RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3264
(156 letters)
>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 = 110 bits (277), Expect = 7e-32
Identities = 42/159 (26%), Positives = 69/159 (43%), Gaps = 24/159 (15%)
Query: 7 VKPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADK 66
V+ R + AF V + K + +E SK+ +WK ++E EK F + A K
Sbjct: 1 VQDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQK 60
Query: 67 DKKRYDTEMQSYTPP------------------------AGEKRGKIKQDNPEYGVGDIA 102
+ + + +Y E R KIK ++P +GD+A
Sbjct: 61 LQAMHREKYPNYKYRKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVA 120
Query: 103 KELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNR 141
K+LG+ W + K YE+ A K K +YEK++ AY+ +
Sbjct: 121 KKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAK 159
Score = 55.2 bits (133), Expect = 2e-10
Identities = 17/78 (21%), Positives = 37/78 (47%), Gaps = 2/78 (2%)
Query: 1 MPKEKDVKPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRF 60
+ P+ +A+ F R + K +HP + + +KK E W + +K+ +
Sbjct: 81 KKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHP--GLSIGDVAKKLGEMWNNTAADDKQPY 138
Query: 61 HEMADKDKKRYDTEMQSY 78
+ A K K++Y+ ++ +Y
Sbjct: 139 EKKAAKLKEKYEKDIAAY 156
>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 = 98.1 bits (244), Expect = 8e-27
Identities = 78/165 (47%), Positives = 103/165 (62%), Gaps = 24/165 (14%)
Query: 1 MPKEKDVKPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRF 60
M K KPRG+M++YAFFVQ CREEHKKKHP+ +V F+EFSKKC+ERWKTMS KEK +F
Sbjct: 8 MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKF 67
Query: 61 HEMADKDKKRYDTEMQSYTPPAG------------------------EKRGKIKQDNPEY 96
+MA DK RY+ EM++Y PP G E R KIK ++P
Sbjct: 68 EDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGL 127
Query: 97 GVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNR 141
+GD+AK+LG+ W + K YE+ A K K +YEK++ AY+ +
Sbjct: 128 SIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAK 172
>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1
Length = 83
Score = 89.3 bits (222), Expect = 2e-24
Identities = 52/77 (67%), Positives = 64/77 (83%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
KPRG+M++YAFFVQ REEHKKKHP+ +V F+EFSKKC+ERWKTMS KEK +F +MA D
Sbjct: 7 KPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKAD 66
Query: 68 KKRYDTEMQSYTPPAGE 84
K RY+ EM++Y PP GE
Sbjct: 67 KARYEREMKTYIPPKGE 83
Score = 53.8 bits (130), Expect = 1e-10
Identities = 20/59 (33%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 84 EKRGKIKQDNPEYGV--GDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKN 140
R + K+ +P+ V + +K+ ++W + K K+E MA+ DKARYE+EM Y
Sbjct: 21 TSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIP 79
>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 = 84.4 bits (209), Expect = 1e-22
Identities = 49/71 (69%), Positives = 61/71 (85%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
KPRG+M++YAFFVQ CREEHKKKHP+ +V F+EFSKKC+ERWKTMS KEK +F +MA D
Sbjct: 1 KPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKAD 60
Query: 68 KKRYDTEMQSY 78
K RY+ EM++Y
Sbjct: 61 KARYEREMKTY 71
Score = 52.0 bits (125), Expect = 4e-10
Identities = 20/57 (35%), Positives = 33/57 (57%), Gaps = 2/57 (3%)
Query: 84 EKRGKIKQDNPEYGV--GDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAY 138
R + K+ +P+ V + +K+ ++W + K K+E MA+ DKARYE+EM Y
Sbjct: 15 TCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTY 71
