RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14923
(180 letters)
>3tq6_A Transcription factor A, mitochondrial; transcription, transcription
regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo
sapiens}
Length = 214
Score = 73.3 bits (179), Expect = 1e-16
Identities = 32/130 (24%), Positives = 72/130 (55%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKE 105
PKKP++ Y +F + +NP+ K E+ + +++ W+++ +++KK ++ Y E
Sbjct: 7 ASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELPDSKKKIYQDAYRAE 66
Query: 106 KEIYAQNVKKYHDELTPEAIEFLRKEKEVKKQKKEKREMKKLFRETGKPKKPGNSFYLFI 165
++Y + + ++ ++LTP I L KE K K++ KK GKPK+P +++ +++
Sbjct: 67 WQVYKEEISRFKEQLTPSQIMSLEKEIMDKHLKRKAMTKKKELTLLGKPKRPRSAYNVYV 126
Query: 166 KDNIDKKEYE 175
+ + + +
Sbjct: 127 AERFQEAKGD 136
Score = 51.3 bits (122), Expect = 1e-08
Identities = 21/110 (19%), Positives = 46/110 (41%), Gaps = 4/110 (3%)
Query: 36 KQQTSQPLSIPEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEK 95
+ L++ KPK+P + Y + + + +P E K V E WK + ++EK
Sbjct: 102 AMTKKKELTLLGKPKRPRSAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLSDSEK 157
Query: 96 KRLENEYAKEKEIYAQNVKKYHDELTPEAIEFLRKEKEVKKQKKEKREMK 145
+ +++ Y +K + +++ + L + K++K E
Sbjct: 158 ELYIQHAKEDETRYHNEMKSWEEQMIEVGRKDLLRRTIKKQRKYGAEECL 207
>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 = 68.2 bits (167), Expect = 7e-16
Identities = 26/72 (36%), Positives = 42/72 (58%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKE 105
PK P+T Y +F + R +I R+P++ E+TK++ EW K+ AEK+R +E KE
Sbjct: 5 SSGPKAPVTGYVRFLNERREQIRTRHPDLPFPEITKMLGAEWSKLQPAEKQRYLDEAEKE 64
Query: 106 KEIYAQNVKKYH 117
K+ Y + + Y
Sbjct: 65 KQQYLKELWAYQ 76
>1k99_A Upstream binding factor 1; alpha-helix, L-shape, DNA binding
protein; NMR {Homo sapiens} SCOP: a.21.1.1
Length = 99
Score = 68.2 bits (167), Expect = 8e-16
Identities = 24/88 (27%), Positives = 54/88 (61%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKE 105
P+ PKKPLTPYF+F + R K + +P + +++TK++S+++K++ E +K + ++ +E
Sbjct: 8 PDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPEKKKMKYIQDFQRE 67
Query: 106 KEIYAQNVKKYHDELTPEAIEFLRKEKE 133
K+ + +N+ ++ ++ + E
Sbjct: 68 KQEFERNLARFREDHPDLIQNAKKLEHH 95
>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 = 69.5 bits (169), Expect = 5e-15
Identities = 34/148 (22%), Positives = 77/148 (52%)
Query: 28 NSVTTAGLKQQTSQPLSIPEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEW 87
+ T G + + PKKP++ Y +F + +NP+ K E+ + +++ W
Sbjct: 21 MASMTGGQQMGRGSSSVLASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRW 80
Query: 88 KKIGEAEKKRLENEYAKEKEIYAQNVKKYHDELTPEAIEFLRKEKEVKKQKKEKREMKKL 147
+++ +++KK ++ Y E ++Y + + ++ ++LTP I L KE K K++ KK
Sbjct: 81 RELPDSKKKIYQDAYRAEWQVYKEEISRFKEQLTPSQIMSLEKEIMDKHLKRKAMTKKKE 140
Query: 148 FRETGKPKKPGNSFYLFIKDNIDKKEYE 175
GKPK+P +++ +++ + + + +
Sbjct: 141 LTLLGKPKRPRSAYNVYVAERFQEAKGD 168
Score = 51.8 bits (123), Expect = 1e-08
Identities = 21/120 (17%), Positives = 47/120 (39%), Gaps = 4/120 (3%)
Query: 24 MPHLNSVTTAGLKQQTSQPLSIPEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLV 83
+ + L++ KPK+P + Y + + + +P E K V
Sbjct: 122 EKEIMDKHLKRKAMTKKKELTLLGKPKRPRSAYNVYVAERFQEAKGDSPQ----EKLKTV 177
Query: 84 SEEWKKIGEAEKKRLENEYAKEKEIYAQNVKKYHDELTPEAIEFLRKEKEVKKQKKEKRE 143
