RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2592
(217 letters)
>3dwl_A Actin-related protein 3; propellor, actin-binding, ATP-binding,
cytoskeleton, nucleot binding, WD repeat; HET: ATP;
3.78A {Schizosaccharomyces pombe}
Length = 427
Score = 87.2 bits (216), Expect = 3e-20
Identities = 42/70 (60%), Positives = 52/70 (74%)
Query: 16 VGYERFLGPEIFFHPEYPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNT 75
+G + + +YP+RHG +E+WD MERF++Q +FKYLR EPEDHYFLLTEPPLN
Sbjct: 76 IGNDALKKASAGYSLDYPIRHGQIENWDHMERFWQQSLFKYLRCEPEDHYFLLTEPPLNP 135
Query: 76 PENREYTAGI 85
PENRE TA I
Sbjct: 136 PENRENTAEI 145
Score = 49.0 bits (117), Expect = 3e-07
Identities = 20/74 (27%), Positives = 30/74 (40%), Gaps = 14/74 (18%)
Query: 152 YTKLGFAANKEPQFIIPSAIAIKETAKIGDQAIR--------------RLTKGVEDLDFF 197
Y+KLG+A N P ++ P+ IA + A+ + EDLDFF
Sbjct: 16 YSKLGYAGNDAPSYVFPTVIATRSAGASSGPAVSSKPSYMASKGSGHLSSKRATEDLDFF 75
Query: 198 IGDEAFDAKGYSVK 211
IG++A
Sbjct: 76 IGNDALKKASAGYS 89
Score = 46.0 bits (109), Expect = 4e-06
Identities = 16/29 (55%), Positives = 19/29 (65%)
Query: 3 GVNQITKQPFAVDVGYERFLGPEIFFHPE 31
IT +DVG+ERFL PEIFF+PE
Sbjct: 269 ASESITGHSTTIDVGFERFLAPEIFFNPE 297
>1k8k_A ARP3, actin-like protein 3, actin-2; beta-propeller, structural
protein; 2.00A {Bos taurus} SCOP: c.55.1.1 c.55.1.1 PDB:
1tyq_A* 1u2v_A* 2p9i_A* 2p9k_A* 2p9l_A 2p9n_A* 2p9p_A*
2p9s_A* 2p9u_A* 3dxk_A* 3dxm_A* 3rse_A
Length = 418
Score = 86.7 bits (215), Expect = 3e-20
Identities = 48/54 (88%), Positives = 51/54 (94%)
Query: 32 YPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTAGI 85
+P+RHG+VEDWDLMERF EQ IFKYLRAEPEDHYFLLTEPPLNTPENREYTA I
Sbjct: 76 WPIRHGIVEDWDLMERFMEQVIFKYLRAEPEDHYFLLTEPPLNTPENREYTAEI 129
Score = 70.9 bits (174), Expect = 1e-14
Identities = 43/60 (71%), Positives = 50/60 (83%)
Query: 152 YTKLGFAANKEPQFIIPSAIAIKETAKIGDQAIRRLTKGVEDLDFFIGDEAFDAKGYSVK 211
YTKLG+A N EPQFIIPS IAIKE+AK+GDQA RR+ KGV+DLDFFIGDEA + Y+ K
Sbjct: 16 YTKLGYAGNTEPQFIIPSCIAIKESAKVGDQAQRRVMKGVDDLDFFIGDEAIEKPTYATK 75
Score = 43.1 bits (102), Expect = 2e-05
Identities = 23/31 (74%), Positives = 28/31 (90%)
Query: 1 YDGVNQITKQPFAVDVGYERFLGPEIFFHPE 31
Y G+N I+K+ F++DVGYERFLGPEIFFHPE
Sbjct: 256 YTGINAISKKEFSIDVGYERFLGPEIFFHPE 286
>2fxu_A Alpha-actin-1, actin, alpha skeletal muscle; actin complexed to
bistramide A, structural protein; HET: HIC ATP BID;
1.35A {Oryctolagus cuniculus} SCOP: c.55.1.1 c.55.1.1
PDB: 1h1v_A* 1kxp_A* 1lot_B* 1m8q_7* 1ma9_B* 1mvw_1*
1nwk_A* 1o18_1* 1o19_1* 1o1a_1* 1o1b_0* 1o1c_0* 1o1d_0*
1o1e_1* 1o1f_0* 1o1g_1* 1j6z_A* 1qz6_A* 1rdw_X* 1rfq_A*
...