>2eqz_A High mobility group protein B3; HMG-box domain, mobility group
protein 2A, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 86
Score = 82.8 bits (205), Expect = 7e-22
Identities = 54/78 (69%), Positives = 61/78 (78%)
Query: 1 MPKEKDVKPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRF 60
M K KP+G+M+AYAFFVQ CREEHKKK+PE V FAEFSKKC+ERWKTMS KEK +F
Sbjct: 8 MAKGDPKKPKGKMSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMSGKEKSKF 67
Query: 61 HEMADKDKKRYDTEMQSY 78
EMA DK RYD EM+ Y
Sbjct: 68 DEMAKADKVRYDREMKDY 85
Score = 51.2 bits (123), Expect = 1e-09
Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 2/57 (3%)
Query: 84 EKRGKIKQDNPEYG--VGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAY 138
R + K+ NPE + +K+ ++W + K+K+++MA+ DK RY++EM Y
Sbjct: 29 TCREEHKKKNPEVPVNFAEFSKKCSERWKTMSGKEKSKFDEMAKADKVRYDREMKDY 85
>3fgh_A Transcription factor A, mitochondrial; HMG domain, mitochondrial
transcription, activator, DNA- binding, mitochondrion,
phosphoprotein; 1.35A {Homo sapiens}
Length = 67
Score = 67.7 bits (166), Expect = 3e-16
Identities = 23/71 (32%), Positives = 37/71 (52%), Gaps = 6/71 (8%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
KP+ +AY +V +E K P+E K E WK +S+ EK+ + + A +D
Sbjct: 2 KPKRPRSAYNVYVAERFQEAKGDSPQE------KLKTVKENWKNLSDSEKELYIQHAKED 55
Query: 68 KKRYDTEMQSY 78
+ RY EM+S+
Sbjct: 56 ETRYHNEMKSW 66
Score = 52.3 bits (126), Expect = 3e-10
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAY 138
E+ + K D+P+ + K + + W ++ S K Y Q A++D+ RY EM ++
Sbjct: 16 ERFQEAKGDSPQ----EKLKTVKENWKNLSDSEKELYIQHAKEDETRYHNEMKSW 66
>2lhj_A High mobility group protein homolog NHP1; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; NMR {Babesia bovis}
Length = 97
Score = 67.4 bits (165), Expect = 9e-16
Identities = 22/71 (30%), Positives = 37/71 (52%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
P+ +++Y FF + R E ++PE A K W +S++EKK + M+D+D
Sbjct: 22 APKRALSSYMFFAKEKRVEIIAENPEIAKDVAAIGKMIGAAWNALSDEEKKPYERMSDED 81
Query: 68 KKRYDTEMQSY 78
+ RY+ E Y
Sbjct: 82 RVRYEREKAEY 92
Score = 54.7 bits (132), Expect = 7e-11
Identities = 24/62 (38%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 84 EKRGKIKQDNPEYG--VGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNR 141
EKR +I +NPE V I K +G W + K YE+M+++D+ RYE+E Y R
Sbjct: 36 EKRVEIIAENPEIAKDVAAIGKMIGAAWNALSDEEKKPYERMSDEDRVRYEREKAEYAQR 95
Query: 142 SV 143
V
Sbjct: 96 KV 97
>3tq6_A Transcription factor A, mitochondrial; transcription, transcription
regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo
sapiens}
Length = 214
Score = 69.0 bits (168), Expect = 3e-15
Identities = 29/179 (16%), Positives = 65/179 (36%), Gaps = 51/179 (28%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
P+ +++Y F + K ++P+ E ++ A+RW+ + + +KK + + +
Sbjct: 9 CPKKPVSSYLRFSKEQLPIFKAQNPDAK--TTELIRRIAQRWRELPDSKKKIYQDAYRAE 66
Query: 68 KKRYDTEMQSYTPPAG-------------------------------------------- 83
+ Y E+ +
Sbjct: 67 WQVYKEEISRFKEQLTPSQIMSLEKEIMDKHLKRKAMTKKKELTLLGKPKRPRSAYNVYV 126
Query: 84 -EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNR 141
E+ + K D+P + K + + W ++ S K Y Q A++D+ RY EM +++ +
Sbjct: 127 AERFQEAKGDSP----QEKLKTVKENWKNLSDSEKELYIQHAKEDETRYHNEMKSWEEQ 181
>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 = 63.8 bits (156), Expect = 1e-14
