RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy639
(114 letters)
>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET:
I0P; 2.06A {Homo sapiens} PDB: 1xc5_A
Length = 94
Score = 93.8 bits (233), Expect = 1e-26
Identities = 48/93 (51%), Positives = 64/93 (68%), Gaps = 2/93 (2%)
Query: 7 HSLSVIPPIICDPRHPFTGPRFINNNGRVTDYEAEMRDRAQAKMWTQQEREVFRDKYIHH 66
L+VIPP++ D +FIN NG + D +DR MW++QE+E FR+K++ H
Sbjct: 4 RQLAVIPPMLYDADQ--QRIKFINMNGLMADPMKVYKDRQVMNMWSEQEKETFREKFMQH 61
Query: 67 QKNFGLIASFLERRTPSDCVEYYYLSKKRENYK 99
KNFGLIASFLER+T ++CV YYYL+KK ENYK
Sbjct: 62 PKNFGLIASFLERKTVAECVLYYYLTKKNENYK 94
>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 61
Score = 78.6 bits (194), Expect = 5e-21
Identities = 33/58 (56%), Positives = 42/58 (72%)
Query: 40 AEMRDRAQAKMWTQQEREVFRDKYIHHQKNFGLIASFLERRTPSDCVEYYYLSKKREN 97
DR +WT E+E+F+DK+I H KNFGLIAS+LER++ DCV YYYL+KK EN
Sbjct: 4 GSSGDRQFMNVWTDHEKEIFKDKFIQHPKNFGLIASYLERKSVPDCVLYYYLTKKNEN 61
>2yqk_A Arginine-glutamic acid dipeptide repeats protein; structure
genomics, SANT domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 63
Score = 64.4 bits (157), Expect = 2e-15
Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 1/53 (1%)
Query: 43 RDRAQAKMWTQQEREVFRDKYIHHQKNFGLIAS-FLERRTPSDCVEYYYLSKK 94
K WT+ E + F + KNF I L + + + +YY KK
Sbjct: 4 GSSGIEKCWTEDEVKRFVKGLRQYGKNFFRIRKELLPNKETGELITFYYYWKK 56
>2crg_A Metastasis associated protein MTA3; transcription factor, helix
turn helix, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: a.4.1.3
Length = 70
Score = 59.2 bits (143), Expect = 2e-13
Identities = 14/57 (24%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 45 RAQAKMWTQQEREVFRDKYIHHQKNFGLIA-SFLERRTPSDCVEYYYLSKKRENYKR 100
+ + W+ E +F + + K+F I FL ++ + +EYYY+ K + Y +
Sbjct: 5 SSGMEEWSASEACLFEEALEKYGKDFNDIRQDFLPWKSLTSIIEYYYMWKTTDRYVQ 61
>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural
genomics consortium, NESG, north structural genomics
consortium; NMR {Homo sapiens}
Length = 89
Score = 55.7 bits (134), Expect = 8e-12
Identities = 16/63 (25%), Positives = 31/63 (49%)
Query: 38 YEAEMRDRAQAKMWTQQEREVFRDKYIHHQKNFGLIASFLERRTPSDCVEYYYLSKKREN 97
+ + R+ + WT++E + + H +N+ IA + +T S C +Y+ KKR+N
Sbjct: 6 HHSSGRENLYFQGWTEEEMGTAKKGLLEHGRNWSAIARMVGSKTVSQCKNFYFNYKKRQN 65
Query: 98 YKR 100
Sbjct: 66 LDE 68
>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 = 52.1 bits (123), Expect = 2e-09
Identities = 9/71 (12%), Positives = 27/71 (38%)
Query: 32 NGRVTDYEAEMRDRAQAKMWTQQEREVFRDKYIHHQKNFGLIASFLERRTPSDCVEYYYL 91
+G + Y + WT +E+ + + ++F I+ + ++ ++
Sbjct: 117 DGGIEPYRLPEVIQKCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVN 176
Query: 92 SKKRENYKRAI 102
++R N +
Sbjct: 177 YRRRFNIDEVL 187
>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 = 49.2 bits (115), Expect = 3e-08
Identities = 13/50 (26%), Positives = 23/50 (46%)
Query: 51 WTQQEREVFRDKYIHHQKNFGLIASFLERRTPSDCVEYYYLSKKRENYKR 100
WT +++ +F + H K F I L ++ + V++YY KK
Sbjct: 192 WTVEDKVLFEQAFSFHGKTFHRIQQMLPDKSIASLVKFYYSWKKTRTKTS 241
Score = 45.7 bits (106), Expect = 5e-07