Length = 375
Score = 81.3 bits (201), Expect = 2e-18
Identities = 26/72 (36%), Positives = 37/72 (51%), Gaps = 5/72 (6%)
Query: 19 ERFLGPEIFFHPE-----YPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPL 73
+ ++G E YP+ HG++ +WD ME+ + + LR PE+H LLTE PL
Sbjct: 51 DSYVGDEAQSKRGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPL 110
Query: 74 NTPENREYTAGI 85
N NRE I
Sbjct: 111 NPKANREKMTQI 122
Score = 40.1 bits (94), Expect = 3e-04
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 8/57 (14%)
Query: 152 YTKLGFAANKEPQFIIPSAIAIKETAKIGDQAIRRLTKGVEDLDFFIGDEAFDAKGY 208
K GFA + P+ + PS +G + + G+ D ++GDEA +G
Sbjct: 16 LVKAGFAGDDAPRAVFPSI--------VGRPRHQGVMVGMGQKDSYVGDEAQSKRGI 64
Score = 35.1 bits (81), Expect = 0.011
Identities = 8/28 (28%), Positives = 11/28 (39%)
Query: 4 VNQITKQPFAVDVGYERFLGPEIFFHPE 31
+ + +G ERF PE F P
Sbjct: 238 KSYELPDGQVITIGNERFRCPETLFQPS 265
>1k8k_B ARP2, actin-like protein 2; beta-propeller, structural protein;
2.00A {Bos taurus} SCOP: c.55.1.1 PDB: 1tyq_B* 1u2v_B*
2p9i_B* 2p9l_B 2p9n_B* 2p9p_B* 2p9s_B* 2p9u_B* 3dxk_B*
3dxm_B* 3rse_B 2p9k_B*
Length = 394
Score = 73.6 bits (181), Expect = 1e-15
Identities = 22/90 (24%), Positives = 38/90 (42%), Gaps = 7/90 (7%)
Query: 3 GVNQITKQPFAVDVGY-ERFLGPEIFFHPE-----YPVRHGLVEDWDLMERFFEQCIFK- 55
G I ++ + +G E YP+ +G+V +WD M+ ++
Sbjct: 37 GRPIIRSTTKVGNIEIKDLMVGDEASELRSMLEVNYPMENGIVRNWDDMKHLWDYTFGPE 96
Query: 56 YLRAEPEDHYFLLTEPPLNTPENREYTAGI 85
L + + LLTEPP+N +NRE +
Sbjct: 97 KLNIDTRNCKILLTEPPMNPTKNREKIVEV 126
Score = 45.5 bits (108), Expect = 5e-06
Identities = 12/57 (21%), Positives = 22/57 (38%), Gaps = 6/57 (10%)
Query: 152 YTKLGFAANKEPQFIIPSAIAIKETAKIGDQAIRRLTKGVEDLDFFIGDEAFDAKGY 208
+ K G+A + P+ I P+ + +E D +GDEA + +
Sbjct: 17 FVKCGYAGSNFPEHIFPALVGRPIIRSTT------KVGNIEIKDLMVGDEASELRSM 67
Score = 35.9 bits (83), Expect = 0.006
Identities = 9/18 (50%), Positives = 10/18 (55%)
Query: 14 VDVGYERFLGPEIFFHPE 31
+ VG ERF PE F P
Sbjct: 252 IKVGGERFEAPEALFQPH 269
>3qb0_A Actin-related protein 4; actin fold, ATP binding, nucleus,
structural protein; HET: ATP; 3.40A {Saccharomyces
cerevisiae}
Length = 498
Score = 66.9 bits (163), Expect = 3e-13
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 32 YPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHY-FLLTEPPLNTPENREYTAGI 85
+ +GLV DWD + ++ + L LLTEP N+ ENR+ + +
Sbjct: 82 PIIENGLVIDWDTAQEQWQWALQNELYLNSNSGIPALLTEPVWNSTENRKKSLEV 136
Score = 42.3 bits (99), Expect = 7e-05
