RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10248
(194 letters)
>1w4s_A Polybromo, polybromo 1 protein; BAH, bromo-associated homology
domain, chromatin remodelling, PBAF, SWI/SNF-B, RSC,
nuclear protein; 1.55A {Gallus gallus}
Length = 174
Score = 94.6 bits (235), Expect = 6e-25
Identities = 31/174 (17%), Positives = 57/174 (32%), Gaps = 35/174 (20%)
Query: 18 GTSTSDEHPVVRNCYPAMRHIQGDIIQPRDCILLKSGTRKKDLPFIAKVGALWENPEDGE 77
+ ++ + R + + D + ++ P I + LWE+ GE
Sbjct: 3 SSGSAGLSSLHRTYSQDC-SFKNSMYHVGDYVYVEPA-EANLQPHIVCIERLWED-SAGE 59
Query: 78 MMVSLLWYYRPEHTEQGTSYRDNKDEIFASRHRDINSVACIEDKCYVLTYREYCRYRKKM 137
+ W+YRP T + + + E+F S + + V+ I KC V+ +EY +
Sbjct: 60 KWLYGCWFYRPNETFHLATRKFLEKEVFKSDYYNKVPVSKILGKCVVMFVKEYFKLC--- 116
Query: 138 RSIEDNVVNFKIIVPPLGEGQYERLLRQPPGQVSPDRVFYCHKVYDFRTKRLLK 191
P + V+ C Y +TK K
Sbjct: 117 -----------------------------PENFRDEDVYVCESRYSAKTKSFKK 141
>4dov_A ORC1, origin recognition complex subunit 1; DNA replication,
replication; 1.70A {Mus musculus} PDB: 4dow_A*
Length = 163
Score = 52.0 bits (124), Expect = 6e-09
Identities = 16/98 (16%), Positives = 34/98 (34%), Gaps = 11/98 (11%)
Query: 42 IIQPRDCILLKSGTRKKDLPFIAKVGALWENPED--GEMMVSLLWYYRPEHTEQGTSYRD 99
I+ +L++ P++AK+ L++N + + + W+ R +
Sbjct: 38 HIKVGQFVLIQGE--DNKKPYVAKLIELFQNGAEVPPKKCARVQWFVRFLEIPVSKRHLL 95
Query: 100 NKD----EIFASRHRDIN---SVACIEDKCYVLTYREY 130
+ EIF D + +V I V+
Sbjct: 96 GRSPPAQEIFWYDCSDWDNKINVETIIGPVQVVALAPE 133
>3av4_A DNA (cytosine-5)-methyltransferase 1; CXXC-type zinc
finger/C5-methyltransferase family; HET: DNA; 2.75A {Mus
musculus} PDB: 3av5_A* 3av6_A*
Length = 1330
Score = 51.1 bits (121), Expect = 5e-08
Identities = 20/87 (22%), Positives = 40/87 (45%), Gaps = 4/87 (4%)
Query: 38 IQGDIIQPRDCILLKSGTRKKDLPFIAKVGALWENPEDGEMMVSLLWYYRPEHTEQGTSY 97
I ++++ DC+ + ++A+V ALWE+ ++G+MM W+ T G +
Sbjct: 465 IDEEMLEVGDCVSVIPD-DSSKPLYLARVTALWED-KNGQMMFHAHWFCAGTDTVLGAT- 521
Query: 98 RDNKDEIFASRHRDINSVACIEDKCYV 124
+ E+F + ++ I K V
Sbjct: 522 -SDPLELFLVGECENMQLSYIHSKVKV 547
Score = 41.9 bits (97), Expect = 8e-05
Identities = 10/54 (18%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 73 PEDGEMMVSLLWYYRPEHTEQGTSYRDNKD--EIFASRHRDINSVACIEDKCYV 124
+ ++ + L +YRPE+T + + + D ++ S + + + ++ +C V
Sbjct: 722 VNEADIKLRLYKFYRPENTHRSYNGSYHTDINMLYWSDEEAVVNFSDVQGRCTV 775
>3swr_A DNA (cytosine-5)-methyltransferase 1; epigenetics, DNA
methyltransferase fold, maintenance methyla transferase;
HET: DNA SFG MES; 2.49A {Homo sapiens} PDB: 3pta_A*
3pt6_A* 3pt9_A* 4da4_A*
Length = 1002
Score = 49.9 bits (118), Expect = 2e-07
Identities = 23/152 (15%), Positives = 46/152 (30%), Gaps = 27/152 (17%)
Query: 38 IQGDIIQPRDCILLKSGTRKKDLPFIAKVGALWENPEDGEMMVSLLWYYRPEHTEQGTSY 97
I + ++ DC+ + K ++A+V ALWE+ M W+ T G +
Sbjct: 154 IDAETLEVGDCVSVIPDDSSK-PLYLARVTALWED-SSNGQMFHAHWFCAGTDTVLGAT- 210
Query: 98 RDNKDEIFASRHRDINSVACIEDKCYVLTYREYCRYRKKMRSIEDNVVNFKIIVPPLGEG 157
+ E+F + ++ I K V+ P
Sbjct: 211 -SDPLELFLVDECEDMQLSYIHSKVKVI-----------------------YKAPSENWA 246
Query: 158 QYERLLRQPPGQVSPDRVFYCHKVYDFRTKRL 189
+ + + + ++ YD R
Sbjct: 247 MEGGMDPESLLEGDDGKTYFYQLWYDQDYARF 278
Score = 42.2 bits (98), Expect = 6e-05
