RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1937
(307 letters)
>2crj_A SWI/SNF-related matrix-associated actin- dependent regulator of
chromatin subfamily...; structural DNA-binding protein
BRAF35, DNA-bending; NMR {Mus musculus}
Length = 92
Score = 75.1 bits (185), Expect = 2e-17
Identities = 19/65 (29%), Positives = 36/65 (55%)
Query: 81 GPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVED 140
G P+ P+ Y+R+ + +Q++ ++ DL EI K++G W L +K Y+++
Sbjct: 1 GSSGSSGPKAPVTGYVRFLNERREQIRTRHPDLPFPEITKMLGAEWSKLQPAEKQRYLDE 60
Query: 141 YEQEK 145
E+EK
Sbjct: 61 AEKEK 65
>1k99_A Upstream binding factor 1; alpha-helix, L-shape, DNA binding
protein; NMR {Homo sapiens} SCOP: a.21.1.1
Length = 99
Score = 68.6 bits (168), Expect = 4e-15
Identities = 19/66 (28%), Positives = 41/66 (62%)
Query: 80 RGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVE 139
+ K P P+KPL PY R+ + + + ++ ++ KI+ + +++LPE +K +Y++
Sbjct: 3 KLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPEKKKMKYIQ 62
Query: 140 DYEQEK 145
D+++EK
Sbjct: 63 DFQREK 68
>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box
domain, structural genomics, NPPSFA; NMR {Mus musculus}
Length = 102
Score = 67.8 bits (166), Expect = 1e-14
Identities = 22/66 (33%), Positives = 32/66 (48%)
Query: 80 RGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVE 139
+ K P P+KP+ Y + R +K QN + E+ KI+ MW L E+QK Y +
Sbjct: 10 KKKKDPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLGEEQKQVYKK 69
Query: 140 DYEQEK 145
E K
Sbjct: 70 KTEAAK 75
>1cg7_A Protein (NON histone protein 6 A); HMG BOX, DNA bending, DNA
recognition, chromatin, DNA binding protein; NMR
{Saccharomyces cerevisiae} SCOP: a.21.1.1 PDB: 1j5n_A
1lwm_A
Length = 93
Score = 62.3 bits (152), Expect = 8e-13
Identities = 20/70 (28%), Positives = 38/70 (54%)
Query: 76 KTDGRGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKT 135
K R K P P++ L YM ++ + D V+++N D+ ++GK +G+ W+ L ++K
Sbjct: 9 KRTTRKKKDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALTPEEKQ 68
Query: 136 EYVEDYEQEK 145
Y + +K
Sbjct: 69 PYEAKAQADK 78
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 92
Score = 60.1 bits (146), Expect = 5e-12
Identities = 13/65 (20%), Positives = 27/65 (41%)
Query: 81 GPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVED 140
G +KP+ + + Q +N L + I ++W+ L E++K +Y E
Sbjct: 1 GSSGSSGIKKPMSASALFVQDHRPQFLIENPKTSLEDATLQIEELWKTLSEEEKLKYEEK 60
Query: 141 YEQEK 145
++
Sbjct: 61 ATKDL 65
>1hme_A High mobility group protein fragment-B; DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1 PDB: 1hmf_A 1nhm_A 1nhn_A
1hsm_A 1hsn_A 1j3c_A 1j3d_A 2yqi_A
Length = 77
Score = 58.8 bits (143), Expect = 1e-11
Identities = 14/63 (22%), Positives = 31/63 (49%)
Query: 83 KAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYE 142
K P P++P + + + ++K ++ L + ++ K +G+MW + D K Y +
Sbjct: 2 KDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAA 61
Query: 143 QEK 145
+ K
Sbjct: 62 KLK 64
>2eqz_A High mobility group protein B3; HMG-box domain, mobility group
protein 2A, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 86
Score = 58.5 bits (142), Expect = 2e-11
Identities = 13/74 (17%), Positives = 35/74 (47%), Gaps = 2/74 (2%)
Query: 74 TAKTDGRGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKL--WEIGKIIGQMWRDLPE 131
++ + G PK P+ + Y + + ++ K +N ++ + E K + W+ +
Sbjct: 2 SSGSSGMAKGDPKKPKGKMSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMSG 61
Query: 132 DQKTEYVEDYEQEK 145
+K+++ E + +K
Sbjct: 62 KEKSKFDEMAKADK 75
>3tq6_A Transcription factor A, mitochondrial; transcription, transcription
regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo
sapiens}
Length = 214
Score = 61.3 bits (148), Expect = 2e-11
Identities = 23/66 (34%), Positives = 35/66 (53%)
Query: 80 RGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVE 139
