RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15548
(108 letters)
>2din_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell
cycle, DNA binding, spliceosome, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 93.3 bits (232), Expect = 6e-27
Identities = 46/56 (82%), Positives = 50/56 (89%)
Query: 48 DPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
S KKTEWSREE+EKLLHLAKLMPTQWRTIAPIIGRTAAQCLE YEFLL +A ++
Sbjct: 4 GSSGKKTEWSREEEEKLLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKAAQR 59
Score = 44.0 bits (104), Expect = 1e-07
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTE 55
+E L QW IA ++ R +A QC + LD + ++
Sbjct: 17 EEKLLHLAKLMP-TQWRTIAPIIGR-TAAQCLEHYEFLLDKAAQRDS 61
>2dim_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell
cycle, DNA binding, spliceosome, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 70
Score = 91.6 bits (228), Expect = 3e-26
Identities = 48/52 (92%), Positives = 49/52 (94%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREE 60
DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWS
Sbjct: 17 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSGPS 68
Score = 48.8 bits (117), Expect = 2e-09
Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 2/47 (4%)
Query: 49 PSIKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
S K W EDE L K QW IA ++ ++A QC R+
Sbjct: 5 SSGKGGVWRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW 51
>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus
musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C
Length = 159
Score = 87.3 bits (217), Expect = 2e-23
Identities = 33/87 (37%), Positives = 51/87 (58%), Gaps = 2/87 (2%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHL- 67
DE LK V + G + W IA+ L ++ QC+ RW + L+P + K W++EED++++ L
Sbjct: 14 DEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPELIKGPWTKEEDQRVIKLV 73
Query: 68 AKLMPTQWRTIAPII-GRTAAQCLERY 93
K P +W IA + GR QC ER+
Sbjct: 74 QKYGPKRWSVIAKHLKGRIGKQCRERW 100
Score = 84.6 bits (210), Expect = 2e-22
Identities = 31/86 (36%), Positives = 45/86 (52%), Gaps = 1/86 (1%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
D+ + V KYG +WS IA L + KQC+ RW L+P +KKT W+ EED +
Sbjct: 66 DQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAH 125
Query: 69 KLMPTQWRTIAPII-GRTAAQCLERY 93
K + +W IA ++ GRT +
Sbjct: 126 KRLGNRWAEIAKLLPGRTDNAIKNHW 151
Score = 43.0 bits (102), Expect = 2e-06
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 51 IKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
+ KT W+REEDEKL L + W+ IA + RT QC R+
Sbjct: 4 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRW 48
Score = 38.8 bits (91), Expect = 5e-05
Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSI 51
D I+ A + G N+W+ IA LL ++ K W + +
Sbjct: 118 DRIIYQAHKRLG-NRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR
{Trichomonas vaginalis} PDB: 2kdz_A
Length = 107
Score = 83.7 bits (208), Expect = 9e-23
Identities = 25/96 (26%), Positives = 46/96 (47%), Gaps = 1/96 (1%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
D L+ VM+YG W RI+ L+ ++ +QC+ RW +++P+++ WS EED L
Sbjct: 9 DLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERWNNYINPALRTDPWSPEEDMLLDQKY 68
Query: 69 KLMPTQWRTIAPII-GRTAAQCLERYEFLLYRARRK 103
+W I+ + R+ R+ + +
Sbjct: 69 AEYGPKWNKISKFLKNRSDNNIRNRWMMIARHRAKH 104
Score = 41.4 bits (98), Expect = 3e-06
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 53 KTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
K +++ EED KL L + W I+ ++ R QC ER+
Sbjct: 1 KVKFTEEEDLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERW 43
>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding
PR transcription factor; 2.00A {Trichomonas vaginalis}
PDB: 3osf_A
Length = 126
Score = 80.0 bits (198), Expect = 5e-21
Identities = 32/78 (41%), Positives = 45/78 (57%), Gaps = 2/78 (2%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
DE+LK AV ++G + W IA+ ++A+QC+ RW +L PSI T W+ EED L+