Identities = 11/56 (19%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 71 ENPEDGEMMVSLLWYYRPEHTEQGTSYRDNKD--EIFASRHRDINSVACIEDKCYV 124
P + ++ + + +YRPE+T + T + D ++ S + ++ +C V
Sbjct: 409 GRPNETDIKIRVNKFYRPENTHKSTPASYHADINLLYWSDEEAVVDFKAVQGRCTV 464
>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 = 31.4 bits (70), Expect = 0.21
Identities = 17/137 (12%), Positives = 34/137 (24%), Gaps = 52/137 (37%)
Query: 58 KDLPFIAKV-GALWENPEDGEMMV--------SLLWYYRPEHTEQGTSYRDNKDEIFASR 108
+ +W + ++MV SL+ + K+ S
Sbjct: 383 PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV-------------EKQPKESTI-SI 428
Query: 109 HRDINSVACIEDKCYVLTYREYCRYRKKMRSIEDNVVNFKIIVPPLGEGQYERLLRQPPG 168
I Y E + ++ ++V+ Y
Sbjct: 429 P-SI--------------YLELKVKLENEYALHRSIVD-----------HYNIPKTFDSD 462
Query: 169 QVSP---DRVFYCHKVY 182
+ P D+ FY H +
Sbjct: 463 DLIPPYLDQYFYSHIGH 479
Score = 30.2 bits (67), Expect = 0.49
Identities = 20/135 (14%), Positives = 36/135 (26%), Gaps = 41/135 (30%)
Query: 51 LKSGTRKKDLPFIAKVGALWEN------PEDG-EMMVSLLWYYRPEHT---EQGTSYRDN 100
S + + F W N PE EM+ LL+ P T + ++ +
Sbjct: 171 CLSYKVQCKMDF----KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR 226
Query: 101 KDEI-------FASRH--------RDINSVACIED---KCYVL-TYREYCRYRKKMRSIE 141
I S+ ++ + C +L T R + +
Sbjct: 227 IHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRF--------KQVT 278
Query: 142 DNVVNFKIIVPPLGE 156
D + L
Sbjct: 279 DFLSAATTTHISLDH 293
>2hc4_A Vitamin D receptor; alpha helical sandwich, gene regulation; HET:
VDX; 2.20A {Danio rerio} PDB: 2hbh_A* 2hcd_A* 3dr1_A*
3o1d_A* 3o1e_A*
Length = 302
Score = 27.9 bits (62), Expect = 2.4
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 112 INSVACIEDKCYVLTYREYCRYRKKMR 138
INS+ K Y +Y ++ R+R +R
Sbjct: 13 INSLVEAHHKTYDDSYSDFVRFRPPVR 39
>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase,
single analysis, thermoalkaliphilic, hydrolase; 3.06A
{Bacillus SP} PDB: 1sky_B
Length = 502
Score = 27.6 bits (62), Expect = 2.5
Identities = 14/30 (46%), Positives = 16/30 (53%), Gaps = 8/30 (26%)
Query: 162 LLRQPPG-QVSPDRVFYCHKVYDFRTKRLL 190
LLR+PPG + P VFY H RLL
Sbjct: 276 LLRRPPGREAYPGDVFYLH-------SRLL 298
>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability,
potential tentoxin binding hydrolase; 3.20A {Spinacia
oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*
Length = 507
Score = 27.7 bits (62), Expect = 2.6
Identities = 14/30 (46%), Positives = 16/30 (53%), Gaps = 8/30 (26%)
Query: 162 LLRQPPG-QVSPDRVFYCHKVYDFRTKRLL 190
LLR+PPG + P VFY H RLL
Sbjct: 277 LLRRPPGREAYPGDVFYLH-------SRLL 299
>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for
structural genomics, JCSG, protein structure initiative
ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima
MSB8}
Length = 515
Score = 27.7 bits (62), Expect = 2.6
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 8/30 (26%)
Query: 162 LLRQPPG-QVSPDRVFYCHKVYDFRTKRLL 190
L+R+PPG + P +FY H RLL
Sbjct: 289 LMRRPPGREAYPGDIFYLH-------SRLL 311
>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP
ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11
PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A*
1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A*
2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...