E WK + ++EK+ +++ Y +K + +++ + L + K++K E
Sbjct: 178 KENWKNLSDSEKELYIQHAKEDETRYHNEMKSWEEQMIEVGRKDLLRRTIKKQRKYGAEE 237
>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box
domain, structural genomics, NPPSFA; NMR {Mus musculus}
Length = 102
Score = 65.9 bits (161), Expect = 7e-15
Identities = 22/79 (27%), Positives = 41/79 (51%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKE 105
P +P+KP++ Y F + I +NPN EV+K+V+ W +GE +K+ + +
Sbjct: 15 PNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLGEEQKQVYKKKTEAA 74
Query: 106 KEIYAQNVKKYHDELTPEA 124
K+ Y + + Y L ++
Sbjct: 75 KKEYLKQLAAYRASLVSKS 93
>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 = 62.7 bits (153), Expect = 7e-14
Identities = 23/71 (32%), Positives = 37/71 (52%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKE 105
P PK+P + +F F + R KI +P + I +V K + E W +K+ E + AK
Sbjct: 4 PNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKL 63
Query: 106 KEIYAQNVKKY 116
KE Y +++ Y
Sbjct: 64 KEKYEKDIAAY 74
>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 = 62.7 bits (153), Expect = 9e-14
Identities = 25/88 (28%), Positives = 45/88 (51%)
Query: 30 VTTAGLKQQTSQPLSIPEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKK 89
VT K++T++ P PK+ L+ Y F + R+ + NP+I +V K + E+WK
Sbjct: 2 VTPREPKKRTTRKKKDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKA 61
Query: 90 IGEAEKKRLENEYAKEKEIYAQNVKKYH 117
+ EK+ E + +K+ Y + Y+
Sbjct: 62 LTPEEKQPYEAKAQADKKRYESEKELYN 89
Score = 25.4 bits (56), Expect = 5.8
Identities = 5/35 (14%), Positives = 17/35 (48%)
Query: 134 VKKQKKEKREMKKLFRETGKPKKPGNSFYLFIKDN 168
+ ++ K+ + ++ PK+ +++ F +N
Sbjct: 1 MVTPREPKKRTTRKKKDPNAPKRALSAYMFFANEN 35
>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 = 8e-13
Identities = 19/71 (26%), Positives = 32/71 (45%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKE 105
KKP++ F R + + NP + + T + E WK + E EK + E + K+
Sbjct: 5 SSGIKKPMSASALFVQDHRPQFLIENPKTSLEDATLQIEELWKTLSEEEKLKYEEKATKD 64
Query: 106 KEIYAQNVKKY 116
E Y +K+
Sbjct: 65 LERYNSQMKRA 75
>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 = 60.8 bits (147), Expect = 3e-12
Identities = 23/71 (32%), Positives = 37/71 (52%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKE 105
P PK+P + +F F + R KI +P + I +V K + E W +K+ E + AK
Sbjct: 99 PNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKL 158
Query: 106 KEIYAQNVKKY 116
KE Y +++ Y
Sbjct: 159 KEKYEKDIAAY 169
Score = 47.3 bits (112), Expect = 3e-07
Identities = 33/140 (23%), Positives = 58/140 (41%), Gaps = 23/140 (16%)
Query: 34 GLKQQTSQPLSIPEKPKKPLTPYFKFQGQIRNKIMERNPNIKI--IEVTKLVSEEWKKIG 91
G + P+KP+ ++ Y F R + +++P+ + E +K SE WK +
Sbjct: 1 GSSGSSGMGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMS 60
Query: 92 EAEKKRLENEYAKEKEIYAQNVKKYHDELTPEAIEFLRKEKEVKKQKKEKREMKKLFRET 151
EK + E+ +K Y + +K Y K E KK F++
Sbjct: 61 AKEKGKFEDMAKADKARYEREMKTYIP---------------------PKGETKKKFKDP 99
Query: 152 GKPKKPGNSFYLFIKDNIDK 171
PK+P ++F+LF + K
Sbjct: 100 NAPKRPPSAFFLFCSEYRPK 119
>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1
Length = 83
Score = 57.7 bits (140), Expect = 6e-12
Identities = 20/74 (27%), Positives = 37/74 (50%), Gaps = 2/74 (2%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKII--EVTKLVSEEWKKIGEAEKKRLENEYA 103