Sbjct: 19 DEMLKRAVAQHGSD-WKMIAATFPNRNARQCRDRWKNYLAPSISHTPWTAEEDALLVQKI 77
Query: 69 KLMPTQWRTIAPII-GRT 85
+ QW IA GRT
Sbjct: 78 QEYGRQWAIIAKFFPGRT 95
Score = 46.5 bits (111), Expect = 6e-08
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 49 PSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPII-GRTAAQCLERY 93
+ KK +++ EEDE L + W+ IA R A QC +R+
Sbjct: 7 KAAKKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRW 52
Score = 32.2 bits (74), Expect = 0.010
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 6/58 (10%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLH 66
D +L + +YG QW+ IA ++ K RW +I + + L H
Sbjct: 70 DALLVQKIQEYG-RQWAIIAKFFPGRTDIHIKNRWV-----TISNKLGIPQTQQMLEH 121
>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A
{Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3
Length = 128
Score = 76.4 bits (189), Expect = 1e-19
Identities = 31/78 (39%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
D+ + V KYG +WS IA L + KQC+ RW L+P +KKT W+ EED +
Sbjct: 35 DQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAH 94
Query: 69 KLMPTQWRTIAPII-GRT 85
K + +W IA ++ GRT
Sbjct: 95 KRLGNRWAEIAKLLPGRT 112
Score = 65.6 bits (161), Expect = 2e-15
Identities = 22/69 (31%), Positives = 41/69 (59%), Gaps = 2/69 (2%)
Query: 27 IASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GR 84
+ +++ ++ QC+ RW + L+P + K W++EED++++ K P +W IA + GR
Sbjct: 1 MEAVIKNRTDVQCQHRWQKVLNPELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGR 60
Query: 85 TAAQCLERY 93
QC ER+
Sbjct: 61 IGKQCRERW 69
Score = 30.2 bits (69), Expect = 0.055
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW 43
D I+ A + G N+W+ IA LL ++ K W
Sbjct: 87 DRIIYQAHKRLG-NRWAEIAKLLPGRTDNAVKNHW 120
>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus;
2.90A {Trichomonas vaginalis}
Length = 131
Score = 75.0 bits (185), Expect = 6e-19
Identities = 31/78 (39%), Positives = 46/78 (58%), Gaps = 1/78 (1%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
D++++ V + G W RI S L +S KQC+ RWF LDP++ K W+ EEDE +
Sbjct: 10 DDLIREYVKENGPQNWPRITSFLPNRSPKQCRERWFNHLDPAVVKHAWTPEEDETIFRNY 69
Query: 69 KLMPTQWRTIAPII-GRT 85
+ ++W IA +I GRT
Sbjct: 70 LKLGSKWSVIAKLIPGRT 87
Score = 34.6 bits (80), Expect = 0.002
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 53 KTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLER 92
K ++ ED+ + + P W I + R+ QC ER
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRITSFLPNRSPKQCRER 43
>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding,
ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3
PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A
Length = 105
Score = 72.9 bits (180), Expect = 1e-18
Identities = 31/78 (39%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
D+ + V KYG +WS IA L + KQC+ RW L+P +KKT W+ EED +
Sbjct: 12 DQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAH 71
Query: 69 KLMPTQWRTIAPII-GRT 85
K + +W IA ++ GRT
Sbjct: 72 KRLGNRWAEIAKLLPGRT 89
Score = 36.4 bits (85), Expect = 2e-04
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 2/44 (4%)
Query: 51 IKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLER 92
+ K W++EED++++ L K P +W IA + GR QC ER
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRER 45
>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics,
unknown function, NPPSFA; NMR {Mus musculus}
Length = 60
Score = 53.8 bits (130), Expect = 2e-11
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIK 52
DE L+A V ++G+ W +AS ++ +QC+ RW L
Sbjct: 16 DEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLRVLSGPSS 59
Score = 47.6 bits (114), Expect = 5e-09
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 49 PSIKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
S K +W+ EEDE+L L + W+ +A RT QC R+
Sbjct: 4 GSSGKVKWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRW 50
>1guu_A C-MYB, MYB proto-oncogene protein; transcription, transcription
regulation, DNA binding, ION bindi proto-oncogene,
