10A {Homo
sapiens} PDB: 3dzu_D* 3e00_D* 2env_A
Length = 419
Score = 28.1 bits (62), Expect = 4.3
Identities = 9/39 (23%), Positives = 13/39 (33%)
Query: 150 HHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQ 188
HHHH H + + + +P PP P
Sbjct: 3 HHHHHHVDDDDKMYQSAIKVEPASPPYYSEKTQLYNKPH 41
Score = 27.0 bits (59), Expect = 9.7
Identities = 10/56 (17%), Positives = 14/56 (25%), Gaps = 5/56 (8%)
Query: 154 QHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPP 209
HHH +H Q + P A P + N P+
Sbjct: 2 AHHHHHHVDDDDKMYQSAIKVEP-----ASPPYYSEKTQLYNKPHEEPSNSLMAIE 52
>3k3p_A D-alanine--D-alanine ligase; D-alanyl-alanine synthetase,
ATP-binding, cell shape, cell W biogenesis/degradation,
magnesium, manganese; 2.23A {Streptococcus mutans}
Length = 383
Score = 28.0 bits (63), Expect = 4.4
Identities = 8/26 (30%), Positives = 10/26 (38%)
Query: 159 NHHPHPHPQQQQPQQPPPQHMMYAQQ 184
+HH H H P+ M QQ
Sbjct: 4 SHHHHHHSSGLVPRGSHMASMTGGQQ 29
>3gzx_A Biphenyl dioxygenase subunit alpha; rieskie, non-heme iron, 2Fe-2S,
aromatic hydroc catabolism, iron, iron-sulfur,
metal-binding, NAD; HET: BNL MES; 1.58A {Comamonas
testosteroni} PDB: 3gzy_A* 1wql_A 2xso_A 2xsh_A 2xrx_A*
2xr8_A* 2yfi_A 2yfj_A*
Length = 457
Score = 27.9 bits (62), Expect = 5.0
Identities = 9/91 (9%), Positives = 21/91 (23%)
Query: 23 HHQQHHYGATVLPQNNGVEDPSMYDPRQVHHYGQVPNNGQPVHGMPYPRFPPYDRMDIRN 82
H + + VL D + + + + G + +
Sbjct: 233 HAGTMSHLSGVLAGLPPEMDLTQIQLSKNGNQFRSAWGGHGAGWFINDSSILLSVVGPKI 292
Query: 83 AAYYGAHEGGMEQYPRPDSPSMGHMGPQNGH 113
Y+ + R + M Q+
Sbjct: 293 TQYWTQGPAAEKAARRVPQLPILDMFGQHMT 323
>2h21_A Ribulose-1,5 bisphosphate carboxylase/oxygenase; SET domain,
protein lysine methyltransferase, transferase; HET: SAM;
2.45A {Pisum sativum} SCOP: a.166.1.1 b.85.7.3 PDB:
2h23_A* 2h2e_A* 2h2j_A* 1p0y_A* 1ozv_A* 1mlv_A*
Length = 440
Score = 27.9 bits (61), Expect = 5.0
Identities = 6/58 (10%), Positives = 13/58 (22%)
Query: 145 PTLNNHHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPN 202
P + +H H + + + QV + + N
Sbjct: 188 PMADLINHSAGVTTEDHAYEVKGAAGLFSWDYLFSLKSPLSVKAGEQVYIQYDLNKSN 245
>4f6o_A Metacaspase-1; rossmann fold, hydrolase; HET: DFH; 1.68A
{Saccharomyces cerevisiae}
Length = 350
Score = 27.6 bits (60), Expect = 5.3
Identities = 8/56 (14%), Positives = 15/56 (26%), Gaps = 5/56 (8%)
Query: 168 QQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQPPNQPPNQQPNNTSAS 223
+Q Q + P + + Q PP Q +Q + +
Sbjct: 1 EQAKAQLSNGY-----NNPNVNASNMYGPPQNMSLPPPQTQTIQGTDQPYQYSQCT 51
>3dka_A DINB-like protein; DINB/YFIT-like putative metalloenzyme fold,
structural genom joint center for structural genomics,
JCSG; 2.30A {Bacillus subtilis}
Length = 155