P+KP+ ++ Y F R + +++P+ + E +K SE WK + EK + E+
Sbjct: 5 PKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAK 64
Query: 104 KEKEIYAQNVKKYH 117
+K Y + +K Y
Sbjct: 65 ADKARYEREMKTYI 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 = 57.3 bits (139), Expect = 7e-12
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 48 KPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKEKE 107
KPK+PL+ Y + R I NP IK+ EV K E W+ + +K E + AK K+
Sbjct: 3 KPKRPLSAYALWLNSARESIKRENPGIKVTEVAKRGGELWRAM--KDKSEWEAKAAKAKD 60
Query: 108 IYAQNVKKY 116
Y + VK++
Sbjct: 61 DYDRAVKEF 69
>1wxl_A Single-strand recognition protein; FACT, SSRP1, HMG, DNA binding
protein; NMR {Drosophila melanogaster}
Length = 73
Score = 56.9 bits (138), Expect = 9e-12
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Query: 48 KPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKEKE 107
PK+ T + + R I NP IK+ E+ K E WK++ +K + E+ AK+K+
Sbjct: 3 MPKRATTAFMLWLNDTRESIKRENPGIKVTEIAKKGGEMWKEL--KDKSKWEDAAAKDKQ 60
Query: 108 IYAQNVKKY 116
Y ++ Y
Sbjct: 61 RYHDEMRNY 69
>2eqz_A High mobility group protein B3; HMG-box domain, mobility group
protein 2A, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 86
Score = 57.0 bits (138), Expect = 1e-11
Identities = 21/73 (28%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKII--EVTKLVSEEWKKIGEAEKKRLENEYA 103
P+KPK ++ Y F R + ++NP + + E +K SE WK + EK + +
Sbjct: 13 PKKPKGKMSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMSGKEKSKFDEMAK 72
Query: 104 KEKEIYAQNVKKY 116
+K Y + +K Y
Sbjct: 73 ADKVRYDREMKDY 85
>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 = 58.3 bits (141), Expect = 2e-11
Identities = 17/73 (23%), Positives = 36/73 (49%)
Query: 45 IPEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAK 104
+ ++ K+P+ + + R K+ NP ++ E++K + +WK + EAEK E K
Sbjct: 1 VQDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQK 60
Query: 105 EKEIYAQNVKKYH 117
+ ++ + Y
Sbjct: 61 LQAMHREKYPNYK 73
Score = 49.5 bits (118), Expect = 4e-08
Identities = 24/80 (30%), Positives = 40/80 (50%)
Query: 37 QQTSQPLSIPEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKK 96
+T + P PK+P + +F F + R KI +P + I +V K + E W +K+
Sbjct: 77 GETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQ 136
Query: 97 RLENEYAKEKEIYAQNVKKY 116
E + AK KE Y +++ Y
Sbjct: 137 PYEKKAAKLKEKYEKDIAAY 156
>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 = 55.5 bits (134), Expect = 3e-11
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 2/71 (2%)
Query: 48 KPKKPLTPYFKFQGQIRNKIMERNPNIKII--EVTKLVSEEWKKIGEAEKKRLENEYAKE 105
KP+ ++ Y F R + +++P+ + E +K SE WK + EK + E+ +
Sbjct: 1 KPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKAD 60
Query: 106 KEIYAQNVKKY 116
K Y + +K Y
Sbjct: 61 KARYEREMKTY 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 = 55.1 bits (133), Expect = 7e-11
Identities = 18/71 (25%), Positives = 34/71 (47%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKE 105
EKPK+P++ F F + R ++ E P + E+T+L++ W + E +K + + A
Sbjct: 18 SEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSEKKKAKYKAREAAL 77
Query: 106 KEIYAQNVKKY 116
K +
Sbjct: 78 KAQSERKSGPS 88
>2lhj_A High mobility group protein homolog NHP1; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; NMR {Babesia bovis}