nuclear protein, activator; 1.6A {Mus musculus} SCOP:
a.4.1.3 PDB: 1mbe_A 1mbf_A
Length = 52
Score = 53.3 bits (129), Expect = 3e-11
Identities = 16/41 (39%), Positives = 24/41 (58%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP 49
DE LK V + G + W IA+ L ++ QC+ RW + L+P
Sbjct: 11 DEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP 51
Score = 47.6 bits (114), Expect = 4e-09
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 51 IKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
+ KT W+REEDEKL L + W+ IA + RT QC R+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRW 45
>1gvd_A MYB proto-oncogene protein; transcription, transcription
regulation, C-MYB, DNA binding, ION binding, nuclear
protein; 1.45A {Mus musculus} SCOP: a.4.1.3 PDB: 1gv5_A
1mbg_A 1mbh_A
Length = 52
Score = 47.9 bits (115), Expect = 3e-09
Identities = 18/41 (43%), Positives = 23/41 (56%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP 49
D+ L V KYG +WS IA L + KQC+ RW L+P
Sbjct: 11 DQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 41.0 bits (97), Expect = 2e-06
Identities = 18/45 (40%), Positives = 27/45 (60%), Gaps = 2/45 (4%)
Query: 51 IKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
+ K W++EED++L+ L K P +W IA + GR QC ER+
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERW 45
>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of
chromatin subfamily...; SWI/SNF complex 155 kDa
subunit, BRG1-associated factor 155; NMR {Homo sapiens}
Length = 79
Score = 46.0 bits (109), Expect = 4e-08
Identities = 10/48 (20%), Positives = 21/48 (43%), Gaps = 1/48 (2%)
Query: 47 LDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIG-RTAAQCLERY 93
+ EW+ +E LL ++ W ++ +G RT +C+ +
Sbjct: 12 SKGASAGREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHF 59
Score = 34.5 bits (79), Expect = 9e-04
Identities = 5/37 (13%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE 45
+L A+ Y + W++++ + ++ +C +
Sbjct: 26 TLLLLEALEMYKDD-WNKVSEHVGSRTQDECILHFLR 61
>2llk_A Cyclin-D-binding MYB-like transcription factor 1; helix bundle,
SGC, structural genomics consortium, NESG, NOR
structural genomics consortium; NMR {Homo sapiens}
Length = 73
Score = 44.5 bits (105), Expect = 9e-08
Identities = 14/63 (22%), Positives = 23/63 (36%)
Query: 31 LHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCL 90
+H + +++ EE EKL L W TI +GR+A+
Sbjct: 1 MHHHHHHSSGRENLYFQGDRNHVGKYTPEEIEKLKELRIKHGNDWATIGAALGRSASSVK 60
Query: 91 ERY 93
+R
Sbjct: 61 DRC 63
>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional
adaptor protein2, transcriptional activation, MYB
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: a.4.1.1
Length = 60
Score = 40.4 bits (95), Expect = 3e-06
Identities = 9/42 (21%), Positives = 20/42 (47%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPS 50
+ L AVM G W +A+ + K+ ++C+ + ++
Sbjct: 16 EMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYMKYFSGP 57
Score = 40.0 bits (94), Expect = 5e-06
Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 50 SIKKTEWSREEDEKLLHLAKLMPTQ-WRTIAPIIG-RTAAQCLERY 93
S W+ +E+ LL W+ +A + +T +C + Y
Sbjct: 5 SSGDPSWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHY 50
>2cqr_A RSGI RUH-043, DNAJ homolog subfamily C member 1; membrane
protein, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: a.4.1.3
Length = 73
Score = 38.3 bits (89), Expect = 2e-05
Identities = 10/55 (18%), Positives = 22/55 (40%), Gaps = 5/55 (9%)
Query: 48 DPSIKKTEWSREEDEKLLH-LAKL---MPTQWRTIAPII-GRTAAQCLERYEFLL 97
+ W++ + + L L + W IA + ++ C+ RY+ L+
Sbjct: 13 RARSAEEPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKLLV 67
Score = 33.7 bits (77), Expect = 0.002
Identities = 11/38 (28%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 9 DEILKAAVMKYGK---NQWSRIASLLHRKSAKQCKARW 43
++L+ A+ +Y + + W +IA + KS + C AR+
Sbjct: 26 QKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARY 63
>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics,
