RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16713
(357 letters)
>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 = 120 bits (304), Expect = 2e-34
Identities = 39/78 (50%), Positives = 51/78 (65%)
Query: 63 GLRSKDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHEL 122
G RRPMNAF++F KRHR+ V Q HP DNR +KIL +WW L P+EKQKY ++
Sbjct: 1 GSSGSSGARRPMNAFLLFCKRHRSLVRQEHPRLDNRGATKILADWWAVLDPKEKQKYTDM 60
Query: 123 ASEVKEAHFKAHPEWKWC 140
A E K+A KA+P ++
Sbjct: 61 AKEYKDAFMKANPGYRSG 78
>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 = 118 bits (297), Expect = 2e-33
Identities = 29/81 (35%), Positives = 51/81 (62%)
Query: 66 SKDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASE 125
RIRRPMNAFM+++K R ++ Q +P+ N +SK+LG+ W +L EK+ + E A
Sbjct: 3 FTSRIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAER 62
Query: 126 VKEAHFKAHPEWKWCSKDKRK 146
++ H + HP +K+ + +++
Sbjct: 63 LRVQHMQDHPNYKYRPRRRKQ 83
>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 = 117 bits (296), Expect = 3e-33
Identities = 30/78 (38%), Positives = 49/78 (62%)
Query: 68 DRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVK 127
I+RPMNAFM+++K R K+ Q P+ N +SKILG W ++ EKQ Y+E + +
Sbjct: 3 PHIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMTNLEKQPYYEEQARLS 62
Query: 128 EAHFKAHPEWKWCSKDKR 145
+ H + +P++K+ + KR
Sbjct: 63 KQHLEKYPDYKYKPRPKR 80
>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 = 114 bits (289), Expect = 3e-32
Identities = 31/80 (38%), Positives = 49/80 (61%)
Query: 68 DRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVK 127
DR++RPMNAFM++S+ R K+ Q +P N +SK LG W L EK+ + + A ++
Sbjct: 1 DRVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSETEKRPFIDEAKRLR 60
Query: 128 EAHFKAHPEWKWCSKDKRKS 147
H K HP++K+ + K K+
Sbjct: 61 ALHMKEHPDYKYRPRRKTKT 80
>3u2b_C Transcription factor SOX-4; HMG domain, transcriptional regulation,
transcription-DNA CO; HET: DNA; 2.40A {Mus musculus}
Length = 79
Score = 114 bits (288), Expect = 4e-32
Identities = 26/77 (33%), Positives = 45/77 (58%)
Query: 70 IRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEA 129
I+RPMNAFM++S+ R K+ + P+ N +SK LG+ W L +K + + A ++
Sbjct: 3 IKRPMNAFMVWSQIERRKIMEQSPDMHNAEISKRLGKRWKLLKDSDKIPFIQEAERLRLK 62
Query: 130 HFKAHPEWKWCSKDKRK 146
H +P++K+ + K K
Sbjct: 63 HMADYPDYKYRPRKKVK 79
>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 = 113 bits (285), Expect = 9e-32
Identities = 31/86 (36%), Positives = 52/86 (60%), Gaps = 1/86 (1%)
Query: 54 SLKGAGSATGLRSKDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGP 113
S +G S ++ +RPMNAFM+F+K++R + Q++P +DNR +S ILG+ W +
Sbjct: 2 SSGSSGGTVSATSPNKCKRPMNAFMLFAKKYRVEYTQMYPGKDNRAISVILGDRWKKMKN 61
Query: 114 EEKQKYHELASEVKEAHFKAHPE-WK 138
EE++ Y A + E + +P+ WK
Sbjct: 62 EERRMYTLEAKALAEEQKRLNPDCWK 87
>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 = 112 bits (283), Expect = 2e-31
Identities = 25/74 (33%), Positives = 44/74 (59%)
Query: 67 KDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEV 126
+DR++RPMNAF+++S+ R K+ +P N +SK LG W L EK + + A ++
Sbjct: 2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKL 61
Query: 127 KEAHFKAHPEWKWC 140
+ H + +P +K+
Sbjct: 62 QAMHREKYPNYKYR 75
>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 = 112 bits (283), Expect = 2e-31