Identities = 24/58 (41%), Positives = 37/58 (63%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNR 141
E R KIK ++P +GD+AK+LG+ W + K YE+ A K K +YEK++ AY+ +
Sbjct: 20 EYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAK 77
Score = 61.1 bits (149), Expect = 2e-13
Identities = 17/71 (23%), Positives = 36/71 (50%), Gaps = 2/71 (2%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
P+ +A+ F R + K +HP + + +KK E W + +K+ + + A K
Sbjct: 6 APKRPPSAFFLFCSEYRPKIKGEHP--GLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKL 63
Query: 68 KKRYDTEMQSY 78
K++Y+ ++ +Y
Sbjct: 64 KEKYEKDIAAY 74
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 92
Score = 64.0 bits (156), Expect = 2e-14
Identities = 24/86 (27%), Positives = 45/86 (52%), Gaps = 2/86 (2%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
+ M+A A FVQ R + ++P+ + + + + E WKT+SE+EK ++ E A KD
Sbjct: 7 GIKKPMSASALFVQDHRPQFLIENPKTS--LEDATLQIEELWKTLSEEEKLKYEEKATKD 64
Query: 68 KKRYDTEMQSYTPPAGEKRGKIKQDN 93
+RY+++M+ + K +
Sbjct: 65 LERYNSQMKRAIEQESQMSLKDSGPS 90
Score = 57.4 bits (139), Expect = 6e-12
Identities = 15/56 (26%), Positives = 26/56 (46%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
+ R + +NP+ + D ++ + W + K KYE+ A KD RY +M
Sbjct: 21 DHRPQFLIENPKTSLEDATLQIEELWKTLSEEEKLKYEEKATKDLERYNSQMKRAI 76
>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 = 62.4 bits (152), Expect = 8e-14
Identities = 23/70 (32%), Positives = 39/70 (55%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNRSV 143
E+R +I+ +P+ +I K LG +W+ + P+ K +Y AEK+K +Y KE+ AY+
Sbjct: 21 ERREQIRTRHPDLPFPEITKMLGAEWSKLQPAEKQRYLDEAEKEKQQYLKELWAYQQSEA 80
Query: 144 APVNEEADEE 153
V E+
Sbjct: 81 YKVCTESGPS 90
Score = 58.2 bits (141), Expect = 3e-12
Identities = 22/86 (25%), Positives = 42/86 (48%), Gaps = 2/86 (2%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
P+ +T Y F+ RE+ + +HP ++ F E +K W + EK+R+ + A+K+
Sbjct: 7 GPKAPVTGYVRFLNERREQIRTRHP--DLPFPEITKMLGAEWSKLQPAEKQRYLDEAEKE 64
Query: 68 KKRYDTEMQSYTPPAGEKRGKIKQDN 93
K++Y E+ +Y K +
Sbjct: 65 KQQYLKELWAYQQSEAYKVCTESGPS 90
>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 = 63.3 bits (153), Expect = 5e-13
Identities = 29/179 (16%), Positives = 65/179 (36%), Gaps = 51/179 (28%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
P+ +++Y F + K ++P+ E ++ A+RW+ + + +KK + + +
Sbjct: 41 CPKKPVSSYLRFSKEQLPIFKAQNPDAK--TTELIRRIAQRWRELPDSKKKIYQDAYRAE 98
Query: 68 KKRYDTEMQSYTPPAG-------------------------------------------- 83
+ Y E+ +
Sbjct: 99 WQVYKEEISRFKEQLTPSQIMSLEKEIMDKHLKRKAMTKKKELTLLGKPKRPRSAYNVYV 158
Query: 84 -EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNR 141
E+ + K D+P + K + + W ++ S K Y Q A++D+ RY EM +++ +
Sbjct: 159 AERFQEAKGDSP----QEKLKTVKENWKNLSDSEKELYIQHAKEDETRYHNEMKSWEEQ 213
Score = 41.7 bits (97), Expect = 2e-05
Identities = 12/73 (16%), Positives = 33/73 (45%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNRSV 143
E+ K NP+ ++ + + ++W ++ S K Y+ + Y++E++ +K +
Sbjct: 55 EQLPIFKAQNPDAKTTELIRRIAQRWRELPDSKKKIYQDAYRAEWQVYKEEISRFKEQLT 114
Query: 144 APVNEEADEEDDE 156
++E +
Sbjct: 115 PSQIMSLEKEIMD 127
>1wxl_A Single-strand recognition protein; FACT, SSRP1, HMG, DNA binding
protein; NMR {Drosophila melanogaster}
Length = 73
Score = 59.2 bits (144), Expect = 7e-13
Identities = 24/59 (40%), Positives = 35/59 (59%), Gaps = 2/59 (3%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNRS 142
+ R IK++NP V +IAK+ G+ W ++ K+K+E A KDK RY EM YK +