P+KP+ Y+R+S++ KAQN D K E+ + I Q WR+LP+ +K Y +
Sbjct: 2 GSSVLASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELPDSKKKIYQD 61
Query: 140 DYEQEK 145
Y E
Sbjct: 62 AYRAEW 67
Score = 45.5 bits (107), Expect = 6e-06
Identities = 13/91 (14%), Positives = 34/91 (37%), Gaps = 4/91 (4%)
Query: 55 MHQHCQRVSRRGNVSQKMLTAKTDGRGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLK 114
+ + A T + P++P Y Y + + + K +
Sbjct: 82 TPSQIMSLEKEIMDKHLKRKAMTKKKELTLLGKPKRPRSAYNVYVAERFQEAKGDSPQ-- 139
Query: 115 LWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
E K + + W++L + +K Y++ ++++
Sbjct: 140 --EKLKTVKENWKNLSDSEKELYIQHAKEDE 168
>3tmm_A Transcription factor A, mitochondrial; HMG, high mobility group,
transcription, LSP1, mitochon transcription-DNA complex;
HET: DNA; 2.50A {Homo sapiens}
Length = 238
Score = 61.4 bits (148), Expect = 3e-11
Identities = 31/92 (33%), Positives = 46/92 (50%), Gaps = 2/92 (2%)
Query: 56 HQHCQRVSRRGNVSQKMLTAKTDGRG--PKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDL 113
H H + RG+ M + GRG P+KP+ Y+R+S++ KAQN D
Sbjct: 8 HHHSSGLVPRGSHMASMTGGQQMGRGSSSVLASCPKKPVSSYLRFSKEQLPIFKAQNPDA 67
Query: 114 KLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
K E+ + I Q WR+LP+ +K Y + Y E
Sbjct: 68 KTTELIRRIAQRWRELPDSKKKIYQDAYRAEW 99
Score = 47.9 bits (113), Expect = 1e-06
Identities = 13/91 (14%), Positives = 34/91 (37%), Gaps = 4/91 (4%)
Query: 55 MHQHCQRVSRRGNVSQKMLTAKTDGRGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLK 114
+ + A T + P++P Y Y + + + K +
Sbjct: 114 TPSQIMSLEKEIMDKHLKRKAMTKKKELTLLGKPKRPRSAYNVYVAERFQEAKGDSPQ-- 171
Query: 115 LWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
E K + + W++L + +K Y++ ++++
Sbjct: 172 --EKLKTVKENWKNLSDSEKELYIQHAKEDE 200
>2yrq_A High mobility group protein B1; HMG box domain, DNA binding,
helix-turn-helix motif, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 173
Score = 58.9 bits (142), Expect = 8e-11
Identities = 17/99 (17%), Positives = 38/99 (38%), Gaps = 3/99 (3%)
Query: 47 KRQVQSLTMHQHCQRVSRRGNVSQKMLTAKTDGRGPKAPKPPEKPLMPYMRYSRKVWDQV 106
K + + + + K + P APK +P + + + ++
Sbjct: 64 KGKFEDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPK---RPPSAFFLFCSEYRPKI 120
Query: 107 KAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
K ++ L + ++ K +G+MW + D K Y + + K
Sbjct: 121 KGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLK 159
Score = 49.6 bits (118), Expect = 1e-07
Identities = 13/75 (17%), Positives = 33/75 (44%), Gaps = 2/75 (2%)
Query: 74 TAKTDGRGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLW--EIGKIIGQMWRDLPE 131
++ + G G PK P + Y + + ++ K ++ D + E K + W+ +
Sbjct: 2 SSGSSGMGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSA 61
Query: 132 DQKTEYVEDYEQEKN 146
+K ++ + + +K
Sbjct: 62 KEKGKFEDMAKADKA 76
>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1
Length = 83
Score = 55.8 bits (135), Expect = 1e-10
Identities = 12/67 (17%), Positives = 29/67 (43%), Gaps = 2/67 (2%)
Query: 81 GPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLW--EIGKIIGQMWRDLPEDQKTEYV 138
G PK P + Y + + ++ K ++ D + E K + W+ + +K ++
Sbjct: 1 GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFE 60
Query: 139 EDYEQEK 145
+ + +K
Sbjct: 61 DMAKADK 67
>1wgf_A Upstream binding factor 1; transcription factor, DNA binding,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: a.21.1.1
Length = 90
Score = 55.1 bits (133), Expect = 4e-10
Identities = 15/71 (21%), Positives = 33/71 (46%)
Query: 75 AKTDGRGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQK 134
+ G + P++P+ +S + Q++ + +L E+ +++ +MW DL E +K
Sbjct: 8 KPSQEGGKGGSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSEKKK 67
Query: 135 TEYVEDYEQEK 145
+Y K
Sbjct: 68 AKYKAREAALK 78
>3nm9_A HMG-D, high mobility group protein D; DNA bending,
non-sequence-specific, HMG chromosomal protein; HET:
DNA; 2.85A {Drosophila melanogaster} PDB: 1e7j_A* 1hma_A
1qrv_A*
Length = 73
Score = 52.7 bits (127), Expect = 1e-09
Identities = 15/58 (25%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 88 PEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
P++PL Y + + +K +N +K+ E+ K G++WR + K+E+ + K
Sbjct: 4 PKRPLSAYALWLNSARESIKRENPGIKVTEVAKRGGELWRAM--KDKSEWEAKAAKAK 59
>2lhj_A High mobility group protein homolog NHP1; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; NMR {Babesia bovis}
Length = 97
Score = 52.4 bits (126), Expect = 3e-09
Identities = 17/79 (21%), Positives = 40/79 (50%), Gaps = 2/79 (2%)
Query: 69 SQKMLTAKTDGRGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDL--KLWEIGKIIGQMW 126
+ + + K P P++ L YM ++++ ++ A+N ++ + IGK+IG W
Sbjct: 4 ASDRTGVRRPRKAKKDPNAPKRALSSYMFFAKEKRVEIIAENPEIAKDVAAIGKMIGAAW 63
Query: 127 RDLPEDQKTEYVEDYEQEK 145
L +++K Y ++++
Sbjct: 64 NALSDEEKKPYERMSDEDR 82
>1ckt_A High mobility group 1 protein; high-mobility group domain, BENT
DNA, protein-drug-DNA compl regulation-DNA complex; HET:
DNA 5IU; 2.50A {Rattus norvegicus} SCOP: a.21.1.1 PDB:
1j3x_A
Length = 71
Score = 51.6 bits (124), Expect = 4e-09
Identities = 9/60 (15%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 88 PEKPLMPYMRYSRKVWDQVKAQNLDLKL--WEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
P + Y + + ++ K ++ D + E K + W+ + +K ++ + + +K
Sbjct: 2 PRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADK 61
>1wxl_A Single-strand recognition protein; FACT, SSRP1, HMG, DNA binding
protein; NMR {Drosophila melanogaster}
Length = 73
Score = 51.5 bits (124), Expect = 4e-09
Identities = 14/58 (24%), Positives = 33/58 (56%), Gaps = 2/58 (3%)
Query: 88 PEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
P++ +M + + +K +N +K+ EI K G+MW++L + K+++ + ++K
Sbjct: 4 PKRATTAFMLWLNDTRESIKRENPGIKVTEIAKKGGEMWKELKD--KSKWEDAAAKDK 59
>3fgh_A Transcription factor A, mitochondrial; HMG domain, mitochondrial
transcription, activator, DNA- binding, mitochondrion,
phosphoprotein; 1.35A {Homo sapiens}
Length = 67
Score = 48.4 bits (116), Expect = 4e-08
Identities = 11/58 (18%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 88 PEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
P++P Y Y + + + K + E K + + W++L + +K Y++ ++++
Sbjct: 3 PKRPRSAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLSDSEKELYIQHAKEDE 56
>1v63_A Nucleolar transcription factor 1; DNA binding, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
DNA binding protein; NMR {Mus musculus} SCOP: a.21.1.1
Length = 101
Score = 49.5 bits (118), Expect = 4e-08
Identities = 15/63 (23%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 83 KAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYE 142
+ P + P+ Y ++S+++ + +L LK E IG W+ + + QK Y + E
Sbjct: 4 GSSGPKKPPMNGYQKFSQELLSNGELNHLPLK--ERMVEIGSRWQRISQSQKEHYKKLAE 61
Query: 143 QEK 145
+++
Sbjct: 62 EQQ 64
>2gzk_A Sex-determining region on Y / HMGB1; protein-DNA complex, HMG BOX,
amphoterin, DNA/structural protein complex; NMR {Homo
sapiens} SCOP: a.21.1.1 a.21.1.1
Length = 159
Score = 50.2 bits (120), Expect = 7e-08
Identities = 21/106 (19%), Positives = 42/106 (39%), Gaps = 7/106 (6%)
Query: 88 PEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEKNL 147
++P+ ++ +SR ++ +N ++ EI K +G W+ L E +K + ++ ++ + +
Sbjct: 5 VKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAM 64
Query: 148 KASTKLASISRPTWRAKAKASKPKQLRK-------SREARPKDSGE 186
R K R E RPK GE
Sbjct: 65 HREKYPNYKYRKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGE 110
Score = 44.1 bits (104), Expect = 8e-06
Identities = 13/61 (21%), Positives = 30/61 (49%)
Query: 85 PKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQE 144
P P++P + + + ++K ++ L + ++ K +G+MW + D K Y + +
Sbjct: 86 PNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKL 145
