RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13812
(120 letters)
>2nwl_A GLTPH, glutamate symport protein; alpha helical, membrane protein,
helical hairpin, unwound RE transport protein; HET: PLM;
2.96A {Pyrococcus horikoshii} PDB: 2nww_A* 1xfh_A*
2nwx_A* 3v8g_A 3v8f_A 3kbc_A
Length = 422
Score = 96.2 bits (240), Expect = 6e-25
Identities = 35/108 (32%), Positives = 49/108 (45%), Gaps = 2/108 (1%)
Query: 6 DTVGQLGLYFITVLLGLLIHGFILLPAMYTFFVREWPFRFTANMGQAIATAFGTASRLFI 65
VG+L V +GL + ++ + + P F + A+ TAF T S
Sbjct: 223 HVVGELAKVTAAVYVGLTLQILLVYFVLLKIY-GIDPISFIKHAKDAMLTAFVTRSSSGT 281
Query: 66 GYNAMQCLEENNKIDPRISRFVMPIGATINMDGTALYEAVAAIFIAQV 113
M+ + I I F +P+GATINMDGTALY+ V FIA
Sbjct: 282 LPVTMRVAK-EMGISEGIYSFTLPLGATINMDGTALYQGVCTFFIANA 328
>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 = 36.6 bits (84), Expect = 0.001
Identities = 17/76 (22%), Positives = 24/76 (31%), Gaps = 20/76 (26%)
Query: 10 QLGLYFIT-------------VLLGLLIHGFILLPAMYTFFVREWPFRFTANMGQAIATA 56
QL Y +T L G H L+ A+ W F ++ +AI
Sbjct: 245 QLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWE-SFFVSVRKAITVL 303
Query: 57 FGTASRLFIGYNAMQC 72
F FIG +
Sbjct: 304 F------FIGVRCYEA 313
>1eys_M Photosynthetic reaction center; membrane protein complex, electron
transport; HET: BGL BCL BPH MQ8 HEM CRT LDA PEF; 2.20A
{Thermochromatium tepidum} SCOP: f.26.1.1
Length = 324
Score = 27.8 bits (61), Expect = 0.87
Identities = 11/43 (25%), Positives = 20/43 (46%)
Query: 23 LIHGFILLPAMYTFFVREWPFRFTANMGQAIATAFGTASRLFI 65
LI G L ++ ++VR + M Q ++ AF A ++
Sbjct: 115 LIAGLFLTLSILLWWVRTYKRAEALGMSQHLSWAFAAAIFFYL 157
>2wjn_L Reaction center protein L chain; bacteriochlorophyll,
lipidic-sponge phase, photosynthesis, R center, electron
transport, cell membrane; HET: HEM FME BCB BPB MPG MQ7
NS5; 1.86A {Rhodopseudomonas viridis} PDB: 2wjm_L*
2x5u_L* 2x5v_L* 4ac5_L* 3t6e_L* 1r2c_L* 1prc_L* 1vrn_L*
2jbl_L* 2prc_L* 3d38_L* 3g7f_L* 3prc_L* 2i5n_L* 3t6d_L*
5prc_L* 6prc_L* 7prc_L* 1dxr_L*
Length = 274
Score = 27.3 bits (60), Expect = 1.1
Identities = 8/43 (18%), Positives = 14/43 (32%)
Query: 23 LIHGFILLPAMYTFFVREWPFRFTANMGQAIATAFGTASRLFI 65
L A ++ +RE +G + AF +F
Sbjct: 88 QAITVCALGAFISWMLREVEISRKLGIGWHVPLAFCVPIFMFC 130
>1vjn_A Zn-dependent hydrolase of metallo-beta-lactamase superfamily
TM0207; metallo-hydrolase/oxidoreductase fold,
structural genomics; 2.00A {Thermotoga maritima} SCOP:
d.157.1.4
Length = 220
Score = 27.3 bits (61), Expect = 1.3
Identities = 7/32 (21%), Positives = 14/32 (43%), Gaps = 3/32 (9%)
Query: 88 MPIGATINMDGTALYEAVAAIFIAQVRFVIPI 119
+P+G T + EA + + +IP+
Sbjct: 144 VPVGGTYTIG---PKEAKEVADLLNAKVIIPM 172
>2wjn_M Reaction center protein M chain; bacteriochlorophyll,
lipidic-sponge phase, photosynthesis, R center, electron
transport, cell membrane; HET: HEM FME BCB BPB MPG MQ7
NS5; 1.86A {Rhodopseudomonas viridis} PDB: 2wjm_M*
