RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2593
(139 letters)
>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 = 87.4 bits (217), Expect = 2e-21
Identities = 48/53 (90%), Positives = 51/53 (96%)
Query: 42 YPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTAE 94
+P+RHG+VEDWDLMERF EQ IFKYLRAEPEDHYFLLTEPPLNTPENREYTAE
Sbjct: 76 WPIRHGIVEDWDLMERFMEQVIFKYLRAEPEDHYFLLTEPPLNTPENREYTAE 128
Score = 55.9 bits (135), Expect = 3e-10
Identities = 33/46 (71%), Positives = 41/46 (89%)
Query: 94 EREIGIPPEQSLETAKAIKERYSYICPDIAKEFAKYDADPGKWMRK 139
+RE+GIPPEQSLETAKA+KERYSY+CPD+ KEF KYD D KW+++
Sbjct: 210 DREVGIPPEQSLETAKAVKERYSYVCPDLVKEFNKYDTDGSKWIKQ 255
>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 = 84.1 bits (208), Expect = 3e-20
Identities = 41/53 (77%), Positives = 47/53 (88%)
Query: 42 YPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTAE 94
YP+RHG +E+WD MERF++Q +FKYLR EPEDHYFLLTEPPLN PENRE TAE
Sbjct: 92 YPIRHGQIENWDHMERFWQQSLFKYLRCEPEDHYFLLTEPPLNPPENRENTAE 144
Score = 49.8 bits (119), Expect = 4e-08
Identities = 18/39 (46%), Positives = 30/39 (76%)
Query: 101 PEQSLETAKAIKERYSYICPDIAKEFAKYDADPGKWMRK 139
P+ SL+TA+ IKE Y+CPDI KEF+++D +P ++++
Sbjct: 230 PDSSLKTAERIKEECCYVCPDIVKEFSRFDREPDRYLKY 268
>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 = 80.1 bits (198), Expect = 6e-19
Identities = 23/53 (43%), Positives = 32/53 (60%)
Query: 42 YPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTAE 94
YP+ HG++ +WD ME+ + + LR PE+H LLTE PLN NRE +
Sbjct: 69 YPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPLNPKANREKMTQ 121
Score = 45.1 bits (107), Expect = 1e-06
Identities = 10/40 (25%), Positives = 14/40 (35%)
Query: 94 EREIGIPPEQSLETAKAIKERYSYICPDIAKEFAKYDADP 133
ER E + IKE+ Y+ D E A +
Sbjct: 195 ERGYSFVTTAEREIVRDIKEKLCYVALDFENEMATAASSS 234
>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 = 73.2 bits (180), Expect = 2e-16
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 42 YPVRHGLVEDWDLMERFFEQCIFK-YLRAEPEDHYFLLTEPPLNTPENREYTAE 94
YP+ +G+V +WD M+ ++ L + + LLTEPP+N +NRE E
Sbjct: 72 YPMENGIVRNWDDMKHLWDYTFGPEKLNIDTRNCKILLTEPPMNPTKNREKIVE 125
Score = 40.5 bits (95), Expect = 5e-05
Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 1/46 (2%)
Query: 94 EREIGIPPEQSLETAKAIKERYSYICPDIAKEFAKYDADPGKWMRK 139
R ET + IKE+ Y+ +I +E K + +
Sbjct: 199 LRGYAFNHSADFETVRMIKEKLCYVGYNIEQEQ-KLALETTVLVES 243
>3qb0_A Actin-related protein 4; actin fold, ATP binding, nucleus,
structural protein; HET: ATP; 3.40A {Saccharomyces
cerevisiae}
Length = 498
Score = 66.6 bits (162), Expect = 6e-14
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 42 YPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHY-FLLTEPPLNTPENREYTAE 94
+ +GLV DWD + ++ + L LLTEP N+ ENR+ + E
Sbjct: 82 PIIENGLVIDWDTAQEQWQWALQNELYLNSNSGIPALLTEPVWNSTENRKKSLE 135
Score = 34.2 bits (78), Expect = 0.008
Identities = 12/92 (13%), Positives = 24/92 (26%), Gaps = 1/92 (1%)
Query: 42 YPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTAEREIGIPP 101
+ + +F I K L + F + + + +
Sbjct: 183 MTLSKSTRR-NFIAGKFINHLIKKALEPKEIIPLFAIKQRKPEFIKKTFDYEVDKSLYDY 241
Query: 102 EQSLETAKAIKERYSYICPDIAKEFAKYDADP 133
+ + KE +ICP E K +
Sbjct: 242 ANNRGFFQECKETLCHICPTKTLEETKTELSS 273
>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 = 31.0 bits (69), Expect = 0.12
Identities = 13/73 (17%), Positives = 20/73 (27%), Gaps = 11/73 (15%)