Sbjct: 17 DTRESIKRENPGIKVTEIAKKGGEMWKELKD--KSKWEDAAAKDKQRYHDEMRNYKPEA 73
Score = 58.8 bits (143), Expect = 1e-12
Identities = 26/75 (34%), Positives = 42/75 (56%), Gaps = 4/75 (5%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
P+ TA+ ++ RE K+++P + E +KK E WK + +K K + + A KD
Sbjct: 3 MPKRATTAFMLWLNDTRESIKRENP--GIKVTEIAKKGGEMWKELKDKSK--WEDAAAKD 58
Query: 68 KKRYDTEMQSYTPPA 82
K+RY EM++Y P A
Sbjct: 59 KQRYHDEMRNYKPEA 73
>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 = 58.9 bits (143), Expect = 2e-12
Identities = 23/71 (32%), Positives = 42/71 (59%), Gaps = 2/71 (2%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
P+ ++AY FF R+ + ++P ++ F + KK E+WK ++ +EK+ + A D
Sbjct: 20 APKRALSAYMFFANENRDIVRSENP--DITFGQVGKKLGEKWKALTPEEKQPYEAKAQAD 77
Query: 68 KKRYDTEMQSY 78
KKRY++E + Y
Sbjct: 78 KKRYESEKELY 88
Score = 58.1 bits (141), Expect = 3e-12
Identities = 22/57 (38%), Positives = 31/57 (54%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKN 140
E R ++ +NP+ G + K+LG+KW + P K YE A+ DK RYE E Y
Sbjct: 34 ENRDIVRSENPDITFGQVGKKLGEKWKALTPEEKQPYEAKAQADKKRYESEKELYNA 90
>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box
domain, structural genomics, NPPSFA; NMR {Mus musculus}
Length = 102
Score = 58.6 bits (142), Expect = 3e-12
Identities = 15/58 (25%), Positives = 27/58 (46%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNR 141
+ + IK NP G+++K + W + K Y++ E K Y K++ AY+
Sbjct: 31 DTQAAIKGQNPNATFGEVSKIVASMWDGLGEEQKQVYKKKTEAAKKEYLKQLAAYRAS 88
Score = 55.9 bits (135), Expect = 3e-11
Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
+P+ ++AYA F + + K ++P N F E SK A W + E++K+ + + +
Sbjct: 17 EPQKPVSAYALFFRDTQAAIKGQNP--NATFGEVSKIVASMWDGLGEEQKQVYKKKTEAA 74
Query: 68 KKRYDTEMQSY 78
KK Y ++ +Y
Sbjct: 75 KKEYLKQLAAY 85
>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 = 57.3 bits (139), Expect = 4e-12
Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
R IK++NP V ++AK G+ W + K+++E A K K Y++ + ++
Sbjct: 17 SARESIKRENPGIKVTEVAKRGGELWRAMKD--KSEWEAKAAKAKDDYDRAVKEFE 70
Score = 56.1 bits (136), Expect = 1e-11
Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 4/71 (5%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
KP+ ++AYA ++ RE K+++P + E +K+ E W+ M +K + + A K
Sbjct: 3 KPKRPLSAYALWLNSARESIKRENP--GIKVTEVAKRGGELWRAMKDKSE--WEAKAAKA 58
Query: 68 KKRYDTEMQSY 78
K YD ++ +
Sbjct: 59 KDDYDRAVKEF 69
>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 = 55.8 bits (135), Expect = 3e-11
Identities = 14/58 (24%), Positives = 29/58 (50%)
Query: 82 AGEKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
+ EKR +++++ PE ++ + L + W D+ K KY+ KA+ E++
Sbjct: 32 SEEKRRQLQEERPELSESELTRLLARMWNDLSEKKKAKYKAREAALKAQSERKSGPSS 89
Score = 51.2 bits (123), Expect = 1e-09
Identities = 15/78 (19%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 2 PKEKDVKPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFH 61
K KP+ ++A F + R + +++ P + +E ++ A W +SEK+K ++
Sbjct: 14 GKGGSEKPKRPVSAMFIFSEEKRRQLQEERP--ELSESELTRLLARMWNDLSEKKKAKYK 71
Query: 62 EMADKDKKRYDTEMQSYT 79
K + + + +
Sbjct: 72 AREAALKAQSERKSGPSS 89
>1k99_A Upstream binding factor 1; alpha-helix, L-shape, DNA binding
protein; NMR {Homo sapiens} SCOP: a.21.1.1
Length = 99
Score = 55.9 bits (135), Expect = 3e-11
Identities = 17/58 (29%), Positives = 31/58 (53%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNR 141