Identities = 26/78 (33%), Positives = 47/78 (60%)
Query: 70 IRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEA 129
I++P+NAFM++ K RA V +++ +++ILG W++L EE+ KY+ELA + ++
Sbjct: 3 IKKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALSREEQAKYYELARKERQL 62
Query: 130 HFKAHPEWKWCSKDKRKS 147
H + +P W +K
Sbjct: 63 HMQLYPGWSARDNYGKKK 80
>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 = 113 bits (284), Expect = 2e-31
Identities = 30/83 (36%), Positives = 52/83 (62%), Gaps = 1/83 (1%)
Query: 65 RSKDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELAS 124
++K ++RPMNAFM++++ R K+ +P+ N +SK LG+ W L EK+ + E A
Sbjct: 25 KNKPHVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLGKLWRLLNESEKRPFVEEAE 84
Query: 125 EVKEAHFKAHPEWKWCSKDKRKS 147
++ H K HP++K+ + +RKS
Sbjct: 85 RLRVQHKKDHPDYKYQPR-RRKS 106
>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 = 111 bits (281), Expect = 5e-31
Identities = 27/81 (33%), Positives = 47/81 (58%)
Query: 67 KDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEV 126
+DR++RPMNAF+++S+ R K+ +P N +SK LG W L EK + + A ++
Sbjct: 2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKL 61
Query: 127 KEAHFKAHPEWKWCSKDKRKS 147
+ H + +P +K+ + K K
Sbjct: 62 QAMHREKYPNYKYRPRRKAKM 82
>4a3n_A Transcription factor SOX-17; 2.40A {Homo sapiens}
Length = 71
Score = 110 bits (277), Expect = 1e-30
Identities = 28/69 (40%), Positives = 45/69 (65%)
Query: 70 IRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEA 129
IRRPMNAFM+++K R ++ Q +P+ N +SK+LG+ W +L EK+ + E A ++
Sbjct: 3 IRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAERLRVQ 62
Query: 130 HFKAHPEWK 138
H + HP +K
Sbjct: 63 HMQDHPNYK 71
>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 = 85.9 bits (213), Expect = 3e-21
Identities = 16/83 (19%), Positives = 34/83 (40%)
Query: 56 KGAGSATGLRSKDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEE 115
G ++ +RP++A IFS+ R ++ + P ++++L W L ++
Sbjct: 7 GKPSQEGGKGGSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSEKK 66
Query: 116 KQKYHELASEVKEAHFKAHPEWK 138
K KY + +K +
Sbjct: 67 KAKYKAREAALKAQSERKSGPSS 89
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 92
Score = 83.3 bits (206), Expect = 3e-20
Identities = 22/92 (23%), Positives = 36/92 (39%)
Query: 63 GLRSKDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHEL 122
G I++PM+A +F + HR + +P + + E W +L EEK KY E
Sbjct: 1 GSSGSSGIKKPMSASALFVQDHRPQFLIENPKTSLEDATLQIEELWKTLSEEEKLKYEEK 60
Query: 123 ASEVKEAHFKAHPEWKWCSKDKRKSSTGSGRG 154
A++ E + +G G
Sbjct: 61 ATKDLERYNSQMKRAIEQESQMSLKDSGPSSG 92
>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 = 79.2 bits (196), Expect = 7e-19
Identities = 22/75 (29%), Positives = 40/75 (53%)
Query: 64 LRSKDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELA 123
+ + +RP +AF +F +R K+ HP V+K LGE W + ++KQ Y + A
Sbjct: 1 FKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKA 60
Query: 124 SEVKEAHFKAHPEWK 138
+++KE + K ++
Sbjct: 61 AKLKEKYEKDIAAYR 75
>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 = 77.0 bits (190), Expect = 5e-18
Identities = 22/91 (24%), Positives = 41/91 (45%), Gaps = 2/91 (2%)
Query: 66 SKD--RIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELA 123
S + P+ ++ F R ++ HP+ ++K+LG W L P EKQ+Y + A
Sbjct: 2 SSGSSGPKAPVTGYVRFLNERREQIRTRHPDLPFPEITKMLGAEWSKLQPAEKQRYLDEA 61