Identities = 9/56 (16%), Positives = 17/56 (30%), Gaps = 13/56 (23%)
Query: 152 YTKLGFAANKEPQFIIPSAIAIKETAKIGDQAIRRLTKGVEDLDFFIGDEAFDAKG 207
T +G++ + PQ I+PS + T + F +
Sbjct: 34 TTNIGYSGSDFPQSILPSVYG-------------KYTADEGNKKIFSEQSIGIPRK 76
Score = 37.3 bits (86), Expect = 0.002
Identities = 8/73 (10%), Positives = 16/73 (21%)
Query: 14 VDVGYERFLGPEIFFHPEYPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPL 73
V R+ E F P+ + + + L+ +
Sbjct: 288 VFDNETRYGFAEELFLPKEDDIPANWPRSNSGVVKTWRNDYVPLKRTKPSGVNKSDKKVT 347
Query: 74 NTPENREYTAGIY 86
T E +
Sbjct: 348 PTEEKEQEAVSKS 360
Score = 31.1 bits (70), Expect = 0.27
Identities = 4/20 (20%), Positives = 4/20 (20%)
Query: 14 VDVGYERFLGPEIFFHPEYP 33
D E P P
Sbjct: 368 ADTPNETGKRPLEEEKPPKE 387
>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 = 32.3 bits (73), Expect = 0.13
Identities = 24/109 (22%), Positives = 34/109 (31%), Gaps = 34/109 (31%)
Query: 66 FLLTEPP--LNTPENREYTAGIYLRVLTEGTITAKVLSSRNQREKEDRIGKSQPFRERTL 123
+++ PP L Y + LR AK S +Q RI PF ER L
Sbjct: 377 LVVSGPPQSL-------YGLNLTLR-------KAKAPSGLDQS----RI----PFSERKL 414
Query: 124 SVQE-----SNPRPSAYKADALPTNLTRLAYRRYTKLGFAAN--KEPQF 165
++P S A L + F A + P +
Sbjct: 415 KFSNRFLPVASPFHSHLLVPASDLINKDLVKN---NVSFNAKDIQIPVY 460
Score = 31.6 bits (71), Expect = 0.21
Identities = 29/203 (14%), Positives = 57/203 (28%), Gaps = 68/203 (33%)
Query: 42 WDLMERFFEQC----IFKYLRAEPEDHYFLLTEPPLNTPENRE-YTAGIYLRVLTEGTIT 96
W+ + F+ I + P + RE Y+A I+ ++ T
Sbjct: 1646 WNRADNHFKDTYGFSILDIVINNPVNLTIHFGGE--KGKRIRENYSAMIFETIVDGKLKT 1703
Query: 97 AKVLSSRNQREK-------EDRIGK---SQP------------FRERTLSVQESNPRPSA 134
K+ N+ + + +QP + + L P +
Sbjct: 1704 EKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLI-----PADAT 1758
Query: 135 --------Y-----KADALPT-NLTRLAYRRYTKLG-FAANKEPQF-----------IIP 168
Y AD + +L + + R G P+ I P
Sbjct: 1759 FAGHSLGEYAALASLADVMSIESLVEVVFYR----GMTMQVAVPRDELGRSNYGMIAINP 1814
Query: 169 SAIAIKETAKIGDQAIRRLTKGV 191
+A A +A++ + + V
Sbjct: 1815 GRVA----ASFSQEALQYVVERV 1833
>3tgo_C Lipoprotein 34; TPR repeat, helix-GRIP fold, outer MEMB protein
assembly, outer membrane, membrane protein; 2.90A
{Escherichia coli} PDB: 2lae_A 2laf_A
Length = 323
Score = 29.9 bits (66), Expect = 0.56
Identities = 18/174 (10%), Positives = 40/174 (22%), Gaps = 11/174 (6%)
Query: 40 EDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTAGIYLRVLTEGTITAKV 99
W + + + + + N + E G Y + V
Sbjct: 94 TLWPQVVSVLQAKNYTITQRDDAGQTLTTDWVQWNRLDEDEQYRGRYQISVKPQGYQQAV 153