Query: 145 K 145
K
Sbjct: 146 K 146
>2e6o_A HMG box-containing protein 1; HMG-box domain, HMG-box transcription
factor 1, high mobility group box transcription factor
1, structural genomics; NMR {Homo sapiens}
Length = 87
Score = 45.5 bits (108), Expect = 8e-07
Identities = 9/73 (12%), Positives = 27/73 (36%), Gaps = 1/73 (1%)
Query: 74 TAKTDGRGPKAPKP-PEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPED 132
+ + G ++P+ +M +++K + I I+G W+ + +
Sbjct: 3 SGSSGGTVSATSPNKCKRPMNAFMLFAKKYRVEYTQMYPGKDNRAISVILGDRWKKMKNE 62
Query: 133 QKTEYVEDYEQEK 145
++ Y + +
Sbjct: 63 ERRMYTLEAKALA 75
>1wz6_A HMG-box transcription factor BBX; bobby SOX homolog, HMG_BOX
domain, structural genomics, NPPSFA, riken structural
genomics/proteomics initiative; NMR {Mus musculus}
Length = 82
Score = 44.9 bits (107), Expect = 9e-07
Identities = 11/65 (16%), Positives = 27/65 (41%)
Query: 81 GPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVED 140
G +P+ ++ + ++ V+ ++ L KI+ W L +K +Y +
Sbjct: 1 GSSGSSGARRPMNAFLLFCKRHRSLVRQEHPRLDNRGATKILADWWAVLDPKEKQKYTDM 60
Query: 141 YEQEK 145
++ K
Sbjct: 61 AKEYK 65
>2lef_A LEF-1 HMG, protein (lymphoid enhancer-binding factor); LEF1, HMG,
TCR-A, transcription factor; HET: DNA; NMR {Mus
musculus} SCOP: a.21.1.1
Length = 86
Score = 44.9 bits (107), Expect = 1e-06
Identities = 21/88 (23%), Positives = 42/88 (47%), Gaps = 6/88 (6%)
Query: 90 KPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEKNLKA 149
KPL +M Y +++ V A++ + I +I+G+ W L +++ +Y E +E+ L
Sbjct: 5 KPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHM 64
Query: 150 STKLASISRPTWRAKAKASKPKQLRKSR 177
P W A+ K K+ ++ +
Sbjct: 65 ------QLYPGWSARDNYGKKKKRKREK 86
>4euw_A Transcription factor SOX-9; protein-DNA complex, HMG domain,
activator, DNA-binding, NUC transcription; HET: DNA;
2.77A {Homo sapiens}
Length = 106
Score = 44.7 bits (106), Expect = 2e-06
Identities = 19/91 (20%), Positives = 39/91 (42%), Gaps = 4/91 (4%)
Query: 55 MHQHCQRVSRRGNVSQKMLTAKTDGRGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLK 114
M H + + L ++ P +P +M +++ ++ Q L
Sbjct: 1 MAHHHHHHVDDDDKMSENLYFQSSKNKPHVKRPMN----AFMVWAQAARRKLADQYPHLH 56
Query: 115 LWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
E+ K +G++WR L E +K +VE+ E+ +
Sbjct: 57 NAELSKTLGKLWRLLNESEKRPFVEEAERLR 87
>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 = 48.3 bits (114), Expect = 2e-06
Identities = 51/338 (15%), Positives = 90/338 (26%), Gaps = 90/338 (26%)
Query: 28 DSVVPDVRSVVTTNRMQVLKRQVQSLTMHQHCQRVSRRGNVSQKMLTAKTDGRGPKAPKP 87
V D S TT + L +LT + + + + + L P
Sbjct: 274 FKQVTDFLSAATTTHI-SLDHHSMTLTPDEVKSLLLKYLDCRPQDL-------------P 319
Query: 88 PEK----PLMPYM-----RYSRKVWDQVKAQNLDLKLWEIGKIIG------------QMW 126
E P + R WD K N D ++ II +M+
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCD----KLTTIIESSLNVLEPAEYRKMF 375
Query: 127 RDL---PEDQK-TEYV--------EDYEQEKNLKASTKLASISRPTWRAKAKASKPK-QL 173
L P + + + K + + + ++ S P L
Sbjct: 376 DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK--QPKESTISIPSIYL 433
Query: 174 RKSREARPKDSGEKMQIGRIDIQPAEDEDE----QEDGYSVKHVAY----ARYLRNHRLI 225
+ + + + + +I D D+ D Y H+ + + L
Sbjct: 434 ELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLF 493
Query: 226 NEIFSD----------SVVPDVRSVVTTNRMQVLKRQVQSLTMHQKKLEAELQQIEEKFE 275
+F D S N +Q LK + + K E + I
Sbjct: 494 RMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAIL---- 549
Query: 276 AKKRKFVESSEQFQEELKKEKASC-------SENEPYL 306
F+ E E L K + +E+E
Sbjct: 550 ----DFLPKIE---ENLICSKYTDLLRIALMAEDEAIF 580
Score = 29.4 bits (65), Expect = 2.1
Identities = 6/32 (18%), Positives = 10/32 (31%), Gaps = 4/32 (12%)
Query: 1 QEDGYSVKHVAY----ARYLRNHRLINEIFSD 28
D Y H+ + + L +F D
Sbjct: 468 YLDQYFYSHIGHHLKNIEHPERMTLFRMVFLD 499
Score = 29.1 bits (64), Expect = 2.2
Identities = 27/245 (11%), Positives = 64/245 (26%), Gaps = 63/245 (25%)