Identities = 7/56 (12%), Positives = 22/56 (39%)
Query: 47 QAKMWTQQEREVFRDKYIHHQKNFGLIASFLERRTPSDCVEYYYLSKKRENYKRAI 102
WT +E+ + + ++F I+ + ++ ++ ++R N +
Sbjct: 379 CNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNYRRRFNIDEVL 434
>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 = 39.9 bits (93), Expect = 8e-06
Identities = 7/49 (14%), Positives = 25/49 (51%)
Query: 41 EMRDRAQAKMWTQQEREVFRDKYIHHQKNFGLIASFLERRTPSDCVEYY 89
+ + + + WT+QE + + ++ ++ ++ + RT +C+ ++
Sbjct: 11 KSKGASAGREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHF 59
>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 = 2e-04
Identities = 12/56 (21%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 51 WTQQEREVFRDKYIHHQKNFGLIASFLERRTPSDCVEY---YYLSKKRENYKRAIP 103
WT +E+E+F + + I+ + RT Y Y+ +K + + P
Sbjct: 12 WTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCGLDKETP 67
>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 = 33.3 bits (76), Expect = 0.003
Identities = 11/63 (17%), Positives = 26/63 (41%), Gaps = 5/63 (7%)
Query: 36 TDYEAEMRDRAQAKMWTQQEREVFRDKYIHHQKN----FGLIASFLERRTPSDCVE-YYY 90
+ + R R+ + WTQ ++++ + + + IA + ++ DC+ Y
Sbjct: 6 SGSLRKERARSAEEPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKL 65
Query: 91 LSK 93
L
Sbjct: 66 LVS 68
>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 = 30.8 bits (70), Expect = 0.018
Identities = 9/41 (21%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 51 WTQQEREVFRDKYIHH-QKNFGLIASFLERRTPSDCVEYYY 90
WT QE + + N+ +A+ + +T +C ++Y
Sbjct: 11 WTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYM 51
>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 = 32.1 bits (72), Expect = 0.029
Identities = 19/94 (20%), Positives = 31/94 (32%), Gaps = 23/94 (24%)
Query: 12 IPPIICDPRHPFTGPRFINNNGRVTDYEAEMRDRAQAKMWTQQEREVFRDKYIHHQKNFG 71
+P + T PR ++ +RD W + V DK
Sbjct: 318 LPREVLT-----TNPRRLSIIA------ESIRDGL--ATW-DNWKHVNCDKLTT------ 357
Query: 72 LIASFLERRTPSDCVEYYY-LSKKRENYKRAIPT 104
+I S L P++ + + LS + IPT
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLSVFPPSAH--IPT 389
Score = 26.0 bits (56), Expect = 3.7
Identities = 8/66 (12%), Positives = 21/66 (31%), Gaps = 9/66 (13%)
Query: 57 EVFRDKYIHHQKNFGLI-ASFLERRTPSDCVE-----YYYLSKK---RENYKRAIPTNNM 107
+V + + +F + + +P +E Y + R ++ I
Sbjct: 169 DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH 228
Query: 108 LMKETL 113
++ L
Sbjct: 229 SIQAEL 234
>1xdp_A Polyphosphate kinase; PPK, PPK complex with AMPPNP, AMPPNP,
transferase; HET: ATP; 2.50A {Escherichia coli} SCOP:
a.7.15.1 d.322.1.2 d.136.1.4 d.136.1.4 PDB: 1xdo_A*
Length = 687
Score = 30.5 bits (70), Expect = 0.087
Identities = 5/29 (17%), Positives = 14/29 (48%), Gaps = 2/29 (6%)
Query: 5 RRHSLSVIPPIICDPRHPFTGPRFINNNG 33
+++ I PI+ +P +F+ ++
Sbjct: 127 KQYLRQHITPILINPDTDL--VQFLKDDY 153
>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics,
unknown function, NPPSFA; NMR {Mus musculus}
Length = 60
Score = 28.0 bits (63), Expect = 0.16
Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 3/48 (6%)
Query: 51 WTQQEREVFRDKY-IHHQKNFGLIASFLERRTPSDCVE--YYYLSKKR 95
WT +E E R Q+++ +AS RT C LS