Query: 124 SEVKEAHFKAHPEWKWCSKDKRKSSTGSGRG 154
+ K+ + K ++ K + +G G
Sbjct: 62 EKEKQQYLKELWAYQQSEAYKVCTESGPSSG 92
>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 = 77.2 bits (190), Expect = 3e-17
Identities = 25/79 (31%), Positives = 46/79 (58%)
Query: 67 KDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEV 126
+DR++RPMNAF+++S+ R K+ +P N +SK LG W L EK + + A ++
Sbjct: 2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKL 61
Query: 127 KEAHFKAHPEWKWCSKDKR 145
+ H + +P +K+ + +
Sbjct: 62 QAMHREKYPNYKYRKGETK 80
Score = 71.8 bits (176), Expect = 2e-15
Identities = 27/118 (22%), Positives = 49/118 (41%), Gaps = 6/118 (5%)
Query: 27 GKQWRRLCSK------DGCSKESQRRGYCSRHLSLKGAGSATGLRSKDRIRRPMNAFMIF 80
G QW+ L K + + + + + +RP +AF +F
Sbjct: 40 GYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRKGETKKKFKDPNAPKRPPSAFFLF 99
Query: 81 SKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEAHFKAHPEWK 138
+R K+ HP V+K LGE W + ++KQ Y + A+++KE + K ++
Sbjct: 100 CSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYR 157
>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box
domain, structural genomics, NPPSFA; NMR {Mus musculus}
Length = 102
Score = 73.6 bits (181), Expect = 1e-16
Identities = 22/90 (24%), Positives = 43/90 (47%)
Query: 65 RSKDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELAS 124
+ + ++P++A+ +F + +A + +PN VSKI+ W LG E+KQ Y +
Sbjct: 13 KDPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLGEEQKQVYKKKTE 72
Query: 125 EVKEAHFKAHPEWKWCSKDKRKSSTGSGRG 154
K+ + K ++ K + +G G
Sbjct: 73 AAKKEYLKQLAAYRASLVSKSYTDSGPSSG 102
>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 = 71.6 bits (176), Expect = 6e-16
Identities = 22/68 (32%), Positives = 34/68 (50%)
Query: 71 RRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEAH 130
+R ++A+M F+ +R V +P+ V K LGE W +L PEEKQ Y A K+ +
Sbjct: 22 KRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALTPEEKQPYEAKAQADKKRY 81
Query: 131 FKAHPEWK 138
+
Sbjct: 82 ESEKELYN 89
>2lhj_A High mobility group protein homolog NHP1; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; NMR {Babesia bovis}
Length = 97
Score = 71.3 bits (175), Expect = 8e-16
Identities = 16/73 (21%), Positives = 37/73 (50%), Gaps = 2/73 (2%)
Query: 68 DRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRT--VSKILGEWWYSLGPEEKQKYHELASE 125
+ +R ++++M F+K R ++ +P + K++G W +L EEK+ Y ++ E
Sbjct: 21 NAPKRALSSYMFFAKEKRVEIIAENPEIAKDVAAIGKMIGAAWNALSDEEKKPYERMSDE 80
Query: 126 VKEAHFKAHPEWK 138
+ + + E+
Sbjct: 81 DRVRYEREKAEYA 93
>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 = 68.9 bits (169), Expect = 3e-15
Identities = 16/71 (22%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 68 DRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVK 127
D+ +RP++A+ ++ R + + +P V+K GE W ++ ++K ++ A++ K
Sbjct: 2 DKPKRPLSAYALWLNSARESIKRENPGIKVTEVAKRGGELWRAM--KDKSEWEAKAAKAK 59
Query: 128 EAHFKAHPEWK 138
+ + +A E++
Sbjct: 60 DDYDRAVKEFE 70
>1wxl_A Single-strand recognition protein; FACT, SSRP1, HMG, DNA binding
protein; NMR {Drosophila melanogaster}
Length = 73
Score = 68.5 bits (168), Expect = 4e-15
Identities = 16/68 (23%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 71 RRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEAH 130
+R AFM++ R + + +P ++K GE W L ++K K+ + A++ K+ +