Length = 97
Score = 54.7 bits (132), Expect = 1e-10
Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNI--KIIEVTKLVSEEWKKIGEAEKKRLENEYA 103
P PK+ L+ Y F + R +I+ NP I + + K++ W + + EKK E
Sbjct: 20 PNAPKRALSSYMFFAKEKRVEIIAENPEIAKDVAAIGKMIGAAWNALSDEEKKPYERMSD 79
Query: 104 KEKEIYAQNVKKY 116
+++ Y + +Y
Sbjct: 80 EDRVRYEREKAEY 92
>3fgh_A Transcription factor A, mitochondrial; HMG domain, mitochondrial
transcription, activator, DNA- binding, mitochondrion,
phosphoprotein; 1.35A {Homo sapiens}
Length = 67
Score = 53.1 bits (128), Expect = 2e-10
Identities = 16/69 (23%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 48 KPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKEKE 107
KPK+P + Y + + + +P E K V E WK + ++EK+ +++
Sbjct: 2 KPKRPRSAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLSDSEKELYIQHAKEDET 57
Query: 108 IYAQNVKKY 116
Y +K +
Sbjct: 58 RYHNEMKSW 66
>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 = 53.8 bits (129), Expect = 3e-10
Identities = 14/93 (15%), Positives = 40/93 (43%), Gaps = 2/93 (2%)
Query: 49 PKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKEKEI 108
K P+ Y KF ++ + + +K E + W++I +++K+ + +++
Sbjct: 9 KKPPMNGYQKFSQELLSNGELNHLPLK--ERMVEIGSRWQRISQSQKEHYKKLAEEQQRQ 66
Query: 109 YAQNVKKYHDELTPEAIEFLRKEKEVKKQKKEK 141
Y ++ + L+P+ ++ K++
Sbjct: 67 YKVHLDLWVKSLSPQDRAAYKEYISNKRKSGPS 99
>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 = 43.4 bits (102), Expect = 2e-06
Identities = 15/96 (15%), Positives = 37/96 (38%), Gaps = 4/96 (4%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKE 105
K P Y + ++ + + E L S++WK + + EK + ++
Sbjct: 15 GRPTKPPPNSYSLYCAELMANMKDVPST----ERMVLCSQQWKLLSQKEKDAYHKKCDQK 70
Query: 106 KEIYAQNVKKYHDELTPEAIEFLRKEKEVKKQKKEK 141
K+ Y + ++ + L E + + E+++
Sbjct: 71 KKDYEVELLRFLESLPEEEQQRVLGEEKMLNISGPS 106
>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 = 40.9 bits (96), Expect = 1e-05
Identities = 13/66 (19%), Positives = 28/66 (42%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKE 105
P K K+P+ + F + R + + P ++ ++ + WKK+ E++ E
Sbjct: 15 PNKCKRPMNAFMLFAKKYRVEYTQMYPGKDNRAISVILGDRWKKMKNEERRMYTLEAKAL 74
Query: 106 KEIYAQ 111
E +
Sbjct: 75 AEEQKR 80
>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 = 38.7 bits (91), Expect = 6e-05
Identities = 10/66 (15%), Positives = 32/66 (48%)
Query: 46 PEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKE 105
++P+ + F + R+ + + +P + TK++++ W + EK++ + +
Sbjct: 5 SSGARRPMNAFLLFCKRHRSLVRQEHPRLDNRGATKILADWWAVLDPKEKQKYTDMAKEY 64
Query: 106 KEIYAQ 111
K+ + +
Sbjct: 65 KDAFMK 70
>4a3n_A Transcription factor SOX-17; 2.40A {Homo sapiens}
Length = 71
Score = 35.6 bits (83), Expect = 8e-04
Identities = 13/64 (20%), Positives = 34/64 (53%)
Query: 48 KPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKEKE 107
++P+ + + R ++ ++NP++ E++K++ + WK + AEK+ E + +
Sbjct: 2 SIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAERLRV 61
Query: 108 IYAQ 111
+ Q
Sbjct: 62 QHMQ 65
>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 = 35.2 bits (80), Expect = 0.002
Identities = 13/70 (18%), Positives = 27/70 (38%), Gaps = 1/70 (1%)
Query: 48 KPKKPLTPYFKFQGQIRNKIMERNPNIKI-IEVTKLVSEEWKKIGEAEKKRLENEYAKEK 106
