RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy405
(66 letters)
>1ig6_A MRF-2, modulator recognition factor 2; DNA binding protein,
DNA-binding motif, protein-DNA interaction; NMR {Homo
sapiens} SCOP: a.4.3.1 PDB: 2oeh_A
Length = 107
Score = 65.7 bits (160), Expect = 3e-16
Identities = 13/47 (27%), Positives = 27/47 (57%)
Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
++++FL L + + R TP +P +G K+I+L+ ++ GG+
Sbjct: 2 ADEQAFLVALYKYMKERKTPIERIPYLGFKQINLWTMFQAAQKLGGY 48
>2rq5_A Protein jumonji; developmental protein, nucleus, repressor,
transcription, transcription regulation; NMR {Mus
musculus}
Length = 121
Score = 66.0 bits (161), Expect = 3e-16
Identities = 12/50 (24%), Positives = 22/50 (44%)
Query: 13 FKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
+ L ++ ++G +P IGG E+DL + L+ GG +
Sbjct: 10 WGPNVQRLACIKKHLRSQGITMDELPLIGGCELDLACFFRLINEMGGMQQ 59
>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 = 65.0 bits (158), Expect = 7e-16
Identities = 17/47 (36%), Positives = 28/47 (59%)
Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
K+ E F++ L + R P + +P+IG ++I+L+ LY LV GG
Sbjct: 17 KQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGA 63
>2lm1_A Lysine-specific demethylase LID; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Drosophila melanogaster}
Length = 107
Score = 63.0 bits (153), Expect = 4e-15
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 10 DAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKC 64
+A + K +FL + F E +G+ + +P + K +DLY L+ +V GG +
Sbjct: 10 EAKTRVKLNFLDQIAKFWELQGSSLK-IPMVERKALDLYTLHRIVQEEGGMEQTT 63
>2eqy_A RBP2 like, jumonji, at rich interactive domain 1B; ARID domain,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 122
Score = 61.5 bits (149), Expect = 2e-14
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 8 DGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
G+A + K +FL + + E +G+ + +P + K +DL+ L LV GG+
Sbjct: 6 SGEAQTRVKLNFLDQIAKYWELQGSTLK-IPHVERKILDLFQLNKLVAEEGGF 57
>2jxj_A Histone demethylase jarid1A; ARID domain, chromatin regulator,
developmental protein, dioxygenase, iron,
metal-binding, nucleus, oxidoreductase; NMR {Homo
sapiens}
Length = 96
Score = 59.9 bits (145), Expect = 4e-14
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 9 GDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKC 64
G + + FL L F E +G+ + +P + K +DLY L +V S GG+
Sbjct: 1 GPLGSRVRLDFLDQLAKFWELQGSTLK-IPVVERKILDLYALSKIVASKGGFEMVT 55
>2li6_A SWI/SNF chromatin-remodeling complex subunit SWI1; ligand
binding, DNA binding protein; NMR {Saccharomyces
cerevisiae}
Length = 116
Score = 60.4 bits (146), Expect = 4e-14
Identities = 17/47 (36%), Positives = 28/47 (59%)
Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
K+ E F++ L + R P + +P+IG ++I+L+ LY LV GG
Sbjct: 18 KQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGA 64
>2jrz_A Histone demethylase jarid1C; bright/ARID domain, helical,
structural genomics, structural genomics consortium,
SGC, oxidoreductase; NMR {Homo sapiens} PDB: 2yqe_A
Length = 117
Score = 60.3 bits (146), Expect = 4e-14
Identities = 14/51 (27%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 10 DAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
+A + K ++L + F E +G+ + +P + + +DLY L +V GG+
Sbjct: 6 EAQTRVKLNYLDQIAKFWEIQGSSLK-IPNVERRILDLYSLSKIVVEEGGY 55
>2cxy_A BAF250B subunit, HBAF250B; DNA-binding domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; 1.60A {Homo
sapiens} PDB: 2eh9_A 1ryu_A
Length = 125
Score = 56.6 bits (136), Expect = 1e-12
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
E++ ++ F E RG+P +P +G K +DL+ LY V GG
Sbjct: 20 PERKLWVDRYLTFMEERGSPVSSLPAVGKKPLDLFRLYVCVKEIGGL 66
>1c20_A DEAD ringer protein; DNA-binding domain, ARID, AT-rich
interaction domain, DNA- binding protein; NMR
{Drosophila melanogaster} SCOP: a.4.3.1 PDB: 1kqq_A
Length = 128
Score = 56.3 bits (135), Expect = 3e-12
Identities = 19/46 (41%), Positives = 27/46 (58%)
Query: 15 EKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
+++ FL DL F + RGTP +P + +DLY LY LV + GG
Sbjct: 22 KRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGL 67
>2kk0_A AT-rich interactive domain-containing protein 3A; DEAD ringer,
AT-rich interaction domain, NESG, ARID, cytopla
binding, nucleus, phosphoprotein; NMR {Homo sapiens}
Length = 145