Sbjct: 5 KRATTAFMLWLNDTRESIKRENPGIKVTEIAKKGGEMWKEL--KDKSKWEDAAAKDKQRY 62
Query: 131 FKAHPEWK 138
+K
Sbjct: 63 HDEMRNYK 70
>1k99_A Upstream binding factor 1; alpha-helix, L-shape, DNA binding
protein; NMR {Homo sapiens} SCOP: a.21.1.1
Length = 99
Score = 66.7 bits (163), Expect = 3e-14
Identities = 17/74 (22%), Positives = 35/74 (47%)
Query: 65 RSKDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELAS 124
+ D ++P+ + F RAK ++HP N ++KIL + + L ++K KY +
Sbjct: 6 KHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPEKKKMKYIQDFQ 65
Query: 125 EVKEAHFKAHPEWK 138
K+ + ++
Sbjct: 66 REKQEFERNLARFR 79
>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1
Length = 83
Score = 65.8 bits (161), Expect = 5e-14
Identities = 15/70 (21%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 71 RRPMNAFMIFSKRHRAKVHQIHPNQ--DNRTVSKILGEWWYSLGPEEKQKYHELASEVKE 128
R M+++ F + R + + HP+ + SK E W ++ +EK K+ ++A K
Sbjct: 9 RGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKA 68
Query: 129 AHFKAHPEWK 138
+ + +
Sbjct: 69 RYEREMKTYI 78
>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 = 68.1 bits (166), Expect = 6e-14
Identities = 22/74 (29%), Positives = 40/74 (54%)
Query: 65 RSKDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELAS 124
+ + +RP +AF +F +R K+ HP V+K LGE W + ++KQ Y + A+
Sbjct: 97 KDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAA 156
Query: 125 EVKEAHFKAHPEWK 138
++KE + K ++
Sbjct: 157 KLKEKYEKDIAAYR 170
Score = 53.5 bits (128), Expect = 7e-09
Identities = 18/88 (20%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 57 GAGSATGLRSKD--RIRRPMNAFMIFSKRHRAKVHQIHPNQ--DNRTVSKILGEWWYSLG 112
G+ ++G+ D + R M+++ F + R + + HP+ + SK E W ++
Sbjct: 1 GSSGSSGMGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMS 60
Query: 113 PEEKQKYHELASEVKEAHFKAHPEWKWC 140
+EK K+ ++A K + + +
Sbjct: 61 AKEKGKFEDMAKADKARYEREMKTYIPP 88
>2eqz_A High mobility group protein B3; HMG-box domain, mobility group
protein 2A, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 86
Score = 64.3 bits (157), Expect = 2e-13
Identities = 18/85 (21%), Positives = 40/85 (47%), Gaps = 4/85 (4%)
Query: 57 GAGSATGLRSKD--RIRRPMNAFMIFSKRHRAKVHQIHPNQ--DNRTVSKILGEWWYSLG 112
G+ ++G+ D + + M+A+ F + R + + +P + SK E W ++
Sbjct: 1 GSSGSSGMAKGDPKKPKGKMSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMS 60
Query: 113 PEEKQKYHELASEVKEAHFKAHPEW 137
+EK K+ E+A K + + ++
Sbjct: 61 GKEKSKFDEMAKADKVRYDREMKDY 85
>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 = 63.2 bits (154), Expect = 4e-13
Identities = 15/68 (22%), Positives = 31/68 (45%), Gaps = 2/68 (2%)
Query: 71 RRPMNAFMIFSKRHRAKVHQIHPNQ--DNRTVSKILGEWWYSLGPEEKQKYHELASEVKE 128
R M+++ F + R + + HP+ + SK E W ++ +EK K+ ++A K
Sbjct: 3 RGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKA 62
Query: 129 AHFKAHPE 136
+ +
Sbjct: 63 RYEREMKT 70
>3fgh_A Transcription factor A, mitochondrial; HMG domain, mitochondrial
transcription, activator, DNA- binding, mitochondrion,
phosphoprotein; 1.35A {Homo sapiens}
Length = 67
Score = 62.3 bits (152), Expect = 5e-13
Identities = 14/67 (20%), Positives = 27/67 (40%), Gaps = 4/67 (5%)
Query: 71 RRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEAH 130
+RP +A+ ++ + P + K + E W +L EK+ Y + A E + +
Sbjct: 4 KRPRSAYNVYVAERFQEAKGDSPQE----KLKTVKENWKNLSDSEKELYIQHAKEDETRY 59