+P T + + + R+ I+ NP+ ++ K ++ + E+K N+ E
Sbjct: 5 SSGRPKTGFQMWLEENRSNILSDNPDFSDEADIIKEGMIRFRVLSTEERKVWANKAKGET 64
Query: 107 EIYAQNVKKY 116
KK
Sbjct: 65 ASEGTEAKKR 74
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 36.3 bits (83), Expect = 0.002
Identities = 18/84 (21%), Positives = 36/84 (42%), Gaps = 19/84 (22%)
Query: 76 IIEVTKLVSE-----EWKKIGEAEKKRLEN---EYAKEKEIYAQNVKKYHDELTPEAIEF 127
I + +L E +W+ E ++KRL+ ++ + + KK + E+
Sbjct: 74 IAQADRLTQEPESIRKWR---EEQRKRLQELDAASKVMEQEWREKAKKDLE-------EW 123
Query: 128 LRKEKE-VKKQKKEKREMKKLFRE 150
+++ E V+K K R K F +
Sbjct: 124 NQRQSEQVEKNKINNRIADKAFYQ 147
Score = 35.5 bits (81), Expect = 0.005
Identities = 13/61 (21%), Positives = 24/61 (39%), Gaps = 2/61 (3%)
Query: 117 HDELT--PEAIEFLRKEKEVKKQKKEKREMKKLFRETGKPKKPGNSFYLFIKDNIDKKEY 174
D LT PE+I R+E+ + Q+ + K KK + + ++K +
Sbjct: 77 ADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKI 136
Query: 175 E 175
Sbjct: 137 N 137
>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 = 36.1 bits (82), Expect = 0.002
Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 3/32 (9%)
Query: 140 EKREMKKLFRETG-KPKKPGNSFYLFIKDNID 170
EK+ +KKL + K ++ L IK ++
Sbjct: 18 EKQALKKL--QASLKLYADDSAPALAIKATME 47
>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 = 36.4 bits (83), Expect = 0.003
Identities = 29/222 (13%), Positives = 55/222 (24%), Gaps = 80/222 (36%)
Query: 13 GGNVF--NLRSC-----LMPHLNSVTTAGLKQQTSQPL-SIPEKPKKPLTPYFKFQGQIR 64
+F NL++C ++ L L Q S + Q ++R
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQK-----LLYQIDPNWTSRSDHSSNIKLRIHSIQAELR 235
Query: 65 NKIMER-------------NPNI--------KII------EVTKLVSEEWKKIGEAEKKR 97
+ + N KI+ +VT +S +
Sbjct: 236 RLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHS 295
Query: 98 LENEYAKEKEIYAQNVKKYHDELTPEAI-----------EFLRKE-------KEVKKQKK 139
+ + K + + + +L E + E +R K V K
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL 355
Query: 140 EK-----------REMKKLFRETGKPKKPGNSFYLFIKD-NI 169
E +K+F +F +I
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDR----------LSVFPPSAHI 387
Score = 33.7 bits (76), Expect = 0.032
Identities = 16/153 (10%), Positives = 42/153 (27%), Gaps = 44/153 (28%)
Query: 51 KPLTPYF----KFQGQIRNKIMERNPNIKIIEV--------TKLVSEE------------ 86
+ Y + ++R ++E P ++ + T + +
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELRPAKNVL-IDGVLGSGKTWVALDVCLSYKVQCKMDF 182
Query: 87 ---WKKIGEAEKKRLENEYAKEKEIYAQNVKKYHDELTPEAIEFLRKEKEVKKQKKEKRE 143
W + E +++ Q + + LR + E
Sbjct: 183 KIFWLNLKNCNSPETVLE--MLQKLLYQIDPNWTSRSDHSSNIKLRIH-------SIQAE 233
Query: 144 MKKLFRETGKPKKPGNSFYLFIKDNI-DKKEYE 175
+++L + N L + N+ + K +
Sbjct: 234 LRRLLKSKPYE----NC--LLVLLNVQNAKAWN 260
>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 = 33.3 bits (77), Expect = 0.006
Identities = 16/63 (25%), Positives = 32/63 (50%)
Query: 45 IPEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAK 104
+ ++ K+P+ + + R K+ NP ++ E++K + +WK + EAEK E K
Sbjct: 1 VQDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQK 60
Query: 105 EKE 107
+
Sbjct: 61 LQA 63
>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 = 33.1 bits (76), Expect = 0.011
Identities = 14/83 (16%), Positives = 34/83 (40%)
Query: 25 PHLNSVTTAGLKQQTSQPLSIPEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVS 84