NPPSFA; NMR {Schizosaccharomyces pombe}
Length = 58
Score = 36.3 bits (84), Expect = 1e-04
Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 3/49 (6%)
Query: 48 DPSIKKTEWSREEDEKLLH-LAKLMPTQWRTIAPIIG--RTAAQCLERY 93
S W +E+ L+ L W IA +G RT +C + Y
Sbjct: 4 GSSGFDENWGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHY 52
Score = 32.8 bits (75), Expect = 0.003
Identities = 7/38 (18%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 9 DEILKAAVMKYGKNQWSRIASLL-HRKSAKQCKARWFE 45
+ +L A G W+ IA + + ++ ++C+ + +
Sbjct: 17 ELLLIDACETLGLGNWADIADYVGNARTKEECRDHYLK 54
>2cu7_A KIAA1915 protein; nuclear protein, SANT domain, DNA binding,
regulation of transcription, structural genomics,
NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3
Length = 72
Score = 36.3 bits (84), Expect = 1e-04
Identities = 12/59 (20%), Positives = 19/59 (32%), Gaps = 1/59 (1%)
Query: 49 PSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIG-RTAAQCLERYEFLLYRARRKAVQ 106
S +W+ EE E +W I+ +IG RT Q + +
Sbjct: 5 SSGYSVKWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCGLD 63
Score = 27.4 bits (61), Expect = 0.30
Identities = 8/35 (22%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW 43
E+ + + K+G+ W++I+ L+ ++ Q K+
Sbjct: 17 KELFEQGLAKFGRR-WTKISKLIGSRTVLQVKSYA 50
>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural
genomics consortium, NESG, north structural genomics
consortium; NMR {Homo sapiens}
Length = 89
Score = 36.1 bits (83), Expect = 2e-04
Identities = 15/60 (25%), Positives = 31/60 (51%), Gaps = 6/60 (10%)
Query: 9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW-----LDPSIKKTEWSREEDEK 63
K ++++G+N WS IA ++ K+ QCK +F + LD +++ + E++
Sbjct: 24 MGTAKKGLLEHGRN-WSAIARMVGSKTVSQCKNFYFNYKKRQNLDEILQQHKLKMEKERN 82
Score = 33.0 bits (75), Expect = 0.004
Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 1/46 (2%)
Query: 49 PSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIG-RTAAQCLERY 93
++ W+ EE W IA ++G +T +QC Y
Sbjct: 12 ENLYFQGWTEEEMGTAKKGLLEHGRNWSAIARMVGSKTVSQCKNFY 57
>1w0t_A Telomeric repeat binding factor 1; telomere, DNA-binding protein,
homeodomain, mitosis, cell cycle; 2.00A {Homo sapiens}
SCOP: a.4.1.4 PDB: 1ba5_A
Length = 53
Score = 34.6 bits (80), Expect = 4e-04
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 9 DEILKAAVMKYGKNQWSRIASL--LHRKSAKQCKARW 43
D+ L++ V KYG+ WS+I + +++ K RW
Sbjct: 10 DKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 46
Score = 34.6 bits (80), Expect = 5e-04
Identities = 12/46 (26%), Positives = 17/46 (36%), Gaps = 4/46 (8%)
Query: 52 KKTEWSREEDEKLLHL-AKLMPTQWRTIA---PIIGRTAAQCLERY 93
K+ W EED+ L K W I RT+ +R+
Sbjct: 1 KRQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 46
>1ity_A TRF1; helix-turn-helix, telomeres, DNA binding, MYB domain, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; NMR {Homo sapiens} SCOP: a.4.1.4
PDB: 1iv6_A
Length = 69
Score = 35.1 bits (81), Expect = 4e-04
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 9 DEILKAAVMKYGKNQWSRIASL--LHRKSAKQCKARW 43
D+ L++ V KYG+ WS+I + +++ K RW
Sbjct: 18 DKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 54
Score = 34.4 bits (79), Expect = 8e-04
Identities = 12/46 (26%), Positives = 17/46 (36%), Gaps = 4/46 (8%)
Query: 52 KKTEWSREEDEKLLHL-AKLMPTQWRTIA---PIIGRTAAQCLERY 93
K+ W EED+ L K W I RT+ +R+
Sbjct: 9 KRQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 54
>1ign_A Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, DNA binding
protein/DNA complex; HET: DNA; 2.25A {Saccharomyces
cerevisiae} SCOP: a.4.1.6 a.4.1.6 PDB: 3ukg_A
Length = 246
Score = 36.9 bits (84), Expect = 5e-04
Identities = 8/61 (13%), Positives = 24/61 (39%), Gaps = 1/61 (1%)
Query: 6 TIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLL 65
I+D + K + + I+ + + + R+ +L ++ + ++ KL+
Sbjct: 18 FILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVYLSKRLEYV-YEVDKFGKLV 76
Query: 66 H 66
Sbjct: 77 R 77
Score = 35.0 bits (79), Expect = 0.002
Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 7/56 (12%)
Query: 49 PSIKKTEWSREEDEKLLHLAKLMPTQ------WRTIAPII-GRTAAQCLERYEFLL 97
PS K ++ EEDE +L + + PT+ + I+ + T R+ L
Sbjct: 4 PSHNKASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVYL 59
>1vf9_A Telomeric repeat binding factor 2; MYB, helix-turn-helix,
telomere, DNA binding protein; NMR {Homo sapiens} SCOP:
a.4.1.4 PDB: 1xg1_A 1vfc_A
Length = 64
Score = 34.7 bits (80), Expect = 5e-04
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 52 KKTEWSREEDEKLLH-LAKLMPTQWRTIA---PIIGRTAAQCLERY 93
KK +W+ EE E + + K W I+ P + RTA +R+
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 55
Score = 34.3 bits (79), Expect = 7e-04
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 9 DEILKAAVMKYGKNQWSRIASL--LHRKSAKQCKARW 43
E +KA V KYG+ W+ I+ ++A K RW
Sbjct: 19 SEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 55
>1w0u_A Telomeric repeat binding factor 2; telomere, DNA-binding protein,
homeodomain, mitosis, cell cycle, nuclear protein; 1.8A
{Homo sapiens} SCOP: a.4.1.4
Length = 55
Score = 34.2 bits (79), Expect = 7e-04
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 9 DEILKAAVMKYGKNQWSRIASL--LHRKSAKQCKARW 43
E +KA V KYG+ W+ I+ ++A K RW
Sbjct: 10 SEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 46
Score = 33.8 bits (78), Expect = 0.001
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 52 KKTEWSREEDEKLLH-LAKLMPTQWRTIA---PIIGRTAAQCLERY 93
KK +W+ EE E + + K W I+ P + RTA +R+
Sbjct: 1 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 46
>2xag_B REST corepressor 1; amine oxidase, chromatin regulator, histone
inhibitor binding, methylation, nucleosome core,
oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB:
2xaf_B* 2xah_B* 2xaj_B* 2xaq_B* 2xas_B*
Length = 482
Score = 35.7 bits (80), Expect = 0.001
Identities = 12/59 (20%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 10 EILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW-----LDPSIKKTEWSREEDEK 63
+ A+ KYG++ + I+ ++ KS Q K + + +D +++ E ++E
Sbjct: 389 LLAVQAIRKYGRD-FQAISDVIGNKSVVQVKNFFVNYRRRFNIDEVLQEWEAEHGKEET 446
>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 61
Score = 32.8 bits (75), Expect = 0.003
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 6/46 (13%)
Query: 10 EILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTE 55
EI K +++ KN + IAS L RKS C ++ KK E
Sbjct: 21 EIFKDKFIQHPKN-FGLIASYLERKSVPDCVLYYYLT-----KKNE 60
>4eef_G F-HB80.4, designed hemagglutinin binding protein; immunoglobulin,
fusion of virus membrane with membrane, membrane
fusion, sialic acid, virion; HET: NAG BMA; 2.70A
{Artificial gene}
Length = 74
Score = 32.9 bits (75), Expect = 0.003
Identities = 12/60 (20%), Positives = 21/60 (35%), Gaps = 7/60 (11%)
Query: 45 EWLDPSIKKTEWSREEDEKLLHLA-----KLMPTQWRTIAPII-GRTAAQCLERYEFLLY 98
W E+ +A K P +W+ +A + GRT + + YE +
Sbjct: 12 HMASTRGSGRPWKFSEN-IAFEIALSFTNKDTPDRWKKVAQYVKGRTPEEVKKHYELEHH 70
Score = 26.8 bits (59), Expect = 0.70
Identities = 5/38 (13%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 9 DEILKAAVMKYGK---NQWSRIASLLHRKSAKQCKARW 43
+ + A+ K ++W ++A + ++ ++ K +
Sbjct: 28 NIAFEIALSFTNKDTPDRWKKVAQYVKGRTPEEVKKHY 65
>2iw5_B Protein corest, REST corepressor 1; oxidoreductase-transcription
regulator complex, oxidoreductase/repressor complex,
histone demethylase, FAD; HET: FAD; 2.57A {Homo sapiens}
SCOP: a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2y48_B* 2v1d_B*
2x0l_B*
Length = 235
Score = 34.0 bits (76), Expect = 0.004
Identities = 12/59 (20%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 10 EILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW-----LDPSIKKTEWSREEDEK 63
+ A+ KYG++ + I+ ++ KS Q K + + +D +++ E ++E
Sbjct: 142 LLAVQAIRKYGRD-FQAISDVIGNKSVVQVKNFFVNYRRRFNIDEVLQEWEAEHGKEET 199
Score = 31.7 bits (70), Expect = 0.035
Identities = 11/57 (19%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 53 KTEWSREEDEKLLHLAKLMPTQWRTIAPIIG-RTAAQCLERYEFLLYRARRKAVQLL 108