Query: 131 FKAHPEW 137
W
Sbjct: 60 HNEMKSW 66
>3tq6_A Transcription factor A, mitochondrial; transcription, transcription
regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo
sapiens}
Length = 214
Score = 59.0 bits (142), Expect = 2e-10
Identities = 10/68 (14%), Positives = 30/68 (44%)
Query: 71 RRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEAH 130
++P+++++ FSK +P+ + + + + W L +K+ Y + + +
Sbjct: 11 KKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELPDSKKKIYQDAYRAEWQVY 70
Query: 131 FKAHPEWK 138
+ +K
Sbjct: 71 KEEISRFK 78
Score = 53.2 bits (127), Expect = 2e-08
Identities = 14/71 (19%), Positives = 29/71 (40%), Gaps = 4/71 (5%)
Query: 68 DRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVK 127
+ +RP +A+ ++ + P + K + E W +L EK+ Y + A E +
Sbjct: 113 GKPKRPRSAYNVYVAERFQEAKGDSPQE----KLKTVKENWKNLSDSEKELYIQHAKEDE 168
Query: 128 EAHFKAHPEWK 138
+ W+
Sbjct: 169 TRYHNEMKSWE 179
>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 = 56.0 bits (134), Expect = 3e-09
Identities = 20/117 (17%), Positives = 40/117 (34%), Gaps = 4/117 (3%)
Query: 22 RKKFNGKQWRRLCSKDGCSKESQRRGYCSRHLSLKGAGSATGLRSKDRIRRPMNAFMIFS 81
+ + + R S + +HL K L + +RP +A+ ++
Sbjct: 99 WQVYKEEISRFKEQLTPSQIMSLEKEIMDKHLKRKAMTKKKELTLLGKPKRPRSAYNVYV 158
Query: 82 KRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEAHFKAHPEWK 138
+ P + K + E W +L EK+ Y + A E + + W+
Sbjct: 159 AERFQEAKGDSPQE----KLKTVKENWKNLSDSEKELYIQHAKEDETRYHNEMKSWE 211
Score = 54.8 bits (131), Expect = 6e-09
Identities = 9/73 (12%), Positives = 29/73 (39%)
Query: 65 RSKDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELAS 124
++P+++++ FSK +P+ + + + + W L +K+ Y +
Sbjct: 37 VLASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELPDSKKKIYQDAYR 96
Query: 125 EVKEAHFKAHPEW 137
+ + + +
Sbjct: 97 AEWQVYKEEISRF 109
>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 = 49.2 bits (117), Expect = 5e-08
Identities = 14/68 (20%), Positives = 26/68 (38%), Gaps = 2/68 (2%)
Query: 71 RRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEAH 130
+ PMN + FS+ + H + +G W + +K+ Y +LA E + +
Sbjct: 10 KPPMNGYQKFSQELLSNGELNHLPL--KERMVEIGSRWQRISQSQKEHYKKLAEEQQRQY 67
Query: 131 FKAHPEWK 138
W
Sbjct: 68 KVHLDLWV 75
>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 = 46.1 bits (109), Expect = 8e-07
Identities = 10/68 (14%), Positives = 26/68 (38%), Gaps = 4/68 (5%)
Query: 71 RRPMNAFMIFSKRHRAKVHQIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEAH 130
+ P N++ ++ A + + + + + W L +EK YH+ + K+ +
Sbjct: 19 KPPPNSYSLYCAELMANMKDVPSTE----RMVLCSQQWKLLSQKEKDAYHKKCDQKKKDY 74
Query: 131 FKAHPEWK 138
+
Sbjct: 75 EVELLRFL 82
>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 = 43.6 bits (102), Expect = 4e-06
Identities = 12/74 (16%), Positives = 28/74 (37%), Gaps = 1/74 (1%)
Query: 66 SKDRIRRPMNAFMIFSKRHRAKVHQIHPNQDNRT-VSKILGEWWYSLGPEEKQKYHELAS 124
S RP F ++ + +R+ + +P+ + + K + L EE++ + A
Sbjct: 2 SSGSSGRPKTGFQMWLEENRSNILSDNPDFSDEADIIKEGMIRFRVLSTEERKVWANKAK 61
Query: 125 EVKEAHFKAHPEWK 138
+ + K
Sbjct: 62 GETASEGTEAKKRK 75
>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 = 33.9 bits (77), Expect = 0.10
Identities = 19/123 (15%), Positives = 43/123 (34%), Gaps = 33/123 (26%)
Query: 165 EGFMPDDLE---HFENSL-E---MVTSSN----ETTVQYLLHPTGRLSNIYSTGFQIPIS 213