H + Q K+P+ + + R K+ ++ P++ E++K +
Sbjct: 6 HHHVDDDDKMSENLYFQSSKNKPHVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLG 65
Query: 85 EEWKKIGEAEKKRLENEYAKEKE 107
+ W+ + E+EK+ E + +
Sbjct: 66 KLWRLLNESEKRPFVEEAERLRV 88
>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 = 32.6 bits (75), Expect = 0.014
Identities = 10/62 (16%), Positives = 29/62 (46%)
Query: 50 KKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKEKEIY 109
KKPL + + ++R ++ + + + +++ W + E+ + KE++++
Sbjct: 4 KKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALSREEQAKYYELARKERQLH 63
Query: 110 AQ 111
Q
Sbjct: 64 MQ 65
>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 = 32.2 bits (74), Expect = 0.016
Identities = 13/64 (20%), Positives = 34/64 (53%)
Query: 44 SIPEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYA 103
S + ++P+ + + R ++ ++NP++ E++K++ + WK + AEK+ E
Sbjct: 2 SFTSRIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAE 61
Query: 104 KEKE 107
+ +
Sbjct: 62 RLRV 65
>3u2b_C Transcription factor SOX-4; HMG domain, transcriptional regulation,
transcription-DNA CO; HET: DNA; 2.40A {Mus musculus}
Length = 79
Score = 31.8 bits (73), Expect = 0.024
Identities = 14/58 (24%), Positives = 32/58 (55%)
Query: 50 KKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKEKE 107
K+P+ + + R KIME++P++ E++K + + WK + +++K E + +
Sbjct: 4 KRPMNAFMVWSQIERRKIMEQSPDMHNAEISKRLGKRWKLLKDSDKIPFIQEAERLRL 61
>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 = 31.8 bits (73), Expect = 0.024
Identities = 16/67 (23%), Positives = 35/67 (52%)
Query: 45 IPEKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAK 104
+ ++ K+P+ + + R K+ NP ++ E++K + +WK + EAEK E K
Sbjct: 1 MQDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQK 60
Query: 105 EKEIYAQ 111
+ ++ +
Sbjct: 61 LQAMHRE 67
>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 = 31.0 bits (71), Expect = 0.039
Identities = 15/61 (24%), Positives = 32/61 (52%)
Query: 47 EKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKEK 106
++ K+P+ + + R K+ + NP + E++K + EWK + E EK+ +E + +
Sbjct: 1 DRVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSETEKRPFIDEAKRLR 60
Query: 107 E 107
Sbjct: 61 A 61
>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 = 31.0 bits (71), Expect = 0.041
Identities = 13/58 (22%), Positives = 29/58 (50%)
Query: 50 KKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKEKE 107
K+P+ + + R KI++ P++ ++K++ WK + EK+ E A+ +
Sbjct: 6 KRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMTNLEKQPYYEEQARLSK 63
>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold,
coiled coil, riken structural genomics/proteomics
initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus}
SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A*
1iyw_A
Length = 862
Score = 29.8 bits (68), Expect = 0.45
Identities = 9/63 (14%), Positives = 21/63 (33%), Gaps = 14/63 (22%)
Query: 92 EAEKKRLENEYAK-EKEIYAQNVKKYHDELTPEAIEFLRK------EKEVKKQKKEKREM 144
E ++R E + ++ +K F K E E + K+ +
Sbjct: 799 EEWRRRQEKRLKELLALA-ERSQRKLASP------GFREKAPKEVVEAEEARLKENLEQA 851
Query: 145 KKL 147
+++
Sbjct: 852 ERI 854
>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA
binding domain, poly(A polymerase, mitochondria,