Query: 109 QNLDLKLWEI----GKIIGQMWRDLPEDQKTEYVEDY--------EQEKNLKASTKLASI 156
++D + E I+ ++ + V+D E + + + ++
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 157 SRPTWRAKAKASKPKQ-------------LRKSREARPKD-SGE---------------- 186
R W +K + Q L + + S
Sbjct: 65 LRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 187 ---KMQIGRID----IQPAEDEDEQEDGYSV-------KHVAYARYLRNHRLI----NEI 228
K + R+ ++ A E + K ++++ +I
Sbjct: 125 VFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI 184
Query: 229 FSDSVVPDVRSVVTTNRMQVLKRQV-QSLTMHQKKLEAELQQIEEKFEAKKRKFVESSEQ 287
F ++ +Q L Q+ + T +I +R S+
Sbjct: 185 FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL--KSKP 242
Query: 288 FQEEL 292
++ L
Sbjct: 243 YENCL 247
>1hry_A Human SRY; DNA, DNA-binding protein, DNA binding protein/DNA
complex; HET: DNA; NMR {Homo sapiens} SCOP: a.21.1.1
PDB: 1hrz_A*
Length = 76
Score = 43.7 bits (104), Expect = 3e-06
Identities = 12/64 (18%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 82 PKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDY 141
+ +P ++ +SR ++ +N ++ EI K +G W+ L E +K + ++
Sbjct: 3 DRVKRPMN----AFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEA 58
Query: 142 EQEK 145
++ +
Sbjct: 59 QKLQ 62
>4a3n_A Transcription factor SOX-17; 2.40A {Homo sapiens}
Length = 71
Score = 42.2 bits (100), Expect = 7e-06
Identities = 15/56 (26%), Positives = 33/56 (58%)
Query: 90 KPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
+P+ +M +++ ++ QN DL E+ K++G+ W+ L +K +VE+ E+ +
Sbjct: 5 RPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAERLR 60
>3u2b_C Transcription factor SOX-4; HMG domain, transcriptional regulation,
transcription-DNA CO; HET: DNA; 2.40A {Mus musculus}
Length = 79
Score = 41.8 bits (99), Expect = 1e-05
Identities = 13/55 (23%), Positives = 31/55 (56%)
Query: 91 PLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
P+ +M +S+ ++ Q+ D+ EI K +G+ W+ L + K ++++ E+ +
Sbjct: 6 PMNAFMVWSQIERRKIMEQSPDMHNAEISKRLGKRWKLLKDSDKIPFIQEAERLR 60
>1j46_A SRY, sex-determining region Y protein; MALE sex determining factor,
SRY, sex-reversal mutation; NMR {Homo sapiens} SCOP:
a.21.1.1 PDB: 1j47_A
Length = 85
Score = 41.4 bits (98), Expect = 2e-05
Identities = 12/55 (21%), Positives = 30/55 (54%)
Query: 91 PLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
P+ ++ +SR ++ +N ++ EI K +G W+ L E +K + ++ ++ +
Sbjct: 8 PMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQ 62
>1i11_A Transcription factor SOX-5; HMG BOX, DNA bending, DNA recognition,
chromatin, DNA binding protein, DNA sequence specific,
testis determining.; NMR {Mus musculus} SCOP: a.21.1.1
Length = 81
Score = 41.0 bits (97), Expect = 3e-05
Identities = 11/56 (19%), Positives = 26/56 (46%)
Query: 90 KPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
+P+ +M +++ ++ D+ I KI+G W+ + +K Y E+ +
Sbjct: 7 RPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMTNLEKQPYYEEQARLS 62
>1v64_A Nucleolar transcription factor 1; DNA binding, structural genomics,
riken structural genomics/proteomics initiative, RSGI;
NMR {Mus musculus} SCOP: a.21.1.1
Length = 108
Score = 41.1 bits (96), Expect = 4e-05
Identities = 14/61 (22%), Positives = 27/61 (44%), Gaps = 4/61 (6%)
Query: 85 PKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQE 144
+P + P Y Y ++ +K D+ E + Q W+ L + +K Y + +Q+
Sbjct: 15 GRPTKPPPNSYSLYCAELMANMK----DVPSTERMVLCSQQWKLLSQKEKDAYHKKCDQK 70
Query: 145 K 145
K
Sbjct: 71 K 71
>3f27_D Transcription factor SOX-17; protein-DNA complex, HMG domain,
endodermal, activator, DNA- nucleus, transcription
regulation, transcrip complex; HET: DNA; 2.75A {Mus
musculus} PDB: 2yul_A
Length = 83
Score = 39.9 bits (94), Expect = 7e-05
Identities = 16/65 (24%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 81 GPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVED 140