2x5u_M* 2x5v_M* 4ac5_M* 3t6e_M* 1prc_M* 1r2c_M* 1vrn_M*
1dxr_M* 2jbl_M* 2prc_M* 3d38_M* 3prc_M* 2i5n_M* 5prc_M*
6prc_M* 7prc_M* 3g7f_M* 3t6d_M*
Length = 324
Score = 27.0 bits (59), Expect = 1.7
Identities = 8/43 (18%), Positives = 19/43 (44%)
Query: 23 LIHGFILLPAMYTFFVREWPFRFTANMGQAIATAFGTASRLFI 65
L+ G + ++ ++++R + +G IA F A +
Sbjct: 115 LMAGLFMTLSLGSWWIRVYSRARALGLGTHIAWNFAAAIFFVL 157
>2rdm_A Response regulator receiver protein; structural genomics, unknown
function, PSI-2, protein struct initiative; HET: MSE;
1.76A {Sinorhizobium medicae}
Length = 132
Score = 26.4 bits (59), Expect = 1.8
Identities = 8/43 (18%), Positives = 14/43 (32%), Gaps = 4/43 (9%)
Query: 66 GYNAMQCLEENNKIDPRISRFVMPIGATINMDGTALYEAVAAI 108
G A++ L+ ID ++ DG + I
Sbjct: 38 GAKAIEMLKSGAAIDGVVTDIRFCQP----PDGWQVARVAREI 76
>3kl7_A Putative metal-dependent hydrolase; structural genomics, JOI for
structural genomics, JCSG; 2.30A {Parabacteroides
distasonis atcc 8503}
Length = 235
Score = 26.5 bits (59), Expect = 2.2
Identities = 5/32 (15%), Positives = 11/32 (34%), Gaps = 3/32 (9%)
Query: 88 MPIGATINMDGTALYEAVAAIFIAQVRFVIPI 119
+P+ M +A A + + + P
Sbjct: 180 LPVNQPYTMTV---SQAAKAARMFSPKILYPY 208
>1eys_L Photosynthetic reaction center; membrane protein complex, electron
transport; HET: BGL BCL BPH MQ8 HEM CRT LDA PEF; 2.20A
{Thermochromatium tepidum} SCOP: f.26.1.1
Length = 280
Score = 26.6 bits (58), Expect = 2.2
Identities = 8/43 (18%), Positives = 15/43 (34%)
Query: 23 LIHGFILLPAMYTFFVREWPFRFTANMGQAIATAFGTASRLFI 65
I A ++ +RE +G + AF A ++
Sbjct: 95 QIITICAAGAFISWALREVEICRKLGIGFHVPFAFSFAIGAYL 137
>2wxf_A Phosphatidylinositol-4,5-bisphosphate 3-kinase Ca subunit delta
isoform; transferase, phosphoprotein, isoform-specific
inhibitors; HET: 039; 1.90A {Mus musculus} PDB: 2wxg_A*
2wxh_A* 2wxi_A* 2wxj_A* 2wxk_A* 2wxl_A* 2wxm_A* 2wxn_A*
2wxo_A* 2wxp_A* 2wxq_A* 2wxr_A 2x38_A*
Length = 940
Score = 26.7 bits (58), Expect = 2.5
Identities = 11/49 (22%), Positives = 13/49 (26%), Gaps = 5/49 (10%)
Query: 21 GLLIH---GFIL--LPAMYTFFVREWPFRFTANMGQAIATAFGTASRLF 64
G L H G L + PF T + I S F
Sbjct: 801 GQLFHIDFGHFLGNFKTKFGINRERVPFILTYDFVHVIQQGKTNNSEKF 849
>3mep_A Uncharacterized protein ECA2234; all beta protein, structural
genomics, PSI-2, protein structure initiative; 2.30A
{Pectobacterium atrosepticum}
Length = 198
Score = 25.4 bits (55), Expect = 4.4
Identities = 6/36 (16%), Positives = 10/36 (27%)
Query: 80 DPRISRFVMPIGATINMDGTALYEAVAAIFIAQVRF 115
D + + G + + F QVR
Sbjct: 25 DANTDFWENTYYDFSHYTGHVYGKETESDFTFQVRV 60
>1rzh_L Reaction center protein L chain; bacterial photosynthesis, proton
TR pathway, revertant, integral membrane protein,
photosynthes; HET: BCL BPH U10 HTO SPO LDA CDL; 1.80A
{Rhodobacter sphaeroides} SCOP: f.26.1.1 PDB: 1rvj_L*
1ry5_L* 1rzz_L* 1s00_L* 2j8c_L* 1aig_L* 1ds8_L* 1dv3_L*
1dv6_L* 1e14_L* 1e6d_L* 1jgw_L* 1jgx_L* 1jgy_L* 1jgz_L*
1k6l_L* 1kby_L* 1l9b_L* 1l9j_L* 1m3x_L* ...