EKR K + +PE D+ K L KK+ ++ K KY Q +++K +E+ + ++
Sbjct: 24 EKRAKYAKLHPEMSNLDLTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFRED 81
Score = 52.0 bits (125), Expect = 7e-10
Identities = 15/71 (21%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
P+ +T Y F R ++ K HPE + + +K ++++K + EK+K ++ + ++
Sbjct: 10 FPKKPLTPYFRFFMEKRAKYAKLHPEMS--NLDLTKILSKKYKELPEKKKMKYIQDFQRE 67
Query: 68 KKRYDTEMQSY 78
K+ ++ + +
Sbjct: 68 KQEFERNLARF 78
>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 = 48.4 bits (115), Expect = 2e-08
Identities = 12/66 (18%), Positives = 29/66 (43%), Gaps = 4/66 (6%)
Query: 13 MTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDKKRYD 72
M Y F Q + H E + RW+ +S+ +K+ + ++A++ +++Y
Sbjct: 13 MNGYQKFSQELLSNGELNHLP----LKERMVEIGSRWQRISQSQKEHYKKLAEEQQRQYK 68
Query: 73 TEMQSY 78
+ +
Sbjct: 69 VHLDLW 74
Score = 37.2 bits (86), Expect = 3e-04
Identities = 9/40 (22%), Positives = 22/40 (55%)
Query: 100 DIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
+ E+G +W + S K Y+++AE+ + +Y+ + +
Sbjct: 36 ERMVEIGSRWQRISQSQKEHYKKLAEEQQRQYKVHLDLWV 75
>4a3n_A Transcription factor SOX-17; 2.40A {Homo sapiens}
Length = 71
Score = 43.0 bits (102), Expect = 9e-07
Identities = 14/56 (25%), Positives = 32/56 (57%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
++R ++ Q NP+ +++K LGK W + + K + + AE+ + ++ ++ YK
Sbjct: 16 DERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQDHPNYK 71
Score = 38.3 bits (90), Expect = 6e-05
Identities = 15/58 (25%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 13 MTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDKKR 70
M A+ + + R+ +++P+ + AE SK + WK ++ EK+ F E A++ + +
Sbjct: 7 MNAFMVWAKDERKRLAQQNPDLHN--AELSKMLGKSWKALTLAEKRPFVEEAERLRVQ 62
>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 = 43.4 bits (103), Expect = 1e-06
Identities = 17/56 (30%), Positives = 26/56 (46%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
R ++Q++P K L WA +DP K KY MA++ K + K Y+
Sbjct: 21 RHRSLVRQEHPRLDNRGATKILADWWAVLDPKEKQKYTDMAKEYKDAFMKANPGYR 76
Score = 39.5 bits (93), Expect = 2e-05
Identities = 15/58 (25%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 13 MTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDKKR 70
M A+ F + R +++HP + +K A+ W + KEK+++ +MA + K
Sbjct: 12 MNAFLLFCKRHRSLVRQEHPRLDN--RGATKILADWWAVLDPKEKQKYTDMAKEYKDA 67
>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 = 42.0 bits (99), Expect = 4e-06
Identities = 9/51 (17%), Positives = 18/51 (35%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKE 134
+ R + Q P I+ LG +W + + Y A+ ++
Sbjct: 31 KYRVEYTQMYPGKDNRAISVILGDRWKKMKNEERRMYTLEAKALAEEQKRL 81
Score = 38.2 bits (89), Expect = 1e-04
Identities = 14/69 (20%), Positives = 28/69 (40%), Gaps = 2/69 (2%)
Query: 3 KEKDVKPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHE 62
K + M A+ F + R E+ + +P ++ S +RWK M +E++ +
Sbjct: 12 ATSPNKCKRPMNAFMLFAKKYRVEYTQMYPGKD--NRAISVILGDRWKKMKNEERRMYTL 69
Query: 63 MADKDKKRY 71
A +
Sbjct: 70 EAKALAEEQ 78
>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 = 42.3 bits (99), Expect = 5e-06
Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 6/70 (8%)
Query: 9 PRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDK 68
+ +Y+ + K E C+++WK +S+KEK +H+ D+ K
Sbjct: 18 TKPPPNSYSLYCAELMANMKDVPS------TERMVLCSQQWKLLSQKEKDAYHKKCDQKK 71
Query: 69 KRYDTEMQSY 78
K Y+ E+ +
Sbjct: 72 KDYEVELLRF 81