Score = 27.1 bits (60), Expect = 5.7
Identities = 8/27 (29%), Positives = 11/27 (40%), Gaps = 1/27 (3%)
Query: 24 HQQHHYG-ATVLPQNNGVEDPSMYDPR 49
H+ HH G V + G + Y R
Sbjct: 128 HEIHHKGNLFVYVREMGHTELPFYQQR 154
>3s5s_A Mandelate racemase/muconate lactonizing enzyme FA protein;
PSI-biology, structural genomics, NEW YORK structural
genomi research consortium; 2.40A {Sorangium cellulosum}
Length = 389
Score = 27.7 bits (62), Expect = 6.2
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 129 GNGIIPGPESPNDLVDPTLNNHHHHQHHHMNH 160
G+G+ P SP + HHH HHH +H
Sbjct: 354 GHGVTPQRRSPAAGAENLYFQSHHH-HHHWSH 384
>4g1k_A Triosephosphate isomerase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid, TIM
barrel, TPIA; 2.35A {Burkholderia thailandensis}
Length = 272
Score = 27.2 bits (61), Expect = 6.4
Identities = 8/28 (28%), Positives = 10/28 (35%)
Query: 158 MNHHPHPHPQQQQPQQPPPQHMMYAQQP 185
M HH H H + Q P M +
Sbjct: 1 MAHHHHHHMGTLEAQTQGPGSMSKQRIK 28
>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA
complex, RNA binding protein/RNA complex; NMR {Homo
sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A
Length = 229
Score = 27.3 bits (60), Expect = 6.7
Identities = 6/36 (16%), Positives = 12/36 (33%)
Query: 160 HHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVN 195
HH H H P+ + + ++V+
Sbjct: 5 HHHHHHSSGLVPRGSHMGRIAIPGLAGAGNSVLLVS 40
>3tav_A Methionine aminopeptidase; ssgcid, seattle structural genomics
center for infectious DI protease, hydrolase; 2.15A
{Mycobacterium abscessus}
Length = 286
Score = 27.2 bits (61), Expect = 6.8
Identities = 6/29 (20%), Positives = 7/29 (24%)
Query: 152 HHQHHHMNHHPHPHPQQQQPQQPPPQHMM 180
HH HHHM +
Sbjct: 3 HHHHHHMGTLEAQTQGPGSMVGLFGRKKT 31
>2ghs_A AGR_C_1268P; regucalcin, structural genomics, joint center for
structural genomics, JCSG, protein structure initiative,
PSI-2; 1.55A {Agrobacterium tumefaciens str} SCOP:
b.68.6.1
Length = 326
Score = 27.3 bits (61), Expect = 7.1
Identities = 8/30 (26%), Positives = 10/30 (33%)
Query: 151 HHHQHHHMNHHPHPHPQQQQPQQPPPQHMM 180
HHH HH H P Q + +
Sbjct: 7 HHHHHHMNAPLSHSRPMMQPSEDKSLATVF 36
>3kmr_A Retinoic acid receptor alpha; nuclear receptor transcription factor
ligand binding domain, binding, metal-binding, nucleus,
phosphoprotein; HET: EQN; 1.80A {Homo sapiens} PDB:
3kmz_B* 3a9e_B* 4dm6_A* 1xap_A* 4dm8_A* 2lbd_A* 3lbd_A*
4lbd_A*
Length = 266
Score = 27.0 bits (60), Expect = 7.2
Identities = 8/64 (12%), Positives = 15/64 (23%), Gaps = 5/64 (7%)
Query: 153 HQHHHMNHHPHPHPQQQQPQQPPPQHMM-----YAQQPPPQHHQVVVNHQQTPPNQPPSQ 207
H HHH + P + P + A Q + + ++
Sbjct: 5 HHHHHHSSGLVPRGSHESYTLTPEVGELIEKVRKAHQETFPALCQLGKYTTNNSSEQRVS 64
Query: 208 PPNQ 211