Length = 281
Score = 25.4 bits (55), Expect = 4.8
Identities = 9/43 (20%), Positives = 15/43 (34%)
Query: 23 LIHGFILLPAMYTFFVREWPFRFTANMGQAIATAFGTASRLFI 65
I A ++ +RE +G I AF A ++
Sbjct: 87 QIITICATGAFVSWALREVEICRKLGIGYHIPFAFAFAILAYL 129
>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 = 25.6 bits (55), Expect = 5.7
Identities = 8/36 (22%), Positives = 16/36 (44%), Gaps = 10/36 (27%)
Query: 3 SLSDTVGQLGLY--FITV-------LLGLLIHGFIL 29
S+ +T+ QL Y +I L+ ++ F+
Sbjct: 519 SILNTLQQLKFYKPYICDNDPKYERLVNAILD-FLP 553
>2kij_A Copper-transporting ATPase 1; actuator, menkes disease, alternative
splicing, ATP-binding, cell membrane, cytoplasm, disease
mutation; NMR {Homo sapiens}
Length = 124
Score = 24.8 bits (55), Expect = 6.5
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 90 IGATINMDGTALYEA 104
I +IN +G+ L A
Sbjct: 90 IAGSINQNGSLLICA 104
>3o12_A Uncharacterized protein YJL217W; structural genomics, PSI-2,
protein structure initiative, MI center for structural
genomics, MCSG; 1.50A {Saccharomyces cerevisiae}
Length = 221
Score = 25.0 bits (54), Expect = 7.7
Identities = 8/36 (22%), Positives = 11/36 (30%)
Query: 80 DPRISRFVMPIGATINMDGTALYEAVAAIFIAQVRF 115
D + + G L + F AQVR
Sbjct: 54 DEKTDFWRETFYGFTRDSGHFLGVETGSAFTAQVRV 89
>2f7f_A Nicotinate phosphoribosyltransferase, putative; structural
genomics, PSI; 2.00A {Enterococcus faecalis} SCOP:
c.1.17.1 d.41.2.1
Length = 494
Score = 25.1 bits (55), Expect = 8.3
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 13 LYFITVLLGLLIHGFILLPAMYTFFVREWPF 43
+Y I ++ G L A++ + RE PF
Sbjct: 16 MYQINMMQTYWELGRADLHAVFECYFREMPF 46
>1e7u_A Phosphatidylinositol 3-kinase catalytic subunit; phosphoinositide
3-kinase gamma, secondary messenger generation, PI3K, PI
3K, wortmannin; HET: KWT; 2.0A {Sus scrofa} SCOP:
a.118.1.6 b.7.1.1 d.15.1.5 d.144.1.4 PDB: 1e8x_A*
1e8w_A* 1e7v_A* 1e90_A* 3l54_A* 3s2a_A* 3qaq_A* 3qjz_A*
3qk0_A* 3qar_A* 3apc_A* 3apd_A* 3apf_A* 3dbs_A* 3l13_A*
3r7q_A* 3cst_A* 3csf_A* 3l16_A* 3l17_A* ...
Length = 961
Score = 25.2 bits (54), Expect = 8.5
Identities = 12/49 (24%), Positives = 16/49 (32%), Gaps = 5/49 (10%)
Query: 21 GLLIH---GFIL--LPAMYTFFVREWPFRFTANMGQAIATAFGTASRLF 64
G L H G IL + PF T + + T+ S F
Sbjct: 817 GNLFHIDFGHILGNYKSFLGINKERVPFVLTPDFLFVMGTSGKKTSLHF 865
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
0.331 0.144 0.431
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,858,986
Number of extensions: 103333
Number of successful extensions: 257
Number of sequences better than 10.0: 1
Number of HSP's gapped: 255
Number of HSP's successfully gapped: 20
Length of query: 120
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 38
Effective length of database: 4,412,271
Effective search space: 167666298
Effective search space used: 167666298
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 51 (23.3 bits)