Score = 35.7 bits (82), Expect = 0.001
Identities = 7/54 (12%), Positives = 20/54 (37%)
Query: 88 KIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNR 141
++ + + + ++W + K Y + ++ K YE E+ +
Sbjct: 31 ELMANMKDVPSTERMVLCSQQWKLLSQKEKDAYHKKCDQKKKDYEVELLRFLES 84
>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 = 41.0 bits (97), Expect = 6e-06
Identities = 16/56 (28%), Positives = 32/56 (57%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
++R K+ +NP +I+K+LG +W + + K + Q A+K +A + ++ YK
Sbjct: 18 DQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYK 73
Score = 39.5 bits (93), Expect = 3e-05
Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 13 MTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDKKR 70
M A+ + + R + ++P +E SK+ +WK ++E EK F + A K +
Sbjct: 9 MNAFIVWSRDQRRKMALENPRMRN--SEISKQLGYQWKMLTEAEKWPFFQEAQKLQAM 64
>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 = 41.0 bits (97), Expect = 8e-06
Identities = 16/56 (28%), Positives = 32/56 (57%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
++R K+ +NP +I+K+LG +W + + K + Q A+K +A + ++ YK
Sbjct: 18 DQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYK 73
Score = 39.5 bits (93), Expect = 3e-05
Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 13 MTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDKKR 70
M A+ + + R + ++P +E SK+ +WK ++E EK F + A K +
Sbjct: 9 MNAFIVWSRDQRRKMALENPRMRN--SEISKQLGYQWKMLTEAEKWPFFQEAQKLQAM 64
>3u2b_C Transcription factor SOX-4; HMG domain, transcriptional regulation,
transcription-DNA CO; HET: DNA; 2.40A {Mus musculus}
Length = 79
Score = 41.0 bits (97), Expect = 8e-06
Identities = 17/56 (30%), Positives = 31/56 (55%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
+R KI + +P+ +I+K LGK+W + S K + Q AE+ + ++ + YK
Sbjct: 16 IERRKIMEQSPDMHNAEISKRLGKRWKLLKDSDKIPFIQEAERLRLKHMADYPDYK 71
Score = 39.9 bits (94), Expect = 2e-05
Identities = 15/58 (25%), Positives = 33/58 (56%), Gaps = 2/58 (3%)
Query: 13 MTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDKKR 70
M A+ + Q+ R + ++ P+ + AE SK+ +RWK + + +K F + A++ + +
Sbjct: 7 MNAFMVWSQIERRKIMEQSPDMHN--AEISKRLGKRWKLLKDSDKIPFIQEAERLRLK 62
>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 = 40.6 bits (96), Expect = 1e-05
Identities = 17/56 (30%), Positives = 31/56 (55%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
+R K+ Q+NP+ +I+K LG +W + + K + A++ +A + KE YK
Sbjct: 16 GQRRKMAQENPKMHNSEISKRLGAEWKLLSETEKRPFIDEAKRLRALHMKEHPDYK 71
Score = 38.7 bits (91), Expect = 5e-05
Identities = 15/58 (25%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 13 MTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDKKR 70
M A+ + + R + +++P+ + +E SK+ WK +SE EK+ F + A + +
Sbjct: 7 MNAFMVWSRGQRRKMAQENPKMHN--SEISKRLGAEWKLLSETEKRPFIDEAKRLRAL 62
>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 = 40.3 bits (95), Expect = 1e-05
Identities = 14/56 (25%), Positives = 32/56 (57%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
++R ++ Q NP+ +++K LGK W + + K + + AE+ + ++ ++ YK
Sbjct: 20 DERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQDHPNYK 75
Score = 39.5 bits (93), Expect = 3e-05
Identities = 15/58 (25%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 13 MTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDKKR 70
M A+ + + R+ +++P+ + AE SK + WK ++ EK+ F E A++ + +
Sbjct: 11 MNAFMVWAKDERKRLAQQNPDLHN--AELSKMLGKSWKALTLAEKRPFVEEAERLRVQ 66