Sbjct: 65 LDID 68
>3t7c_A Carveol dehydrogenase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid; HET:
NAD; 1.95A {Mycobacterium avium}
Length = 299
Score = 27.2 bits (61), Expect = 7.5
Identities = 9/29 (31%), Positives = 10/29 (34%), Gaps = 8/29 (27%)
Query: 152 HHQHHHMNHHPHPHPQQQQPQQPPPQHMM 180
HH HHHM + Q P M
Sbjct: 3 HHHHHHMG--------TLEAQTQGPGSMA 23
>1rzw_A Protein AF2095(GR4); beta-sheet of 4 parallel, anti-parallel
beta-strands and 3 alpha-helices, structural genomics,
PSI; NMR {Archaeoglobus fulgidus} SCOP: c.131.1.1 PDB:
3erj_A
Length = 123
Score = 26.3 bits (58), Expect = 7.8
Identities = 10/32 (31%), Positives = 11/32 (34%), Gaps = 9/32 (28%)
Query: 131 GIIPGPESPNDLVDP------TLNNHHHHQHH 156
I P E +D L HHH HH
Sbjct: 95 VIGPDEE---RKIDKVTGNLPLLKLEHHHHHH 123
>2vu4_A Oxygen-evolving enhancer protein 2; kDa protein, transit peptide,
higher plants, photosynthes photosystem II, membrane,
thylakoid, chloroplast; 1.98A {Spinacia oleracea}
Length = 273
Score = 27.0 bits (58), Expect = 7.9
Identities = 14/60 (23%), Positives = 19/60 (31%), Gaps = 3/60 (5%)
Query: 152 HHQHHHM---NHHPHPHPQQQQPQQPPPQHMMYAQQPPPQHHQVVVNHQQTPPNQPPSQP 208
HH HHHM H H P Q + +Q+V Q+ N+
Sbjct: 1 HHHHHHMASTACFLHHHAAISSPAAGRGSAAQRYQAVSIKPNQIVCKAQKQDDNEANVLN 60
>3u0g_A Putative branched-chain amino acid aminotransfera; structural
genomics, seattle structural genomics center for
infectious disease; 1.90A {Burkholderia pseudomallei}
Length = 328
Score = 27.2 bits (61), Expect = 7.9
Identities = 9/27 (33%), Positives = 11/27 (40%)
Query: 158 MNHHPHPHPQQQQPQQPPPQHMMYAQQ 184
M HH H H + Q P M A +
Sbjct: 1 MAHHHHHHMGTLEAQTQGPGSMSMADR 27
>3uw2_A Phosphoglucomutase/phosphomannomutase family PROT; structural
genomics, seattle structural genomics center for
infectious disease; 1.95A {Burkholderia thailandensis}
Length = 485
Score = 27.2 bits (61), Expect = 7.9
Identities = 8/23 (34%), Positives = 10/23 (43%)
Query: 158 MNHHPHPHPQQQQPQQPPPQHMM 180
M HH H H + Q P M+
Sbjct: 1 MAHHHHHHMGTLEAQTQGPGSMI 23
>3oix_A Putative dihydroorotate dehydrogenase; dihydrooro oxidase; TIM
barrel, oxidoreductase; HET: MLY FMN; 2.40A
{Streptococcus mutans}
Length = 345
Score = 27.1 bits (60), Expect = 8.0
Identities = 7/32 (21%), Positives = 10/32 (31%)
Query: 149 NHHHHQHHHMNHHPHPHPQQQQPQQPPPQHMM 180
+HHHH + QQ M+
Sbjct: 5 HHHHHHSSGLVPRGSHMASMTGGQQMGRGSMV 36
>3sde_A Paraspeckle component 1; RRM, anti parallel right handed
coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A
{Homo sapiens} PDB: 3sde_B
Length = 261
Score = 27.0 bits (60), Expect = 8.5
Identities = 4/38 (10%), Positives = 10/38 (26%)
Query: 147 LNNHHHHQHHHMNHHPHPHPQQQQPQQPPPQHMMYAQQ 184