Score = 54.4 bits (130), Expect = 2e-11
Identities = 19/46 (41%), Positives = 29/46 (63%)
Query: 15 EKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
+++ FL DL F + RGTP +P + + +DL++LY LVT GG
Sbjct: 34 KRKEFLDDLFSFMQKRGTPVNRIPIMAKQVLDLFMLYVLVTEKGGL 79
>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop,
OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}
Length = 396
Score = 26.7 bits (60), Expect = 0.51
Identities = 12/56 (21%), Positives = 24/56 (42%)
Query: 1 MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTS 56
+ KV + GD K + + ++ + + P R KEI++ + +TS
Sbjct: 167 LEKVAVRGGDKKLKPEYDIMCKVKSWVIDQKKPVRFYHDWNDKEIEVLNKHLFLTS 222
>4dj3_A Period circadian protein homolog 3; PAS domain, circadian rhythm,
protein binding; 2.50A {Mus musculus}
Length = 317
Score = 26.1 bits (57), Expect = 0.65
Identities = 7/28 (25%), Positives = 10/28 (35%)
Query: 35 RHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
+ V K G + T NG +V
Sbjct: 226 QKVLKYAGHPPFEHSPVRFCTQNGEYVI 253
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 26.2 bits (57), Expect = 0.75
Identities = 6/20 (30%), Positives = 10/20 (50%), Gaps = 7/20 (35%)
Query: 10 DAYFKEKESFLRDLQHFHET 29
D YF+E L+ ++T
Sbjct: 167 DDYFEE-------LRDLYQT 179
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins,
transcription-activato; 2.27A {Mus musculus}
Length = 387
Score = 25.0 bits (54), Expect = 2.2
Identities = 5/41 (12%), Positives = 12/41 (29%)
Query: 22 DLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
+ H + H + +E Y +G ++
Sbjct: 315 EYFHQDDIGHLAECHRQVLQTREKITTNCYKFKIKDGSFIT 355
>2q01_A Uronate isomerase; structural genomics, protein structure
initiative NEW YORK SGX research center for structural
genomics, nysgx; 2.34A {Caulobacter crescentus}
Length = 497
Score = 24.7 bits (53), Expect = 2.6
Identities = 11/34 (32%), Positives = 15/34 (44%)
Query: 3 KVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRH 36
KV K G +E++ HF+ RGTP
Sbjct: 84 KVRSKAGVPDTDPREAWRVFASHFYLFRGTPSWV 117
>2ftp_A Hydroxymethylglutaryl-COA lyase; structural genomics, PSI, protein
structure initiativ midwest center for structural
genomics, MCSG; 2.40A {Pseudomonas aeruginosa}
Length = 302
Score = 24.4 bits (54), Expect = 2.8
Identities = 5/8 (62%), Positives = 6/8 (75%)
Query: 25 HFHETRGT 32
HFH+T G
Sbjct: 209 HFHDTYGQ 216
>1ydn_A Hydroxymethylglutaryl-COA lyase; TIM-barrel protein, structural
genomics, PSI, protein struct initiative; 2.30A
{Brucella melitensis}
Length = 295
Score = 24.4 bits (54), Expect = 3.0
Identities = 4/8 (50%), Positives = 6/8 (75%)
Query: 25 HFHETRGT 32
H+H+T G
Sbjct: 205 HYHDTGGR 212
>1ydo_A HMG-COA lyase; TIM-barrel protein, structural genomics, PSI,
protein struct initiative, northeast structural genomics
consortium, NESG,; 2.71A {Bacillus subtilis subsp}
Length = 307
Score = 24.4 bits (54), Expect = 3.1
Identities = 7/8 (87%), Positives = 8/8 (100%)
Query: 25 HFHETRGT 32
HFH+TRGT
Sbjct: 207 HFHDTRGT 214
>2cw6_A Hydroxymethylglutaryl-COA lyase, mitochondrial; HMG-COA lyase,
ketogenic enzyme; HET: 3HG; 2.10A {Homo sapiens} PDB:
3mp3_A* 3mp4_A 3mp5_A*
Length = 298
Score = 24.3 bits (54), Expect = 3.1
Identities = 4/8 (50%), Positives = 5/8 (62%)
Query: 25 HFHETRGT 32
H H+T G
Sbjct: 206 HCHDTYGQ 213
>3spc_A Inward-rectifier K+ channel KIR2.2; PIP, membrane protein, lipid,
receptor, metal transport; HET: P8P; 2.45A {Gallus
gallus} PDB: 3jyc_A* 3spi_A* 3sph_A* 3spj_A 3spg_A*
Length = 343
Score = 24.0 bits (51), Expect = 4.9
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 2/37 (5%)
Query: 10 DAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEID 46
F+EK + D HFH+T P+ K++
Sbjct: 294 PVLFEEKNQYKVDYSHFHKTY--EVPSTPRCSAKDLV 328
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
0.321 0.139 0.447
Gapped
Lambda K H
0.267 0.0557 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,040,893
Number of extensions: 47376
Number of successful extensions: 109
Number of sequences better than 10.0: 1
Number of HSP's gapped: 104
Number of HSP's successfully gapped: 21
Length of query: 66
Length of database: 6,701,793
Length adjustment: 37
Effective length of query: 29
Effective length of database: 5,668,716
Effective search space: 164392764
Effective search space used: 164392764
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 (23.8 bits)