Sbjct: 11 WTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLRVLSGPS 58
>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 = 28.4 bits (64), Expect = 0.17
Identities = 9/38 (23%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 51 WTQQEREVFRDKYIHH-QKNFGLIASFLERRTPSDCVE 87
W E E+ + + + + + IAS L R++ C
Sbjct: 12 WRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKA 49
>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 = 29.2 bits (66), Expect = 0.18
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 51 WTQQEREVFRDKYIHH-QKNFGLIASFLERRTPSDC 85
WT++E E + + ++ +IA++L RT C
Sbjct: 9 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQC 44
Score = 28.4 bits (64), Expect = 0.34
Identities = 9/45 (20%), Positives = 19/45 (42%)
Query: 51 WTQQEREVFRDKYIHHQKNFGLIASFLERRTPSDCVEYYYLSKKR 95
WT++E + + + IA L RT + ++ + +R
Sbjct: 113 WTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRR 157
>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 = 26.8 bits (60), Expect = 0.37
Identities = 11/45 (24%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 51 WTQQEREVFRDKYIHH-QKNFGLIASFLERRTPSDCVEYY--YLS 92
WT++E E + + ++ +IA++L RT C + L+
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLN 50
>1g2o_A Purine nucleoside phosphorylase; trimer, transition-state complex,
transferase; HET: IMH; 1.75A {Mycobacterium
tuberculosis} SCOP: c.56.2.1 PDB: 1i80_A* 1n3i_A*
3iom_A*
Length = 268
Score = 26.8 bits (60), Expect = 1.8
Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 10/40 (25%)
Query: 15 IICD-----PRHPFTGPRFINNNGRVTD-YEAEMRDRAQA 48
+I D R P G F++ +TD Y +R+ A+
Sbjct: 135 LISDHLNLTARSPLVGGEFVD----LTDAYSPRLRELARQ 170
>1vr6_A Phospho-2-dehydro-3-deoxyheptonate aldolase; TM0343, structural
genomics, joint center for STRU genomics, JCSG, protein
structure initiative; 1.92A {Thermotoga maritima} SCOP:
c.1.10.4 PDB: 1rzm_A* 3pg9_A* 3pg8_A*
Length = 350
Score = 26.1 bits (58), Expect = 2.8
Identities = 10/32 (31%), Positives = 13/32 (40%), Gaps = 9/32 (28%)
Query: 4 RRRHSLSVIP--------PIICDPRHPFTGPR 27
R +S +P PI+ DP H G R
Sbjct: 259 RNTLDISAVPIIRKESHLPILVDPSHS-GGRR 289
>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR
transcription factor; 2.00A {Trichomonas vaginalis} PDB:
3osf_A
Length = 126
Score = 25.3 bits (56), Expect = 3.4
Identities = 9/54 (16%), Positives = 18/54 (33%), Gaps = 8/54 (14%)
Query: 51 WTQQEREVFRDKYIHHQKNFG----LIASFLERRTPSDCVEYYYLSKKRENYKR 100
WT +E + + + +G +IA F RT + + +
Sbjct: 65 WTAEEDALL----VQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVTISNKLGIPQ 114
Score = 24.9 bits (55), Expect = 4.5
Identities = 10/44 (22%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 51 WTQQEREVFRDKYIHHQKNFGLIASFLERRTPSDCVE--YYYLS 92
+T +E E+ + H ++ +IA+ R C + YL+
Sbjct: 14 FTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYLA 57
>2o8r_A Polyphosphate kinase; structural genomics, protein structure
initiative, PSI, nysgrc, NEW YORK structural genomics
research consortium; HET: MSE; 2.70A {Porphyromonas
gingivalis} SCOP: a.7.15.1 d.322.1.2 d.136.1.4 d.136.1.4
Length = 705