>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 = 40.3 bits (95), Expect = 1e-05
Identities = 11/58 (18%), Positives = 26/58 (44%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNR 141
E R + ++ I + LG++W + + KY ++A K++ + + + R
Sbjct: 16 EMRANVVAESTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSAR 73
Score = 34.5 bits (80), Expect = 0.002
Identities = 11/59 (18%), Positives = 30/59 (50%), Gaps = 4/59 (6%)
Query: 13 MTAYAFFVQVCREEHKKKHPE-ENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDKKR 70
+ A+ +++ R + E+ A ++ RW +S +E+ +++E+A K+++
Sbjct: 7 LNAFMLYMKEMRANVVAESTLKES---AAINQILGRRWHALSREEQAKYYELARKERQL 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 = 40.2 bits (95), Expect = 1e-05
Identities = 14/56 (25%), Positives = 27/56 (48%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
++R KI Q P+ +I+K LG +W + K Y + + ++ ++ YK
Sbjct: 18 DERRKILQAFPDMHNSNISKILGSRWKAMTNLEKQPYYEEQARLSKQHLEKYPDYK 73
Score = 32.9 bits (76), Expect = 0.006
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 39 AEFSKKCAERWKTMSEKEKKRFHEMADKDKKR 70
+ SK RWK M+ EK+ ++E + K+
Sbjct: 33 SNISKILGSRWKAMTNLEKQPYYEEQARLSKQ 64
>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 = 40.8 bits (96), Expect = 2e-05
Identities = 15/56 (26%), Positives = 29/56 (51%)
Query: 84 EKRGKIKQDNPEYGVGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYK 139
R K+ P +++K LGK W ++ S K + + AE+ + +++K+ YK
Sbjct: 43 AARRKLADQYPHLHNAELSKTLGKLWRLLNESEKRPFVEEAERLRVQHKKDHPDYK 98
Score = 37.7 bits (88), Expect = 2e-04
Identities = 16/58 (27%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 13 MTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDKKR 70
M A+ + Q R + ++P + AE SK + W+ ++E EK+ F E A++ + +
Sbjct: 34 MNAFMVWAQAARRKLADQYPHLHN--AELSKTLGKLWRLLNESEKRPFVEEAERLRVQ 89
>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 = 0.012
Identities = 18/156 (11%), Positives = 36/156 (23%), Gaps = 28/156 (17%)
Query: 24 REEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDKKRYD-TEMQSYTP-- 80
E +P + AE + W + + + + E +
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL 378
Query: 81 ---PAGEKRGKIK--------QDNPEYGVGDIAKELGKK-WADVDPSVKTKYE----QMA 124
P I D + V + +L K + P ++ +
Sbjct: 379 SVFPPSA---HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK-ESTISIPSIYLE 434
Query: 125 EKDKARYEKEM-----TAYKNRSVAPVNEEADEEDD 155
K K E + Y ++ D
Sbjct: 435 LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470
>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 = 32.1 bits (72), Expect = 0.015
Identities = 12/77 (15%), Positives = 29/77 (37%), Gaps = 1/77 (1%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
T + +++ R +P+ + A+ K+ R++ +S +E+K + A +
Sbjct: 5 SSGRPKTGFQMWLEENRSNILSDNPDFSDE-ADIIKEGMIRFRVLSTEERKVWANKAKGE 63
Query: 68 KKRYDTEMQSYTPPAGE 84
TE +
Sbjct: 64 TASEGTEAKKRKSGPSS 80
Score = 31.3 bits (70), Expect = 0.026
Identities = 14/58 (24%), Positives = 24/58 (41%), Gaps = 1/58 (1%)
Query: 84 EKRGKIKQDNPEYG-VGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKN 140
E R I DNP++ DI KE ++ + + + A+ + A E K+
Sbjct: 19 ENRSNILSDNPDFSDEADIIKEGMIRFRVLSTEERKVWANKAKGETASEGTEAKKRKS 76
>2cto_A Novel protein; high mobility group box domain, helix-turn-helix,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 93
Score = 30.2 bits (67), Expect = 0.083
Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 8 KPRGRMTAYAFFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKD 67
+ AY FFVQ E +++ V A+ C+ W + E+EK+++ EMA +
Sbjct: 10 NRKASRNAYYFFVQEKIPELRRRGLPVARV-ADAIPYCSSDWALLREEEKEKYAEMAREW 68
Query: 68 KK 69
+
Sbjct: 69 RA 70
>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 = 27.6 bits (60), Expect = 1.4
Identities = 6/30 (20%), Positives = 10/30 (33%), Gaps = 11/30 (36%)
Query: 56 EKKRFHEMADKDKKRYDTEMQSYTP---PA 82
EK+ K+ ++ Y PA
Sbjct: 18 EKQAL--------KKLQASLKLYADDSAPA 39
>3jyw_M 60S ribosomal protein L16(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
1s1i_M
Length = 178
Score = 26.7 bits (59), Expect = 2.5
Identities = 8/47 (17%), Positives = 13/47 (27%), Gaps = 3/47 (6%)
Query: 98 VGDIAKELGKKWADVDPSVKTKYEQMAEKDKARYEKEMTAYKNRSVA 144
+G ++ +G K A A A A + A
Sbjct: 132 LGKLSTSVGWKAAAA---AAAAAAAAAAAAAAAAAAAAAAAAAAAAA 175
>2dk3_A E3 ubiquitin-protein ligase hectd1; MIB-HERC2 domain, HECT domain
containing protein 1, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: b.34.19.1
Length = 86
Score = 25.7 bits (56), Expect = 3.8
Identities = 9/22 (40%), Positives = 10/22 (45%)
Query: 91 QDNPEYGVGDIAKELGKKWADV 112
QD G G + EL W DV
Sbjct: 33 QDGSPQGEGTVTGELHNGWIDV 54
>3fhn_A Protein transport protein TIP20; TIP20P, vesicle tethering,
endoplasmic reticulum, ER-golgi transport, membrane,
phosphoprotein; 3.00A {Saccharomyces cerevisiae}
Length = 706
Score = 26.0 bits (56), Expect = 6.6
Identities = 7/60 (11%), Positives = 19/60 (31%), Gaps = 1/60 (1%)
Query: 18 FFVQVCREEHKKKHPEENVVFAEFSKKCAERWKTMSEKE-KKRFHEMADKDKKRYDTEMQ 76
F+Q+ + + + N +F + T + R ++ + + Y
Sbjct: 484 IFIQLTDIVNSTESKKYNSLFQNVENDYEKAMSTDMQNSIVHRIQKLLKETLRNYFKIST 543
>3dkm_A E3 ubiquitin-protein ligase hectd1; UBL conjugation, UBL
conjugation pathway, structural genomics consortium,
SGC;, ANK repeat, NPPSFA; 1.60A {Homo sapiens}
Length = 89
Score = 24.9 bits (54), Expect = 7.4
Identities = 9/22 (40%), Positives = 10/22 (45%)
Query: 91 QDNPEYGVGDIAKELGKKWADV 112
QD G G + EL W DV
Sbjct: 39 QDGSPQGEGTVTGELHNGWIDV 60
>2iu4_A DHA-DHAQ, dihydroxyacetone kinase; transferase, CO-activa kinase;
HET: HIQ; 1.96A {Lactococcus lactis} PDB: 2iu6_A
Length = 336
Score = 25.3 bits (56), Expect = 9.8
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 1/37 (2%)
Query: 79 TPPAGEKRGKIKQDNPEYGVGDIAKELGKKWADVDPS 115
P + + +D +G+G I E G + + S
Sbjct: 193 HFPHQKTSFVLAEDEVSFGIG-IXGEPGYRVEKFEGS 228
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.1 bits (54), Expect = 9.9
Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 14/69 (20%)
Query: 25 EEHKKKHPEENVVFAEFSKKCAERWKTMSEKEKKRFHEMADKDKKRYDTEMQSYTPPAGE 84
E +K EE +R + + K E +K KK +++ + E
Sbjct: 84 PESIRKWREEQ----------RKRLQELDAASKVMEQEWREKAKK----DLEEWNQRQSE 129
Query: 85 KRGKIKQDN 93
+ K K +N
Sbjct: 130 QVEKNKINN 138
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
0.308 0.126 0.363
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: 2,461,928
Number of extensions: 143179
Number of successful extensions: 489
Number of sequences better than 10.0: 1
Number of HSP's gapped: 438
Number of HSP's successfully gapped: 112
Length of query: 156
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 70
Effective length of database: 4,300,587
Effective search space: 301041090
Effective search space used: 301041090
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 53 (24.3 bits)