W+ EE + + ++ I+ +IG ++ Q + YR R ++L
Sbjct: 133 NARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFV--NYRRRFNIDEVL 187
>2cjj_A Radialis; plant development, DNA-binding protein, MYB
transcription FA DNA-binding, nuclear protein, floral
asymmetry; 1.9A {Antirrhinum majus} SCOP: a.4.1.3
Length = 93
Score = 32.5 bits (74), Expect = 0.005
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 7/50 (14%)
Query: 54 TEWSREEDEKLLHLA-----KLMPTQWRTIAPII-GRTAAQCLERYEFLL 97
WS +E+ K A K P +W +A + GRT + + YE L+
Sbjct: 9 RPWSAKEN-KAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYEILV 57
Score = 28.3 bits (63), Expect = 0.20
Identities = 11/50 (22%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 9 DEILKAAVMKYGK---NQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTE 55
++ + A+ Y K ++W+ +A + ++ ++ K + +E L IK E
Sbjct: 16 NKAFERALAVYDKDTPDRWANVARAVEGRTPEEVK-KHYEILVEDIKYIE 64
>2roh_A RTBP1, telomere binding protein-1; plant, nucleus, DNA binding
protein; NMR {Oryza sativa}
Length = 122
Score = 33.2 bits (75), Expect = 0.005
Identities = 10/54 (18%), Positives = 20/54 (37%), Gaps = 4/54 (7%)
Query: 9 DEILKAAVMKYGKNQWSRIASL----LHRKSAKQCKARWFEWLDPSIKKTEWSR 58
E+L AV G +W + +H ++ K +W + + + R
Sbjct: 39 VELLVEAVEHLGTGRWRDVKFRAFENVHHRTYVDLKDKWKTLVHTASIAPQQRR 92
Score = 27.4 bits (60), Expect = 0.67
Identities = 10/58 (17%), Positives = 24/58 (41%), Gaps = 6/58 (10%)
Query: 52 KKTEWSREEDEKLLH-LAKLMPTQWRTI-----APIIGRTAAQCLERYEFLLYRARRK 103
+ ++ E E L+ + L +WR + + RT ++++ L++ A
Sbjct: 30 IRRPFTVAEVELLVEAVEHLGTGRWRDVKFRAFENVHHRTYVDLKDKWKTLVHTASIA 87
>1wgx_A KIAA1903 protein; MYB DNA-binding domain, human cDNA, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, unknown function; NMR {Homo sapiens}
SCOP: a.4.1.3
Length = 73
Score = 31.7 bits (71), Expect = 0.009
Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 5/52 (9%)
Query: 47 LDPSIKKTEWSREEDEKL----LHLAKLMPTQWRTIAPIIG-RTAAQCLERY 93
S EW+ +E +KL L K P W +A +G R+ +C +Y
Sbjct: 2 SSGSSGDKEWNEKELQKLHCAFASLPKHKPGFWSEVAAAVGSRSPEECQRKY 53
Score = 25.2 bits (54), Expect = 2.5
Identities = 8/46 (17%), Positives = 22/46 (47%)
Query: 14 AAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSRE 59
A++ K+ WS +A+ + +S ++C+ ++ E + +
Sbjct: 24 ASLPKHKPGFWSEVAAAVGSRSPEECQRKYMENPRGKGSQKHVTSG 69
>2cqq_A RSGI RUH-037, DNAJ homolog subfamily C member 1; membrane
protein, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: a.4.1.3
Length = 72
Score = 31.6 bits (71), Expect = 0.011
Identities = 11/48 (22%), Positives = 18/48 (37%), Gaps = 4/48 (8%)
Query: 50 SIKKTEWSREEDEKLLHLAKLMPT----QWRTIAPIIGRTAAQCLERY 93
S EW+ E+ +L P +W IA +GR+ +
Sbjct: 5 SSGAPEWTEEDLSQLTRSMVKFPGGTPGRWEKIAHELGRSVTDVTTKA 52
>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET:
I0P; 2.06A {Homo sapiens} PDB: 1xc5_A
Length = 94
Score = 31.8 bits (72), Expect = 0.012
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 6/46 (13%)
Query: 10 EILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTE 55
E + M++ KN + IAS L RK+ +C ++ KK E
Sbjct: 52 ETFREKFMQHPKN-FGLIASFLERKTVAECVLYYYLT-----KKNE 91
Score = 27.9 bits (62), Expect = 0.35
Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 1/50 (2%)
Query: 45 EWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIG-RTAAQCLERY 93
+ WS +E E P + IA + +T A+C+ Y
Sbjct: 35 KVYKDRQVMNMWSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYY 84
>1ug2_A 2610100B20RIK gene product; hypothetical protein, MYB-like DNA
binding domain, structural genomics, riken structural
genomics/proteomics initiative; NMR {Mus musculus}
SCOP: a.4.1.3
Length = 95
Score = 30.9 bits (69), Expect = 0.026
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 56 WSREEDEKLLHLAKLMPTQWRTIAPI----IGRTAAQCLERYEFLL 97
W+RE D +L + + Q T + I +T + R+ L+
Sbjct: 36 WTREADRVILTMCQEQGAQPHTFSVISQQLGNKTPVEVSHRFRELM 81
>2aje_A Telomere repeat-binding protein; DNA-binding, Trp, MYB motif, DNA