Query: 100 LSSRNQREKEDRIGKSQPFRER--TLSVQESNPRPSAYKADALPTNLTRLAYRRYTKLGF 157
E+ + +R T + + DA R + +
Sbjct: 154 TVKLLNLEQAGKPVADAASMQRYSTEMMNVISAGLDKSATDAANAAQNRASTTMDVQSAA 213
Query: 158 AANKEPQFIIPSAIAIKETAKIGDQAIRRLTKGVEDLDFFIGDEAFDAKGYSVK 211
P ++ + +RL +E + + D +V
Sbjct: 214 DDTGLPMLVVRGPF---------NVVWQRLPAALEKVGMKVTDSTRSQGNMAVT 258
>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 = 28.8 bits (63), Expect = 0.96
Identities = 9/23 (39%), Positives = 12/23 (52%), Gaps = 7/23 (30%)
Query: 154 KLGFAANKEPQFIIPSAIAIKET 176
KL +A + P A+AIK T
Sbjct: 30 KL-YADDSAP------ALAIKAT 45
>1w66_A Lipoyltransferase; lipoate-protein ligase B, lipoic acid,
acyltransferase, mycobacterium tuberculosis structural
proteomics project; HET: DKA; 1.08A {Mycobacterium
tuberculosis} SCOP: d.104.1.3
Length = 232
Score = 28.0 bits (63), Expect = 2.1
Identities = 13/54 (24%), Positives = 16/54 (29%), Gaps = 15/54 (27%)
Query: 34 VRHGLV---EDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTAG 84
+ G V W L + A D LL P + YTAG
Sbjct: 17 RQLGTVDYRTAWQLQRELADA-----RVAGGADTLLLLEHPAV-------YTAG 58
>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 = 26.4 bits (58), Expect = 2.7
Identities = 9/41 (21%), Positives = 18/41 (43%), Gaps = 7/41 (17%)
Query: 35 RHGLVEDWDLMERFF-----EQCIFKYLRAEPEDHYFLLTE 70
+ +DW+ + ++CI +LR ED Y ++
Sbjct: 35 MYK--DDWNKVSEHVGSRTQDECILHFLRLPIEDPYLENSD 73
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 27.6 bits (61), Expect = 3.4
Identities = 5/43 (11%), Positives = 10/43 (23%), Gaps = 8/43 (18%)
Query: 37 GLVEDWDL--------MERFFEQCIFKYLRAEPEDHYFLLTEP 71
+ + E Q F + P++ P
Sbjct: 253 CAIAGEGVDINDGKAIAEGLLSQFGFTNFKFIPDEKKSKYYTP 295
>2wdt_A Ubiquitin carboxyl-terminal hydrolase L3; hydrolase-protein binding
complex, enzyme-ligand complex, UB isopeptidase, UCH-L
superfamily, cystein proteinase, peptid hydrolase; 2.30A
{Plasmodium falciparum} PDB: 2we6_A
Length = 232
Score = 27.0 bits (59), Expect = 4.1
Identities = 5/36 (13%), Positives = 13/36 (36%)
Query: 31 EYPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYF 66
++P H + + + K++ +D F
Sbjct: 183 DHPTVHCFTNGDNFLYDTGKIIQDKFIEKCKDDLRF 218
>3j09_A COPA, copper-exporting P-type ATPase A; copper transporter,
adenosine triphosph archaeal proteins, cation transport
proteins; 10.00A {Archaeoglobus fulgidus}
Length = 723
Score = 27.5 bits (62), Expect = 4.3
Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 137 ADALPTNLTRLAYRRYTKLGFAANKEPQFIIPSAIAIKETAKIGDQAIRRL 187