+G +P D H SL E + + ++ E+ V+ ++ G + ++ S
Sbjct: 1750 KGLIPADATFAGH---SLGEYAALASLADVMSIESLVE-VVFYRGMTMQVAVPRDELGRS 1805
Query: 214 SESLGNVKQPTTPTVIVSK--QSNIEMQNASVAAANAELMQQADKNKDSEQQKYRNFNLS 271
+ + + P + + Q ++ V L++ N+N+
Sbjct: 1806 NYGMIAI----NPGRVAASFSQEALQYVVERVGKRTGWLVEIV------------NYNVE 1849
Query: 272 QQQ 274
QQ
Sbjct: 1850 NQQ 1852
Score = 28.9 bits (64), Expect = 3.5
Identities = 44/317 (13%), Positives = 87/317 (27%), Gaps = 106/317 (33%)
Query: 47 GYCSRHLSLKGAGSATGLRSKDRIRRPMNAFMIFSKRHRAKVHQ--IHPNQDNRTVSKIL 104
GY S + G + + + F + IH +K+L
Sbjct: 66 GYVSSLVEPSKVGQFDQV-----LNLCLTEF------ENCYLEGNDIH-----ALAAKLL 109
Query: 105 GEWWYSLGPEEKQK-----YHELASEVKEAHFKAHPEWKWCSKDKRKSSTGSGR-----G 154
E + K K Y K K S R G+ + G
Sbjct: 110 QE---NDTTLVKTKELIKNYITARIMAKRPFDKKSN-----SALFRAVGEGNAQLVAIFG 161
Query: 155 KLGSMDEGTGEGFMPDDL----EHFENSLEMVTSSNETTVQYLLHPTGRLSNIYSTGFQI 210
G +G + + ++L + + + + + T+ L+ T +++ G I
Sbjct: 162 --G---QGNTDDYF-EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI 215
Query: 211 -------------------PIS---------------SESLGNVKQPTTPTVIVSKQSNI 236
PIS ++ LG TP + S
Sbjct: 216 LEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLG-----FTPGELRSYLKGA 270
Query: 237 EMQNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVH---------QQQQQNSS 287
+ + A A + + DS + + + ++ + + N+S
Sbjct: 271 TGHSQGLVTAVA--IAET----DSWESFFVSV------RKAITVLFFIGVRCYEAYPNTS 318
Query: 288 QPSQNHQEQRHMDSGAP 304
P ++ + G P
Sbjct: 319 LPPSILEDSLENNEGVP 335
>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 = 33.3 bits (75), Expect = 0.14
Identities = 43/389 (11%), Positives = 92/389 (23%), Gaps = 128/389 (32%)
Query: 55 LKGAG----SATGLRSKDRIRR-PMNAF-MIFSKRHRAKV---------HQIHPNQDNRT 99
+ G+G + S + F + + + +QI PN +R+
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217
Query: 100 VSKILGEWWYSLGPEEKQKYHELASEVKE-AHFKAHPE--------W-KW--------C- 140
K + H + +E++ K + C
Sbjct: 218 ----------DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK 267
Query: 141 ----SKDKRKS-STGSGRGKLGSMDEGTGEGFMPDD-LEHFENSLEMVTSS--------- 185
++ K+ + + S+D + PD+ L+
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHS-MTLTPDEVKSLLLKYLDCRPQDLPREVLTTN 326
Query: 186 -------------NETTVQYLLHPTG-RLSNIYSTGFQIPISSESL--GNVKQPTTPTVI 229
T H +L+ I I S L ++ +
Sbjct: 327 PRRLSIIAESIRDGLATWDNWKHVNCDKLTTI------IESSLNVLEPAEYRKMFDRLSV 380
Query: 230 VSKQSNIEMQNASV---AAANAELMQQADK-------NKDSEQQKYR------NFNLSQQ 273
++I S+ +++M +K K ++ + +
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLE 440
Query: 274 QQQQVHQQ---QQQNSSQPSQNHQEQRHMDSGAPNVPYQRSHEMDTSEPPGGGQENKGTG 330
+ +H+ + ++D Y SH
Sbjct: 441 NEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ------YFYSHIGH--------------- 479
Query: 331 PQTSHFKK-DKDLETEPMAKSFL-FSFKQ 357
H K + FL F F +
Sbjct: 480 ----HLKNIEHPERMTLFRMVFLDFRFLE 504
Score = 27.5 bits (60), Expect = 8.9
Identities = 14/84 (16%), Positives = 23/84 (27%), Gaps = 23/84 (27%)
Query: 256 KNKDSEQQKYRNFNLSQQQQQQVHQQ-----QQQN-----------SSQPSQN-----HQ 294
+KD+ R F +Q+++ Q+ + N QPS Q
Sbjct: 56 MSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ 115
Query: 295 EQRHMDSGAPNVPYQ--RSHEMDT 316
R + Y R
Sbjct: 116 RDRLYNDNQVFAKYNVSRLQPYLK 139
>3h28_A Sulfide-quinone reductase; monotopic membrane protein,
flavoprotein, polysulfur, oxidoreductase; HET: FAD DCQ