G + +P+ +M +++ ++ QN DL E+ K++G+ W+ L +K +VE+
Sbjct: 1 GSFTSRIR-RPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEE 59
Query: 141 YEQEK 145
E+ +
Sbjct: 60 AERLR 64
>1gt0_D Transcription factor SOX-2; POU factors, SOX proteins; 2.6A {Mus
musculus} SCOP: a.21.1.1 PDB: 2le4_A 1o4x_B
Length = 80
Score = 38.3 bits (90), Expect = 2e-04
Identities = 13/55 (23%), Positives = 30/55 (54%)
Query: 91 PLMPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
P+ +M +SR ++ +N + EI K +G W+ L E +K ++++ ++ +
Sbjct: 6 PMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSETEKRPFIDEAKRLR 60
>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 = 36.2 bits (83), Expect = 0.014
Identities = 29/156 (18%), Positives = 53/156 (33%), Gaps = 48/156 (30%)
Query: 159 PTWRAKAKASKPKQLR-------KSREARPKDSGEKMQIGRIDIQPAEDEDEQEDGY--- 208
+W + + + K + + EA P + P+ ED E+
Sbjct: 287 DSWESFFVSVR-KAITVLFFIGVRCYEAYP----------NTSLPPSILEDSLENNEGVP 335
Query: 209 ----SV---------KHVAYAR-YLRNHRLINEIFSDSVV--PDVRSVVTTNRMQVLKRQ 252
S+ +V +L + + EI S+V +++V + Q L
Sbjct: 336 SPMLSISNLTQEQVQDYVNKTNSHLPAGKQV-EI---SLVNGA--KNLVVSGPPQSLYGL 389
Query: 253 VQSLTMHQKKLEAELQQIEEKFEAKKRKFVESSEQF 288
+L + K + L Q F +K KF S +F
Sbjct: 390 NLTL--RKAKAPSGLDQSRIPFSERKLKF---SNRF 420
Score = 35.0 bits (80), Expect = 0.029
Identities = 30/222 (13%), Positives = 58/222 (26%), Gaps = 88/222 (39%)
Query: 58 HCQRVSRRGNVSQKMLT-AKTDGRGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNL---DL 113
C ++ +L + + G +P M L +L
Sbjct: 309 RCYEAYPNTSLPPSILEDSLENNEGVPSP----------M--------------LSISNL 344
Query: 114 KLWEIGKIIGQMWRDLPEDQKTE---------YV-----EDYEQEKNLKA-STKLASISR 158
++ + + LP ++ E V + L + L
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS------LYGLNLTLRKAKA 398
Query: 159 PTW--RAKAKASKPKQLRKSREARPKDSGEKMQIGRIDI-------QPAED---EDEQED 206
P+ +++ S+ RK K S + + PA D +D ++
Sbjct: 399 PSGLDQSRIPFSE----RK-----LKFS---NRFLPVASPFHSHLLVPASDLINKDLVKN 446
Query: 207 GYS---------VKHVAYARYLRN------HRLINEIFSDSV 233
S V LR R+++ I V
Sbjct: 447 NVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPV 488
Score = 35.0 bits (80), Expect = 0.031
Identities = 36/251 (14%), Positives = 61/251 (24%), Gaps = 106/251 (42%)
Query: 95 YMRYS--RKVWDQVKAQNLDLKLWEIGKII---------------GQMWRDLPEDQKTEY 137
Y + VW++ D + I I+ G+ R+ E
Sbjct: 1636 YKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFET 1695
Query: 138 VED--YEQEKNLKASTKLASISRPTWRAKAKASKPK---------Q----------LR-- 174
+ D + EK K + + T+R+ K Q
Sbjct: 1696 IVDGKLKTEKIFKEINE--HSTSYTFRS------EKGLLSATQFTQPALTLMEKAAFEDL 1747
Query: 175 KSREARPKDS-------GEKMQIGRIDIQPAEDEDEQEDGYSVKHVAYARYLRNHRLINE 227
KS+ P D+ GE Y+ + A +
Sbjct: 1748 KSKGLIPADATFAGHSLGE---------------------YAA-LASLADVMS------- 1778
Query: 228 IFSDSV-------------VPDVRSVVTTNRMQVLK--RQVQSLTMHQKKLEAELQQIEE 272
V VP + M + R S + + LQ + E
Sbjct: 1779 -IESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFS------QEALQYVVE 1831
Query: 273 KFEAKKRKFVE 283
+ + VE
Sbjct: 1832 RVGKRTGWLVE 1842
Score = 31.9 bits (72), Expect = 0.35
Identities = 27/198 (13%), Positives = 56/198 (28%), Gaps = 62/198 (31%)
Query: 155 SISRPT--WRAKAKASKPKQLRKS-REARPKDSGEKMQIGRIDIQP---AE--------- 199
+ PT + AS QL++ + P+ + D +P AE
Sbjct: 19 VLLVPTASFFI---AS---QLQEQFNKILPEPTEGFAA----DDEPTTPAELVGKFLGYV 68
Query: 200 -DEDEQEDGYSVKHVAYA-------RYLRN---HRLINEIF--SDSVVPDVRSVVTT--N 244
E V YL H L ++ +D+ + + ++
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYIT 128
Query: 245 RMQVLKRQV---------QSLTMHQKKLEA-------------ELQQIEEKFEAKKRKFV 282
+ KR +++ +L A EL+ + + + +
Sbjct: 129 ARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLI 188
Query: 283 ESSEQFQEELKKEKASCS 300
+ S + EL +
Sbjct: 189 KFSAETLSELIRTTLDAE 206
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 34.8 bits (80), Expect = 0.041
Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 10/72 (13%)