binding protein; NMR {Arabidopsis thaliana} SCOP:
a.4.1.3
Length = 105
Score = 30.4 bits (68), Expect = 0.044
Identities = 10/54 (18%), Positives = 18/54 (33%), Gaps = 4/54 (7%)
Query: 9 DEILKAAVMKYGKNQWSRI----ASLLHRKSAKQCKARWFEWLDPSIKKTEWSR 58
E L AV K G +W + ++ K +W + + + R
Sbjct: 21 VEALVQAVEKLGTGRWRDVKLCAFEDADHRTYVDLKDKWKTLVHTAKISPQQRR 74
Score = 25.4 bits (55), Expect = 3.1
Identities = 12/58 (20%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 52 KKTEWSREEDEKLLH-LAKLMPTQWRTI-----APIIGRTAAQCLERYEFLLYRARRK 103
+ +S E E L+ + KL +WR + RT ++++ L++ A+
Sbjct: 12 IRRPFSVAEVEALVQAVEKLGTGRWRDVKLCAFEDADHRTYVDLKDKWKTLVHTAKIS 69
>2ckx_A NGTRF1, telomere binding protein TBP1; nuclear protein; 1.9A
{Nicotiana tabacum} SCOP: a.4.1.3 PDB: 2qhb_A
Length = 83
Score = 29.6 bits (66), Expect = 0.059
Identities = 8/39 (20%), Positives = 13/39 (33%), Gaps = 4/39 (10%)
Query: 9 DEILKAAVMKYGKNQWSRIA----SLLHRKSAKQCKARW 43
E L AV G +W + ++ K +W
Sbjct: 8 VEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKW 46
>2juh_A Telomere binding protein TBP1; helix, nucleus, nuclear protein;
NMR {Nicotiana glutinosa}
Length = 121
Score = 30.2 bits (67), Expect = 0.072
Identities = 8/46 (17%), Positives = 15/46 (32%), Gaps = 4/46 (8%)
Query: 9 DEILKAAVMKYGKNQWSRIASL----LHRKSAKQCKARWFEWLDPS 50
E L AV G +W + ++ K +W + +
Sbjct: 25 VEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTA 70
Score = 25.1 bits (54), Expect = 4.6
Identities = 11/59 (18%), Positives = 23/59 (38%), Gaps = 6/59 (10%)
Query: 52 KKTEWSREEDEKLLH-LAKLMPTQWRTIA-----PIIGRTAAQCLERYEFLLYRARRKA 104
+ +S E E L+ + L +WR + RT ++++ L++ A
Sbjct: 16 IRRPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIAP 74
>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3;
transcription, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 75
Score = 29.2 bits (65), Expect = 0.075
Identities = 16/66 (24%), Positives = 27/66 (40%), Gaps = 7/66 (10%)
Query: 49 PSIKKTEWSREEDEKLLHLAKLMPTQ------WRTIAPIIG-RTAAQCLERYEFLLYRAR 101
S W+ EE +KL L P + W+ IA +G RTA Q + + +
Sbjct: 4 GSSGNQLWTVEEQKKLEQLLIKYPPEEVESRRWQKIADELGNRTAKQVASQVQKYFIKLT 63
Query: 102 RKAVQL 107
+ + +
Sbjct: 64 KAGIPV 69
>2lr8_A CAsp8-associated protein 2; structural genomics, northeast
structural genomics consortiu PSI-biology, apoptosis;
NMR {Homo sapiens}
Length = 70
Score = 28.5 bits (63), Expect = 0.15
Identities = 10/45 (22%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 56 WSREEDEKLLHLAKLMPTQWRT---IAPIIGRTAAQCLERYEFLL 97
W+R +D +L + +T +A + + Q ER++ L+
Sbjct: 17 WTRNDDRVILLECQKRGPSSKTFAYLAAKLDKNPNQVSERFQQLM 61
>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 = 28.3 bits (62), Expect = 0.47
Identities = 11/62 (17%), Positives = 19/62 (30%), Gaps = 11/62 (17%)
Query: 48 DPSIKKTEWSREEDEKLLHLAKLM-------PTQWRTIAP----IIGRTAAQCLERYEFL 96
S+ + DE L K + P + T P II + L ++
Sbjct: 288 HISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW 347
Query: 97 LY 98
+
Sbjct: 348 KH 349
>1kkx_A Transcription regulatory protein ADR6; ARID, DNA-binding domain,
DNA binding protein; NMR {Saccharomyces cerevisiae}
SCOP: a.4.3.1 PDB: 1kn5_A
Length = 123
Score = 25.7 bits (56), Expect = 2.4
Identities = 15/70 (21%), Positives = 26/70 (37%), Gaps = 9/70 (12%)
Query: 12 LKAAVMKYG-------KNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKL 64
L V K+G QWS +A L +Q ++ +F L P + +E K
Sbjct: 53 LYMLVQKFGGADQVTRTQQWSMVAQRLQISDYQQLESIYFRILLPYER--HMISQEGIKE 110
Query: 65 LHLAKLMPTQ 74
+++
Sbjct: 111 TQAKRILQPS 120
>2ebi_A DNA binding protein GT-1; DNA-binding domain, phosphorylation;
HET: DNA; NMR {Arabidopsis thaliana} PDB: 2jmw_A*
Length = 86
Score = 25.1 bits (55), Expect = 2.7
Identities = 9/35 (25%), Positives = 14/35 (40%), Gaps = 4/35 (11%)
Query: 13 KAAVMKYGKNQWSRIASLLHRK----SAKQCKARW 43
K K+ W +I+S + K S C +W
Sbjct: 25 LFNTSKSNKHLWEQISSKMREKGFDRSPDMCTDKW 59
>3b9o_A Alkane monoxygenase; LADA, alkane hydroxylase, monooxygenase,