LMT; 2.00A {Aquifex aeolicus} PDB: 3h27_A* 3h29_A*
3hyv_A* 3hyw_A* 3hyx_A*
Length = 430
Score = 33.2 bits (76), Expect = 0.14
Identities = 10/45 (22%), Positives = 15/45 (33%), Gaps = 10/45 (22%)
Query: 61 ATGLRSKDRIRRPMNAFMIFSKRHRAKVHQ-----IHPNQDNRTV 100
A G R + I P+ + + + I P D TV
Sbjct: 49 AMGWRKFEDISVPLAPLL---PKFNIEFINEKAESIDP--DANTV 88
>3sx6_A Sulfide-quinone reductase, putative; sulfide:quinone
oxidoreductase, Cys356Ala variant, integral membrane
protein; HET: FAD LMT DCQ; 1.80A {Acidithiobacillus
ferrooxidans} PDB: 3t0k_A* 3szc_A* 3sz0_A* 3t2z_A*
3t31_A* 3sy4_A* 3syi_A* 3sxi_A* 3t14_A* 3t2k_A* 3szw_A*
3szf_A* 3kpg_A* 3kpi_A* 3t2y_A* 3kpk_A*
Length = 437
Score = 32.8 bits (75), Expect = 0.16
Identities = 7/45 (15%), Positives = 16/45 (35%), Gaps = 10/45 (22%)
Query: 61 ATGLRSKDRIRRPMNAFMIFSKRH-----RAKVHQIHPNQDNRTV 100
G + +D I P+ ++ +R QI + + +
Sbjct: 52 GVGWKERDDIAFPIRHYV---ERKGIHFIAQSAEQIDA--EAQNI 91
>2cto_A Novel protein; high mobility group box domain, helix-turn-helix,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 93
Score = 30.6 bits (68), Expect = 0.17
Identities = 16/68 (23%), Positives = 25/68 (36%), Gaps = 1/68 (1%)
Query: 71 RRPMNAFMIFSKRHRAKVH-QIHPNQDNRTVSKILGEWWYSLGPEEKQKYHELASEVKEA 129
+ NA+ F + ++ + P W L EEK+KY E+A E + A
Sbjct: 12 KASRNAYYFFVQEKIPELRRRGLPVARVADAIPYCSSDWALLREEEKEKYAEMAREWRAA 71
Query: 130 HFKAHPEW 137
K
Sbjct: 72 QGKDPGPS 79
>3h8l_A NADH oxidase; membrane protein, complete form, rossman-like fold,
oxidoreductase; HET: FAD; 2.57A {Acidianus ambivalens}
PDB: 3h8i_A*
Length = 409
Score = 31.2 bits (71), Expect = 0.49
Identities = 7/45 (15%), Positives = 15/45 (33%), Gaps = 10/45 (22%)
Query: 61 ATGLRSKDRIRRPMNAFMIFSKRH-----RAKVHQIHPNQDNRTV 100
A G+R D ++ ++ + V +I + V
Sbjct: 49 AIGVRDVDELKVDLSEAL---PEKGIQFQEGTVEKIDA--KSSMV 88
>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 = 30.2 bits (67), Expect = 1.3
Identities = 14/65 (21%), Positives = 22/65 (33%), Gaps = 3/65 (4%)
Query: 271 SQQQQQQVHQQQQQNSSQPSQNHQEQRHM---DSGAPNVPYQRSHEMDTSEPPGGGQENK 327
S +++ Q Q Q + Q + M D A + Y + P GQ+
Sbjct: 2 SHHKKRVYPQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQF 61
Query: 328 GTGPQ 332
T Q
Sbjct: 62 LTPAQ 66
Score = 29.8 bits (66), Expect = 1.7
Identities = 10/54 (18%), Positives = 15/54 (27%)
Query: 271 SQQQQQQVHQQQQQNSSQPSQNHQEQRHMDSGAPNVPYQRSHEMDTSEPPGGGQ 324
+Q QQ+ Q + N P VP Q + + P
Sbjct: 66 QEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAP 119
Score = 27.9 bits (61), Expect = 6.4
Identities = 12/67 (17%), Positives = 20/67 (29%)
Query: 269 NLSQQQQQQVHQQQQQNSSQPSQNHQEQRHMDSGAPNVPYQRSHEMDTSEPPGGGQENKG 328
Q+Q+HQQ Q ++ + H + + Q +M T
Sbjct: 60 QFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAP 119
Query: 329 TGPQTSH 335
Q S
Sbjct: 120 AYGQPSA 126
Score = 27.5 bits (60), Expect = 9.3
Identities = 12/75 (16%), Positives = 18/75 (24%)
Query: 262 QQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQEQRHMDSGAPNVPYQRSHEMDTSEPPG 321
++ Y L Q QQ Q + G P S P
Sbjct: 6 KRVYPQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPA 65
Query: 322 GGQENKGTGPQTSHF 336
Q ++ T+
Sbjct: 66 QEQLHQQIDQATTSM 80
>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 = 1.8
Identities = 9/61 (14%), Positives = 24/61 (39%), Gaps = 14/61 (22%)