Score = 25.9 bits (58), Expect = 3.9
Identities = 4/29 (13%), Positives = 9/29 (31%), Gaps = 3/29 (10%)
Query: 5 RRHSLSVIPPIICDPRHPFTGPRFINNNG 33
++ P++ P FI +
Sbjct: 136 HEEIFPLLYPMLLLPSKVR--T-FIRSGR 161
>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics,
NPPSFA; NMR {Schizosaccharomyces pombe}
Length = 58
Score = 24.3 bits (53), Expect = 4.3
Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 2/48 (4%)
Query: 45 RAQAKMWTQQEREVFRDK-YIHHQKNFGLIASFL-ERRTPSDCVEYYY 90
+ W E + D N+ IA ++ RT +C ++Y
Sbjct: 6 SGFDENWGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHYL 53
>1qe5_A Pentosyltransferase; enzyme, purine nucleoside phosphorylase; 2.20A
{Cellulomonas SP} SCOP: c.56.2.1 PDB: 1c3x_A
Length = 266
Score = 25.2 bits (56), Expect = 5.1
Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 10/39 (25%)
Query: 15 IICD-----PRHPFTGPRFINNNGRVTD-YEAEMRDRAQ 47
++ D R P GP F++ +TD Y +R+ A
Sbjct: 134 LLSDHINLTARSPLEGPTFVD----LTDVYSPRLRELAH 168
>1zco_A 2-dehydro-3-deoxyphosphoheptonate aldolase; arabino-heptulosonate,
synthase, shikimate, DAHP, DAH7P, DAH DAH7PS, lyase;
HET: PEP; 2.25A {Pyrococcus furiosus}
Length = 262
Score = 24.9 bits (55), Expect = 6.7
Identities = 12/32 (37%), Positives = 14/32 (43%), Gaps = 9/32 (28%)
Query: 4 RRRHSLSVIP--------PIICDPRHPFTGPR 27
R +S +P PII DP HP G R
Sbjct: 176 RFTLDISAVPVVKELSHLPIIVDPSHP-AGRR 206
>3ecq_A Protein SPR0328, endo-alpha-N-acetylgalactosaminidase; distorted
(beta/alpha)8 (TIM) barrel glycoside hydrolase DOM WALL;
2.90A {Streptococcus pneumoniae}
Length = 1531
Score = 24.9 bits (53), Expect = 7.8
Identities = 5/14 (35%), Positives = 8/14 (57%)
Query: 26 PRFINNNGRVTDYE 39
PR +NG + D +
Sbjct: 1514 PRGSGSNGNLRDVK 1527
>1vs1_A 3-deoxy-7-phosphoheptulonate synthase; (beta/alpha)8 barrel,
transferase; HET: PEP; 2.30A {Aeropyrum pernix}
Length = 276
Score = 24.5 bits (54), Expect = 8.2
Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 9/32 (28%)
Query: 4 RRRHSLSVIP--------PIICDPRHPFTGPR 27
R ++ + P+I DP HP G R
Sbjct: 191 RFTLDVAAVAVLKEATHLPVIVDPSHP-AGRR 221
>3nvt_A 3-deoxy-D-arabino-heptulosonate 7-phosphate synth; bifunctional
3-deoxy-7-phosphoheptulonate synthase/chorismat listeria
monocytogenes EGD-E; 1.95A {Listeria monocytogenes} PDB:
3tfc_A*
Length = 385
Score = 24.7 bits (54), Expect = 9.4
Identities = 8/32 (25%), Positives = 13/32 (40%), Gaps = 9/32 (28%)
Query: 4 RRRHSLSVIP--------PIICDPRHPFTGPR 27
R +S +P P++ D H TG +
Sbjct: 295 RNTLDISAVPILKKETHLPVMVDVTHS-TGRK 325
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
0.322 0.136 0.419
Gapped
Lambda K H
0.267 0.0460 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,862,090
Number of extensions: 97840
Number of successful extensions: 285
Number of sequences better than 10.0: 1
Number of HSP's gapped: 282
Number of HSP's successfully gapped: 45
Length of query: 114
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 37
Effective length of database: 4,551,876
Effective search space: 168419412
Effective search space used: 168419412
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.1 bits)