Query: 242 TTNRMQVLKRQVQSLTMHQKKLEAELQQIEEKFE----------AKKRKFVESSEQFQEE 291
++ L+ Q+ L K E ELQ + E K R+ QE+
Sbjct: 1072 LHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQED 1131
Query: 292 LKKEKASCSENE 303
L+ EKA+ ++ E
Sbjct: 1132 LESEKAARNKAE 1143
Score = 30.6 bits (69), Expect = 0.82
Identities = 12/58 (20%), Positives = 25/58 (43%), Gaps = 1/58 (1%)
Query: 244 NRMQVLKRQVQSLTMHQKKLEAELQQIEEKFEAKKRKFVESSEQFQEELKKEKASCSE 301
+M L+ Q++ ++KL+ E + K + + + E +L KE+ E
Sbjct: 955 QQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDD-ILIMEDQNNKLTKERKLLEE 1011
Score = 28.3 bits (63), Expect = 3.8
Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 10/71 (14%)
Query: 243 TNRMQVLKRQVQSLTMHQKKLEAE-------LQQIEEKF---EAKKRKFVESSEQFQEEL 292
+ + +++ Q LT +K LE L + EEK K K + + L
Sbjct: 989 EDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRL 1048
Query: 293 KKEKASCSENE 303
KKE+ S E E
Sbjct: 1049 KKEEKSRQELE 1059
Score = 27.5 bits (61), Expect = 7.0
Identities = 10/52 (19%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 244 NRMQVLKRQVQSLTMHQKKLEAELQQIEEKFEAKKRKFVESSEQFQEELKKE 295
R++ Q + ++LE+ + ++E E++K +E+ + +L +E
Sbjct: 1102 ARLEDETSQKNNALKKIRELESHISDLQEDLESEKAA-RNKAEKQKRDLSEE 1152
Score = 27.1 bits (60), Expect = 9.2
Identities = 9/65 (13%), Positives = 28/65 (43%), Gaps = 3/65 (4%)
Query: 242 TTNRMQVLKRQVQSLTMHQKKLEAELQQIEEKFEAKKRKFVE---SSEQFQEELKKEKAS 298
T + + + ++LT + K E+ + ++E + + +++ E + + E
Sbjct: 1016 LTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQ 1075
Query: 299 CSENE 303
+E +
Sbjct: 1076 IAELQ 1080
>2d7l_A WD repeat and HMG-box DNA binding protein 1; high mobility group
box domain, helix-turn-helix, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 30.5 bits (68), Expect = 0.12
Identities = 8/59 (13%), Positives = 21/59 (35%), Gaps = 1/59 (1%)
Query: 88 PEKPLMPYMRYSRKVWDQVKAQNLDLK-LWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 145
+P + + + + + N D +I K +R L +++ + + E
Sbjct: 6 SGRPKTGFQMWLEENRSNILSDNPDFSDEADIIKEGMIRFRVLSTEERKVWANKAKGET 64
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.1 bits (69), Expect = 0.25
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 6/30 (20%)
Query: 142 EQE-KNLKASTKL-ASISRPTWRAKA-KAS 168
+Q K L+AS KL A S P A A KA+
Sbjct: 19 KQALKKLQASLKLYADDSAP---ALAIKAT 45
Score = 28.0 bits (61), Expect = 2.3
Identities = 7/17 (41%), Positives = 11/17 (64%), Gaps = 4/17 (23%)
Query: 252 QVQSLTMHQKKLEAELQ 268
+ Q+L KKL+A L+
Sbjct: 18 EKQAL----KKLQASLK 30
>2x24_A Acetyl-COA carboxylase; fatty acid biosynthesis, ligase, lipid
synthesis; HET: X24; 2.40A {Bos taurus} PDB: 3ff6_A*
3tdc_A*
Length = 793
Score = 31.3 bits (71), Expect = 0.39
Identities = 18/126 (14%), Positives = 44/126 (34%), Gaps = 15/126 (11%)
Query: 161 WRAKAKASKPKQLRKSREARP-KDSGEKMQIGR---IDIQPAEDEDEQEDGYSV-----K 211
WR + + + ++ A P + R ++ + A ++ +V
Sbjct: 663 WRLRRLLLESQVKQEVLRACPELSHMHVQSMLRRWFVETEGAVKAYLWDNNQTVVQWLEA 722
Query: 212 HVAYARYLRN--HRLINEIFSDSVVPDVRSVVTTNR---MQVLKRQVQSLTMHQK-KLEA 265
H + L + I + DS + ++ +V N M L Q ++ ++ ++
Sbjct: 723 HGQASDVLHSTIRENITCLRRDSALKTIQGLVQENPELAMDSLVYVSQHISPAERAQVIH 782
Query: 266 ELQQIE 271
L +
Sbjct: 783 LLSTTD 788
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 30.8 bits (70), Expect = 0.59
Identities = 11/71 (15%), Positives = 22/71 (30%), Gaps = 10/71 (14%)
Query: 243 TNRMQVLKRQVQSLTMHQKKLEAELQQIEEKF----------EAKKRKFVESSEQFQEEL 292
++ ++ +SL LE EK E + + QEE+
Sbjct: 934 QRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEI 993
Query: 293 KKEKASCSENE 303
K + + +
Sbjct: 994 AKLRKELHQTQ 1004
>2fic_A Bridging integrator 1; BAR domain, homodimer, coiled-coils,
endocytosis/exocytosis, protein complex,
endocytosis-exocytosis; 1.99A {Homo sapiens} PDB: 2rmy_A
2rnd_A
Length = 251
Score = 30.2 bits (67), Expect = 0.75