Query: 236 IEMQNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQE 295
++ +A+ E ++A K+ + E + +Q +QV + + N + +
Sbjct: 98 LQELDAASKVMEQEWREKAKKDLE-EW--NQ------RQSEQVEKNKINN-----RIADK 143
Query: 296 Q 296
Sbjct: 144 A 144
>1ti6_A Pyrogallol hydroxytransferase large subunit; molybdenum binding
enzyme, MGD-cofactors, DMSO-reductase family,
4Fe-4S-cluster; HET: MGD BTT; 2.00A {Pelobacter
acidigallici} SCOP: b.52.2.2 c.81.1.1 PDB: 1ti2_A*
1ti4_A* 1vld_M* 1vle_M* 1vlf_M*
Length = 875
Score = 29.6 bits (66), Expect = 2.0
Identities = 8/50 (16%), Positives = 15/50 (30%)
Query: 25 FNGKQWRRLCSKDGCSKESQRRGYCSRHLSLKGAGSATGLRSKDRIRRPM 74
+ S ++ ++ AG + + S RI PM
Sbjct: 31 MDFDDAVDAPSWKIEARGKTFTPPRKTSIAPYTAGFKSMIYSDLRIPYPM 80
>3fz3_A Prunin; TREE NUT allergen, allergy, amandin, almond, 11S SEED
storage protein, allergen; 2.40A {Prunus dulcis} PDB:
3ehk_A
Length = 531
Score = 29.1 bits (64), Expect = 2.4
Identities = 24/126 (19%), Positives = 47/126 (37%), Gaps = 4/126 (3%)
Query: 177 NSLEMVTSSNETTVQYLLHPTGRLSNIYSTGFQIPISSESLGNVKQPTTPTVIVSKQSNI 236
N L + + SN + Y++ G L ++S + S+ + ++
Sbjct: 58 NGLHLPSYSNAPQLIYIVQGRGVLGAVFSGCPETFEESQQSSQQGRQQEQ----EQERQQ 113
Query: 237 EMQNASVAAANAELMQQADKNKDSEQQKYRNFNLSQQQQQQVHQQQQQNSSQPSQNHQEQ 296
+ Q + QQ + + +Q+ +QQQ Q + QQQ + HQ+
Sbjct: 114 QQQGEQGRQQGQQEQQQERQGRQQGRQQQEEGRQQEQQQGQQGRPQQQQQFRQLDRHQKT 173
Query: 297 RHMDSG 302
R + G
Sbjct: 174 RRIREG 179
>1fcd_A Flavocytochrome C sulfide dehydrogenase (flavin- binding subunit);
electron transport(flavocytochrome); HET: FAD HEM; 2.53A
{Allochromatium vinosum} SCOP: c.3.1.5 c.3.1.5 d.87.1.1
Length = 401
Score = 28.6 bits (64), Expect = 3.3
Identities = 8/43 (18%), Positives = 13/43 (30%), Gaps = 7/43 (16%)
Query: 61 ATGLRSKDRIRRPMNAFM---IFSKRHRAKVHQIHPNQDNRTV 100
G R + I+ + I + I P D + V
Sbjct: 49 IGGDRKLESIKHGYDGLRAHGI--QVVHDSATGIDP--DKKLV 87
>4dci_A Uncharacterized protein; PSI-biology, midwest center for structural
genomics, MCSG, S genomics, unknown function; 2.82A
{Synechococcus SP}
Length = 150
Score = 27.3 bits (60), Expect = 5.4
Identities = 19/85 (22%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 220 VKQPTTPTVIVSKQSNIEMQ---NASVAAANAELMQ--QADKNKDSEQQKYRNFNLSQQQ 274
+K+P T +V+ E + + +A A+ +L Q Q + + ++ L +
Sbjct: 12 IKRPITVRAVVTPTWKEEAEREISNGIANADQQLAQLEQEGQTVVDQVRRQSANPLDPRV 71
Query: 275 QQQVHQQQQQNSSQPSQNHQEQRHM 299
Q+QV QQQ + + S+ +++R++
Sbjct: 72 QEQVANIQQQVAGKRSELEEQKRNL 96
>2yik_A Endoglucanase; hydrolase; 2.10A {Clostridium thermocellum}
Length = 611
Score = 27.7 bits (61), Expect = 7.4
Identities = 9/33 (27%), Positives = 13/33 (39%)
Query: 240 NASVAAANAELMQQADKNKDSEQQKYRNFNLSQ 272
+A A + DK+ KY N+ SQ
Sbjct: 392 SARYNTAAQLIALVYDKHHGDTPSKYANWARSQ 424
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
0.310 0.125 0.366
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,012,323
Number of extensions: 272816
Number of successful extensions: 685
Number of sequences better than 10.0: 1
Number of HSP's gapped: 644
Number of HSP's successfully gapped: 81
Length of query: 357
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 262
Effective length of database: 4,049,298
Effective search space: 1060916076
Effective search space used: 1060916076
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 58 (26.2 bits)