++ + L +L T + A N + II + +KE+AK A++ L
Sbjct: 500 SNEVELALEKLEREAKTAVIVARNGRVEGIIAVSDTLKESAK---PAVQEL 547
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 27.3 bits (60), Expect = 4.3
Identities = 5/43 (11%), Positives = 10/43 (23%), Gaps = 8/43 (18%)
Query: 37 GLVEDWDL--------MERFFEQCIFKYLRAEPEDHYFLLTEP 71
+ + E Q F + P++ P
Sbjct: 253 CAIAGEGVDINDGKAIAEGLLSQFGFTNFKFIPDEKKSKYYTP 295
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 665
Score = 27.3 bits (60), Expect = 5.2
Identities = 5/43 (11%), Positives = 10/43 (23%), Gaps = 8/43 (18%)
Query: 37 GLVEDWDL--------MERFFEQCIFKYLRAEPEDHYFLLTEP 71
+ + E Q F + P++ P
Sbjct: 253 CAIAGEGVDINDGKAIAEGLLSQFGFTNFKFIPDEKKSKYYTP 295
>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 648
Score = 26.9 bits (59), Expect = 7.3
Identities = 5/43 (11%), Positives = 10/43 (23%), Gaps = 8/43 (18%)
Query: 37 GLVEDWDL--------MERFFEQCIFKYLRAEPEDHYFLLTEP 71
+ + E Q F + P++ P
Sbjct: 253 CAIAGEGVDINDGKAIAEGLLSQFGFTNFKFIPDEKKSKYYTP 295
>3f8k_A Protein acetyltransferase; GCN5-related N-acetyltransferase; HET:
COA; 1.84A {Sulfolobus solfataricus P2}
Length = 160
Score = 26.1 bits (58), Expect = 7.7
Identities = 9/44 (20%), Positives = 14/44 (31%), Gaps = 7/44 (15%)
Query: 34 VRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPE 77
+R EDW+ + + + ED Y T E
Sbjct: 7 IRKATKEDWEKIYQLYNSLS-------DEDLYLRFFHLYRITEE 43
>3j08_A COPA, copper-exporting P-type ATPase A; copper transporter,
adenosine triphosph archaeal proteins, cation transport
proteins; 10.00A {Archaeoglobus fulgidus}
Length = 645
Score = 26.3 bits (59), Expect = 8.3
Identities = 14/57 (24%), Positives = 28/57 (49%), Gaps = 4/57 (7%)
Query: 137 ADALPTNLTRLAYRRYTKLGFAANKEPQFIIPSAIAIKETAKIGDQAIRRLTK-GVE 192
++ + L +L T + A N + II + +KE+AK A++ L + G++
Sbjct: 422 SNEVELALEKLEREAKTAVIVARNGRVEGIIAVSDTLKESAK---PAVQELKRMGIK 475
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
0.319 0.138 0.405
Gapped
Lambda K H
0.267 0.0438 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,389,983
Number of extensions: 200833
Number of successful extensions: 433
Number of sequences better than 10.0: 1
Number of HSP's gapped: 426
Number of HSP's successfully gapped: 36
Length of query: 217
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 127
Effective length of database: 4,188,903
Effective search space: 531990681
Effective search space used: 531990681
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 (21.8 bits)
S2: 55 (25.7 bits)