transferase; 3.10A {Homo sapiens}
Length = 464
Score = 28.7 bits (63), Expect = 1.1
Identities = 16/142 (11%), Positives = 41/142 (28%), Gaps = 6/142 (4%)
Query: 26 HLNSVTTAGLKQ-QTSQPLSIP-EKPKKPLTPYFKFQGQIRNKIMERNPNIKIIEVTKLV 83
+ + +Q Q + + P + + Y G I N + + + V
Sbjct: 40 RFSEMQNERREQAQRTVLIHCPEKISENKFLKYLSQFGPINNHFFYESFGLYAV-VEFCQ 98
Query: 84 SEEWKKI-GEAEKKRLENEYAKEKEIYAQNVKKYHDELTPEAIEFLRKEKEVKKQKKEKR 142
E + K+++ + Y + + + L++ + ++ K +
Sbjct: 99 KESIGSLQNGTHTPXXXXXXXSNKQLF--ELLCYAESIDDQLNTLLKEFQLTEENTKLRY 156
Query: 143 EMKKLFRETGKPKKPGNSFYLF 164
L + P F
Sbjct: 157 LTCSLIEDMAAAYFPDCIVRPF 178
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 28.3 bits (62), Expect = 1.2
Identities = 12/65 (18%), Positives = 27/65 (41%), Gaps = 6/65 (9%)
Query: 86 EWKKIGEAEKKRLENEYAKEKEIYAQNVKKYHDELTPEAIEFLRKEKEVKKQKKEKREMK 145
+W++ + L+ ++ + + KK +E R+ ++V+K K R
Sbjct: 104 KWREEQRKRLQELDAASKVMEQEWREKAKKDLEEW------NQRQSEQVEKNKINNRIAD 157
Query: 146 KLFRE 150
K F +
Sbjct: 158 KAFYQ 162
Score = 27.2 bits (59), Expect = 2.5
Identities = 10/52 (19%), Positives = 21/52 (40%)
Query: 122 PEAIEFLRKEKEVKKQKKEKREMKKLFRETGKPKKPGNSFYLFIKDNIDKKE 173
PE+I R+E+ + Q+ + K KK + + ++K +
Sbjct: 99 PESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNK 150
>1kyq_A Met8P, siroheme biosynthesis protein Met8; homodimer,
oxidoreductase, lyase; HET: NAD; 2.20A {Saccharomyces
cerevisiae} SCOP: c.2.1.11 e.37.1.1
Length = 274
Score = 27.3 bits (60), Expect = 2.6
Identities = 9/66 (13%), Positives = 23/66 (34%), Gaps = 6/66 (9%)
Query: 45 IPEKPKKPLTPYFKFQGQIRNKIMERNPNIKII----EVTKLVSEEW--KKIGEAEKKRL 98
+ L G++R I P+ K + + + ++ + + + KRL
Sbjct: 185 FTQMGDLALEDAVVKLGELRRGIRLLAPDDKDVKYRMDWARRCTDLFGIQHCHNIDVKRL 244
Query: 99 ENEYAK 104
+ +
Sbjct: 245 LDLFKV 250
>4euu_A Serine/threonine-protein kinase TBK1; ATP binding, phosphorylation,
transferase-transferas inhibitor complex; HET: SEP BX7;
1.80A {Homo sapiens}
Length = 319
Score = 27.0 bits (60), Expect = 3.8
Identities = 10/64 (15%), Positives = 22/64 (34%), Gaps = 10/64 (15%)
Query: 93 AEKKRLENEYAKEKEI----YAQNVKKYHDELTPE--AIEFLRKEKEVKKQKKEKRE--- 143
+ + + + A V + + T + AI+ ++ + RE
Sbjct: 2 GSQSTSNHLWLLSDILGQGATAN-VFRGRHKKTGDLFAIKVFNNISFLRPVDVQMREFEV 60
Query: 144 MKKL 147
+KKL
Sbjct: 61 LKKL 64
>2c6x_A Citrate synthase 1; tricarboxylic acid cycle, transferase,
allosteric enzyme, enzyme thermostability; HET: COZ CIT;
3.4A {Bacillus subtilis}
Length = 363
Score = 26.7 bits (60), Expect = 4.4
Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 14/55 (25%)
Query: 64 RNKIMERNPNIKIIEVTKLVSE-----EWKKIGEAEKKRLENEYAKEKEIYAQNV 113
R + + + + V+ + EAE RL Y +++Y NV
Sbjct: 260 RAEALR--------QKAEEVAGNDRDLDLALHVEAEAIRLLEIYKPGRKLYT-NV 305
>1h0h_A Formate dehydrogenase (large subunit); tungsten selenium formate
dehydrogenase, selenocysteine, molybdopterin, MGD,
iron-sulphur cluster; HET: 2MD MGD EPE; 1.8A
{Desulfovibrio gigas} SCOP: b.52.2.2 c.81.1.1
Length = 977
Score = 27.2 bits (60), Expect = 4.4
Identities = 18/86 (20%), Positives = 30/86 (34%), Gaps = 7/86 (8%)
Query: 78 EVTKLVSEEWKKIGEAEKKRLENEYAKEKEIYAQNVKKYHDELTPEAIEFLRKEKEVKKQ 137
E K +W + +E K Q +KK+++ + I +
Sbjct: 290 ETRKYDKSKWGFERDENGNPKRDETLKHPRCVFQIMKKHYERYDLDKIS------AICGT 343