plasmid, oxidoreductase; HET: FMN; 1.90A {Geobacillus
thermodenitrificans} PDB: 3b9n_A*
Length = 440
Score = 25.3 bits (56), Expect = 5.1
Identities = 6/28 (21%), Positives = 12/28 (42%), Gaps = 4/28 (14%)
Query: 69 KLMPTQWRTIAPIIGRTAAQCLERYEFL 96
K+ I I+G+T + +E+
Sbjct: 276 KMFAG----ICVIVGKTHDEAMEKLNSF 299
>2jvw_A Uncharacterized protein; solution structure, alpha helical
protein, structural GE unknown function, PSI-2, protein
structure initiative; NMR {Vibrio fischeri}
Length = 88
Score = 24.3 bits (53), Expect = 5.2
Identities = 11/24 (45%), Positives = 14/24 (58%), Gaps = 7/24 (29%)
Query: 48 DPSIK-------KTEWSREEDEKL 64
DPSIK KT+W+RE E +
Sbjct: 45 DPSIKSSLKFLRKTDWARERVENI 68
>2hbt_A EGL nine homolog 1; prolyl hydroxylase, hypoxia inducible factor,
HIF, 2- oxoglutarate, oxygenase, oxidoreductase; HET:
UN9; 1.60A {Homo sapiens} PDB: 2hbu_A* 2g1m_A* 3hqu_A*
3hqr_A* 2y33_A* 2y34_A* 2g19_A* 3ouj_A* 3ouh_A* 3oui_A*
Length = 247
Score = 25.1 bits (54), Expect = 5.4
Identities = 6/30 (20%), Positives = 11/30 (36%)
Query: 55 EWSREEDEKLLHLAKLMPTQWRTIAPIIGR 84
+W + +L + Q+ I P R
Sbjct: 154 DWDAKVSGGILRIFPEGKAQFADIEPKFDR 183
>1zke_A Hypothetical protein HP1531; layer of helix-turn-helix,
structural G PSI, protein structure initiative, midwest
center for struc genomics; 1.60A {Helicobacter pylori}
SCOP: a.30.6.1
Length = 83
Score = 24.2 bits (52), Expect = 6.2
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 44 FEWLDPSIKKTEWSREEDEKLLHLAKL 70
FE + + E S+ E E LL LA L
Sbjct: 4 FEKIRKILADIEDSQNEIEMLLKLANL 30
>3ivf_A Talin-1; FERM domain, cell membrane, cell projection, cytoskeleton,
M phosphoprotein, cell adhesion, structural protein;
1.94A {Mus musculus} PDB: 2kma_A 2kc1_A
Length = 371
Score = 24.9 bits (54), Expect = 6.2
Identities = 13/43 (30%), Positives = 17/43 (39%)
Query: 31 LHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPT 73
L R+ ++ K WLD E EE E LL K +
Sbjct: 129 LVRELMEEKKDDELNWLDHGRTLREQGVEEHETLLLRRKFFYS 171
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 24.7 bits (53), Expect = 7.5
Identities = 7/34 (20%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 33 RKSAKQCKARWFEWLDPSIKKTEWS-REEDEKLL 65
R+ AK+ W + ++K + + R D+
Sbjct: 113 REKAKKDLEEWNQRQSEQVEKNKINNRIADKAFY 146
>3sdo_A Nitrilotriacetate monooxygenase; seattle structural genomics center
for infectious disease, S oxidoreductase; 2.00A
{Burkholderia pseudomallei}
Length = 453
Score = 24.5 bits (54), Expect = 8.2
Identities = 8/28 (28%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 69 KLMPTQWRTIAPIIGRTAAQCLERYEFL 96
K+ P I PI+G T + ++Y +
Sbjct: 268 KVFPG----IGPIVGATQQEADDKYRQV 291
>1tvl_A Protein YTNJ; beta-alpha barrel, structural genomics, PSI, protein
structu initiative, NEW YORK SGX research center for
structural GEN nysgxrc; 2.10A {Bacillus subtilis} SCOP:
c.1.16.4 PDB: 1yw1_A*
Length = 454
Score = 24.5 bits (54), Expect = 8.6
Identities = 6/28 (21%), Positives = 13/28 (46%), Gaps = 4/28 (14%)
Query: 69 KLMPTQWRTIAPIIGRTAAQCLERYEFL 96
++ P I+PI+ T + ++Y
Sbjct: 268 RIFPG----ISPIVADTEEEAEKKYREF 291
>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 = 24.1 bits (51), Expect = 9.1
Identities = 8/42 (19%), Positives = 13/42 (30%), Gaps = 15/42 (35%)
Query: 50 SIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLE 91
++KK + S L AP + A +E
Sbjct: 21 ALKKLQAS---------LKLYADDS----APALAIKAT--ME 47
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
0.323 0.132 0.413
Gapped
Lambda K H
0.267 0.0610 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,736,811
Number of extensions: 86380
Number of successful extensions: 376
Number of sequences better than 10.0: 1
Number of HSP's gapped: 346
Number of HSP's successfully gapped: 96
Length of query: 108
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 36
Effective length of database: 4,691,481
Effective search space: 168893316
Effective search space used: 168893316
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.7 bits)