Length = 510
Score = 27.6 bits (62), Expect = 2.7
Identities = 14/30 (46%), Positives = 16/30 (53%), Gaps = 8/30 (26%)
Query: 162 LLRQPPG-QVSPDRVFYCHKVYDFRTKRLL 190
LLR+PPG + P VFY H RLL
Sbjct: 284 LLRRPPGREAYPGDVFYLH-------SRLL 306
>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase,
hydrolase-transport PROT complex; HET: ANP ADP; 3.26A
{Escherichia coli DH1} PDB: 2a7u_A
Length = 513
Score = 27.6 bits (62), Expect = 3.1
Identities = 14/30 (46%), Positives = 16/30 (53%), Gaps = 8/30 (26%)
Query: 162 LLRQPPG-QVSPDRVFYCHKVYDFRTKRLL 190
LLR+PPG + P VFY H RLL
Sbjct: 276 LLRRPPGREAFPGDVFYLH-------SRLL 298
>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 = 26.9 bits (59), Expect = 6.1
Identities = 18/86 (20%), Positives = 27/86 (31%), Gaps = 23/86 (26%)
Query: 22 SDEHPVVRNCY-PAMRHIQGDIIQPRDCILLKSGTRK--KDLPFIAKVGALWENPEDGEM 78
S+ N + P + P LL + KDL K + N +D ++
Sbjct: 410 SERKLKFSNRFLP--------VASPFHSHLLVPASDLINKDL---VKNNVSF-NAKDIQI 457
Query: 79 MVSLLWYYRPEHTEQGTSYRDNKDEI 104
V Y T G+ R I
Sbjct: 458 PV-----Y---DTFDGSDLRVLSGSI 475
Score = 26.6 bits (58), Expect = 7.3
Identities = 24/177 (13%), Positives = 48/177 (27%), Gaps = 70/177 (39%)
Query: 19 TSTSDEHPVVRNCYPAMRHIQGDIIQPRDCILLKSGTRKKDLPFIAKVGALWENPEDGEM 78
T+ +++N A + + + L ++ + + +A G G
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRA-VGEGNAQLVAIFG--------G-- 162
Query: 79 MVSLLWYYRPEHTEQGTS--YRDNKDEIFASRHRDINSVACIEDKCYVLTYREYCRYRKK 136
QG + Y +E+ RD+ Y Y
Sbjct: 163 --------------QGNTDDYF---EEL-----RDL-----------------YQTYHVL 183
Query: 137 MRSIEDNVVNFKIIVPPLGEGQYERLLRQPPGQVSPDRVFYCHKVYDFRTKRLLKNP 193
+ + K L L+R ++VF + + L+NP
Sbjct: 184 VGDL------IKFSAETL-----SELIRTTL---DAEKVFT--QGLNI--LEWLENP 222
>1gtk_A Porphobilinogen deaminase; lyase, biosynthesis of linear
tetrapyrrole, all alpha/beta; HET: DPM; 1.66A
{Escherichia coli} SCOP: c.94.1.1 d.50.2.1 PDB: 1ah5_A*
2ypn_A* 1ypn_A* 1pda_A*
Length = 313
Score = 26.0 bits (58), Expect = 8.4
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 45 PRDCILLKSGTRKKDLPFIAKVG 67
PRD + + LP + VG
Sbjct: 104 PRDAFVSNNYDSLDALPAGSIVG 126
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 0.141 0.446
Gapped
Lambda K H
0.267 0.0532 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,143,534
Number of extensions: 181646
Number of successful extensions: 277
Number of sequences better than 10.0: 1
Number of HSP's gapped: 265
Number of HSP's successfully gapped: 21
Length of query: 194
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 106
Effective length of database: 4,244,745
Effective search space: 449942970
Effective search space used: 449942970
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: 41 (21.9 bits)
S2: 55 (25.4 bits)