Query: 138 KKEK-REMKKLFRETGKPKKPGNSFY 162
KE ++ + TGKP K G Y
Sbjct: 344 PKELILKVYDAYCATGKPDKAGTIMY 369
>3aaf_A Werner syndrome ATP-dependent helicase; helix-turn-helix,
winged-helix, protein-DNA complex, DNA-BIN helicase;
HET: DNA; 1.90A {Homo sapiens} PDB: 2axl_A
Length = 134
Score = 26.3 bits (58), Expect = 4.4
Identities = 7/50 (14%), Positives = 15/50 (30%)
Query: 106 KEIYAQNVKKYHDELTPEAIEFLRKEKEVKKQKKEKREMKKLFRETGKPK 155
E+ N LT + +L K + + + ++ P
Sbjct: 84 VEVSRYNKFMKICALTKKGRNWLHKANTESQSLILQANEELCPKKFLLPS 133
>3ei9_A LL-diaminopimelate aminotransferase; lysine biosynthesis, pyridoxal
5' phosphat external aldimine, chloroplast, pyridox
phosphate; HET: PL6; 1.55A {Arabidopsis thaliana} PDB:
3ei8_A* 3eib_A* 3ei6_A* 2z1z_A* 3ei5_A* 2z20_A* 3ei7_A
3eia_A*
Length = 432
Score = 26.8 bits (60), Expect = 4.6
Identities = 9/50 (18%), Positives = 18/50 (36%), Gaps = 7/50 (14%)
Query: 124 AIEFLRKE--KEVKKQKKEKRE----MKKLFRETGKP-KKPGNSFYLFIK 166
A+ L E + + K +E + F G N+ Y+++
Sbjct: 319 ALACLTPEGLEAMHKVIGFYKENTNIIIDTFTSLGYDVYGGKNAPYVWVH 368
>3cux_A Malate synthase; TIM barrel, glyoxylate bypass, transferase,
tricarboxylic acid cycle; 1.70A {Bacillus anthracis}
Length = 528
Score = 26.8 bits (59), Expect = 5.1
Identities = 9/53 (16%), Positives = 25/53 (47%), Gaps = 5/53 (9%)
Query: 107 EIYAQNVKKYHDELTPEAIEFLRK-----EKEVKKQKKEKREMKKLFRETGKP 154
+ + + Y++ LTPEA+ FL++ + + +++ + ++ P
Sbjct: 8 TLVGEMLPAYNEILTPEALSFLKELHENFNERRIELLQKRMKKQQKIDAGEFP 60
>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane,
nucleotide-binding, translation; 2.80A {Escherichia
coli} PDB: 3deg_C*
Length = 599
Score = 26.3 bits (59), Expect = 7.7
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 129 RKEKEVKKQKKEKREMK 145
RK+K ++KQK+ K+ MK
Sbjct: 560 RKKKLLQKQKEGKKRMK 576
>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like
domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus}
PDB: 2ywf_A* 2ywg_A* 2ywh_A*
Length = 600
Score = 25.9 bits (58), Expect = 8.5
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 129 RKEKEVKKQKKEKREMK 145
RK+K ++ QK+ K+ MK
Sbjct: 565 RKKKLLENQKEGKKRMK 581
>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 = 26.0 bits (57), Expect = 9.0
Identities = 13/102 (12%), Positives = 31/102 (30%), Gaps = 10/102 (9%)
Query: 62 QIRNKIMERNPNIKIIEVTKLVSEEWKKIGEAEKKRLENEYAKEKEIYAQNVKKYHD--- 118
++ + + + I ++ + E E + E +KK +
Sbjct: 1064 KLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELES 1123
Query: 119 -------ELTPEAIEFLRKEKEVKKQKKEKREMKKLFRETGK 153
+L E + EK+ + +E +K +T
Sbjct: 1124 HISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLD 1165
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
0.313 0.132 0.370
Gapped
Lambda K H
0.267 0.0585 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,671,577
Number of extensions: 155254
Number of successful extensions: 836
Number of sequences better than 10.0: 1
Number of HSP's gapped: 762
Number of HSP's successfully gapped: 182
Length of query: 180
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 92
Effective length of database: 4,244,745
Effective search space: 390516540
Effective search space used: 390516540
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 (21.9 bits)
S2: 54 (24.9 bits)