L + + P+ QP ++ +
Sbjct: 185 LPEKLMQKTQQYHKEREQPPRFAQPGTFEFEYASRWKA 222
>3r3s_A Oxidoreductase; structural genomics, csgid, center for structural
genomics O infectious diseases, 3-layer(ABA) sandwich,
rossmann fold; HET: NAD; 1.25A {Salmonella enterica
subsp}
Length = 294
Score = 27.1 bits (61), Expect = 8.6
Identities = 6/32 (18%), Positives = 9/32 (28%), Gaps = 3/32 (9%)
Query: 158 MNHHPHPHPQQQQPQQPPPQHMMYAQQPPPQH 189
+ +Q+ P Q M P P
Sbjct: 8 TTQYYTGEYPKQKQPAPGVQAKM---TPVPDC 36
>3pff_A ATP-citrate synthase; phosphohistidine, organic acid, ATP-grAsp,
lyase, transferas; HET: TLA ADP; 2.30A {Homo sapiens}
Length = 829
Score = 27.1 bits (60), Expect = 9.0
Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 124 LQAAVGNGII-PGPESPNDLVDPTLNNHHHH 153
+ V NG+I P E P L ++HHHH
Sbjct: 801 YEDLVANGVIVPAQEVPAALEH--HHHHHHH 829
>2fim_A Tubby related protein 1; tubby filled-barrel, beta-barrel,
filled-beta-roll, 12-stran barrel, helix-filled-barrel,
retinitis pigmentosa; HET: 3DP; 1.90A {Homo sapiens}
PDB: 1s31_A*
Length = 276
Score = 27.1 bits (59), Expect = 9.1
Identities = 10/80 (12%), Positives = 23/80 (28%)
Query: 194 VNHQQTPPNQPPSQPPNQPPNQQPNNTSASLPSPLYPWMRSQFERKRGRQTYTRYQTLEL 253
++H + N P+P +R + R + Y + L
Sbjct: 1 MHHHHHHSSGVDLGTENLYFQSMEPREFVLRPAPQGRTVRCRLTRDKKGMDRGMYPSYFL 60
Query: 254 EKEFHFNRYLTRRRRIEIAH 273
+ +L R+ + +
Sbjct: 61 HLDTEKKVFLLAGRKRKRSK 80
>3cx3_A Lipoprotein; zinc-binding, transport, lipid binding protein, metal
binding protein; 2.40A {Streptococcus pneumoniae}
Length = 284
Score = 26.9 bits (60), Expect = 9.2
Identities = 2/16 (12%), Positives = 2/16 (12%)
Query: 150 HHHHQHHHMNHHPHPH 165
PH
Sbjct: 105 VEAGDGVDEKTLYDPH 120
>3sgw_A Ribose 5-phosphate isomerase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, valley fever; 1.70A {Coccidioides immitis} PDB:
3sdw_A 3qd5_A*
Length = 184
Score = 26.5 bits (59), Expect = 9.4
Identities = 9/28 (32%), Positives = 10/28 (35%), Gaps = 3/28 (10%)
Query: 152 HHQHHHMNHHPHPHPQQQQPQQPPPQHM 179
HH HHHM Q Q P +
Sbjct: 3 HHHHHHMGTLE---AQTQGPGSMAATPL 27
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
0.315 0.133 0.432
Gapped
Lambda K H
0.267 0.0792 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,559,519
Number of extensions: 360562
Number of successful extensions: 4512
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3940
Number of HSP's successfully gapped: 379
Length of query: 317
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 223
Effective length of database: 4,077,219
Effective search space: 909219837
Effective search space used: 909219837
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: 57 (25.6 bits)