Identities = 16/59 (27%), Positives = 26/59 (44%)
Query: 249 LKRQVQSLTMHQKKLEAELQQIEEKFEAKKRKFVESSEQFQEELKKEKASCSENEPYLF 307
+ +SL +KK EA++ + EE+ ++ F E + QEEL S F
Sbjct: 163 ARHHYESLQTAKKKDEAKIAKAEEELIKAQKVFEEMNVDLQEELPSLWNSRVGFYVNTF 221
>4a3a_A Amphiphysin; structural genomics, invagination, knobs-IN-holes,
curvature membrane, structural genomics consortium;
1.78A {Homo sapiens} PDB: 4atm_A 3sog_A
Length = 243
Score = 29.7 bits (66), Expect = 0.99
Identities = 12/46 (26%), Positives = 26/46 (56%)
Query: 249 LKRQVQSLTMHQKKLEAELQQIEEKFEAKKRKFVESSEQFQEELKK 294
+ +++L ++K E+ + + EE+F+ ++ F E + QEEL
Sbjct: 149 ARHHLEALQSSKRKDESRISKAEEEFQKAQKVFEEFNVDLQEELPS 194
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.0 bits (64), Expect = 1.5
Identities = 6/52 (11%), Positives = 25/52 (48%), Gaps = 8/52 (15%)
Query: 260 QKKLEAELQQIEEKFEAKKRKFVESS--------EQFQEELKKEKASCSENE 303
+++ LQ+++ + ++++ E + ++ E+++K K + +
Sbjct: 91 REEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIAD 142
Score = 28.2 bits (62), Expect = 2.7
Identities = 11/55 (20%), Positives = 22/55 (40%), Gaps = 5/55 (9%)
Query: 162 RAKAKASKPKQLRKSREARP-----KDSGEKMQIGRIDIQPAEDEDEQEDGYSVK 211
+A +P+ +RK RE + D+ K+ + +D +E S +
Sbjct: 76 QADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQ 130
>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural
genomics, protein structure initiative; 1.42A {Listeria
monocytogenes str} PDB: 3bqt_A 3mab_A
Length = 93
Score = 27.4 bits (61), Expect = 2.2
Identities = 9/51 (17%), Positives = 25/51 (49%), Gaps = 4/51 (7%)
Query: 99 SRKVWDQVKAQNLDL---KLWEI-GKIIGQMWRDLPEDQKTEYVEDYEQEK 145
S++ + ++ + + +L+ + G + G W L E +K E + ++ +
Sbjct: 36 SKEAFLRIWENDSSVCMSELYALEGAVQGIRWHGLDEAKKIELKKFHQSLE 86
>4avm_A Bridging integrator 2; protein binding, plasma membrane, BAR
adaptor; 1.91A {Homo sapiens}
Length = 237
Score = 28.6 bits (63), Expect = 2.3
Identities = 13/59 (22%), Positives = 28/59 (47%)
Query: 249 LKRQVQSLTMHQKKLEAELQQIEEKFEAKKRKFVESSEQFQEELKKEKASCSENEPYLF 307
+ ++++ +KK EA+ + EE+F + F + +++ EEL S +F
Sbjct: 144 ARHHLEAVQNAKKKDEAKTAKAEEEFNKAQTVFEDLNQELLEELPILYNSRIGCYVTIF 202
>3nv0_A Nuclear RNA export factor 2; NTF2-like domain, beta sheet
heterodimer interface, nucleopo binding pocket, water
mediated interface; 1.84A {Caenorhabditis elegans}
Length = 205
Score = 28.1 bits (62), Expect = 3.4
Identities = 10/52 (19%), Positives = 14/52 (26%), Gaps = 1/52 (1%)
Query: 80 RGPKAPKPPEKPLMPYMRYSRKVWDQVKAQNLDLKLWEIGKI-IGQMWRDLP 130
P + Y+R S V +Q G + I LP
Sbjct: 60 PIKFVMYPDSESYRMYLRTSHNVLNQEYFAANRASRISHGAMDIVVALSRLP 111
>2w5v_A Alkaline phosphatase; psychrophiles, cold adaptation, hydrolase;
HET: SEP; 1.78A {Antarctic bacterium TAB5} PDB: 2w5w_A*
2w5x_A* 2iuc_A 2iuc_B
Length = 375
Score = 27.3 bits (61), Expect = 6.4
Identities = 7/41 (17%), Positives = 12/41 (29%), Gaps = 10/41 (24%)
Query: 3 DGYSVKHVAYARYLRNHRLINEIF----------SDSVVPD 33
DG + ++ Y ++ F S V D
Sbjct: 43 DGAGLSQISSTFYFKSGTPNYTQFKNIGLIKTSSSREDVTD 83
Score = 27.3 bits (61), Expect = 6.4
Identities = 7/41 (17%), Positives = 12/41 (29%), Gaps = 10/41 (24%)
Query: 206 DGYSVKHVAYARYLRNHRLINEIF----------SDSVVPD 236
DG + ++ Y ++ F S V D
Sbjct: 43 DGAGLSQISSTFYFKSGTPNYTQFKNIGLIKTSSSREDVTD 83
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
0.314 0.128 0.361
Gapped
Lambda K H
0.267 0.0439 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,424,549
Number of extensions: 246356
Number of successful extensions: 785
Number of sequences better than 10.0: 1
Number of HSP's gapped: 750
Number of HSP's successfully gapped: 146
Length of query: 307
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 214
Effective length of database: 4,105,140
Effective search space: 878499960
Effective search space used: 878499960
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 (22.0 bits)
S2: 57 (26.5 bits)