Query: 5 LITNKNSSAHRRENIDR----DCSGQWRWCHPCHSSGCFYFYPVRH----GLVEDWDLME 56
+ +N A R +D P + FY + H E L
Sbjct: 436 KVKLENEYALHRSIVDHYNIPKTFDSDD-LIPPYLDQYFYSHIGHHLKNIEHPERMTLFR 494
Query: 57 RFFEQCIFKYLRA 69
F F++L
Sbjct: 495 MVFLD--FRFLEQ 505
>3f8d_A Thioredoxin reductase (TRXB-3); redox protein, nucleotide binding,
FAD, flavoprotein, oxidoreductase; HET: FAD; 1.40A
{Sulfolobus solfataricus} PDB: 3f8p_A* 3f8r_A*
Length = 323
Score = 28.6 bits (65), Expect = 0.54
Identities = 12/71 (16%), Positives = 24/71 (33%), Gaps = 23/71 (32%)
Query: 53 DLMERFFEQCI-----FKY---LRAEPEDHYFLLTEPPLNTPENREYTAE---------- 94
D+++ F + + E F++ T E+ A+
Sbjct: 71 DMIKVFNKHIEKYEVPVLLDIVEKIENRGDEFVVK-----TKRKGEFKADSVILGIGVKR 125
Query: 95 REIGIPPEQSL 105
R++G+P EQ
Sbjct: 126 RKLGVPGEQEF 136
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 28.7 bits (64), Expect = 0.79
Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 16/74 (21%)
Query: 48 LVEDWDLMERFFEQCIFKYL--RAEPE--DHYFLLTEPPLNTPENREYTAEREI---GIP 100
V+D D+ ++ + EPE + Y PE +E E + P
Sbjct: 884 PVDDKDVKAKYETSILEHSGIRLIEPELFNGY---------NPEKKEMIQEVIVEEDLEP 934
Query: 101 PEQSLETAKAIKER 114
E S ETA+ K +
Sbjct: 935 FEASKETAEQFKHQ 948
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 27.6 bits (61), Expect = 1.4
Identities = 5/43 (11%), Positives = 10/43 (23%), Gaps = 8/43 (18%)
Query: 47 GLVEDWDL--------MERFFEQCIFKYLRAEPEDHYFLLTEP 81
+ + 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 = 27.3 bits (61), Expect = 1.4
Identities = 9/44 (20%), Positives = 14/44 (31%), Gaps = 7/44 (15%)
Query: 44 VRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPE 87
+R EDW+ + + + ED Y T E
Sbjct: 7 IRKATKEDWEKIYQLYNSLS-------DEDLYLRFFHLYRITEE 43
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 27.6 bits (61), Expect = 1.7
Identities = 5/43 (11%), Positives = 10/43 (23%), Gaps = 8/43 (18%)
Query: 47 GLVEDWDL--------MERFFEQCIFKYLRAEPEDHYFLLTEP 81
+ + 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 = 2.0
Identities = 5/43 (11%), Positives = 10/43 (23%), Gaps = 8/43 (18%)
Query: 47 GLVEDWDL--------MERFFEQCIFKYLRAEPEDHYFLLTEP 81
+ + E Q F + P++ P
Sbjct: 253 CAIAGEGVDINDGKAIAEGLLSQFGFTNFKFIPDEKKSKYYTP 295
>1xm7_A Hypothetical protein AQ_1665; structural genomics, protein
structure initi midwest center for structural genomics,
PSI, MCSG, unknown; 2.40A {Aquifex aeolicus} SCOP:
d.159.1.8
Length = 195
Score = 26.6 bits (58), Expect = 2.4
Identities = 17/102 (16%), Positives = 34/102 (33%), Gaps = 5/102 (4%)
Query: 1 MNNALITNKNSSAHRRENIDRDCSGQWRWCHPCHSSGCFYFYPVRHGLV-----EDWDLM 55
++TN + + W + + P R LV +D + +
Sbjct: 29 FEIVILTNLLKVLKPEDTLYHLGDFTWHFNDKNEYLRIWKALPGRKILVMGNHDKDKESL 88
Query: 56 ERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTAEREI 97
+ +F++ Y E + LL+ P P Y +E+
Sbjct: 89 KEYFDEIYDFYKIIEHKGKRILLSHYPAKDPITERYPDRQEM 130
>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 = 26.6 bits (58), Expect = 2.5
Identities = 13/82 (15%), Positives = 23/82 (28%), Gaps = 7/82 (8%)
Query: 2 NNALITNK-NSSAHRRENIDRDCSGQWRWCHPCHSSGCFY------FYPVRHGLVEDWDL 54
NN I N + + EN D + G +P H +
Sbjct: 137 NNKSIENLHHEFCGQVENRDDILDVDTHFIVFVQIEGKIIELDGRKDHPTVHCFTNGDNF 196
Query: 55 MERFFEQCIFKYLRAEPEDHYF 76
+ + K++ +D F
Sbjct: 197 LYDTGKIIQDKFIEKCKDDLRF 218
>2q0l_A TRXR, thioredoxin reductase; bacterial thiredoxin reductase, NADP+
B reduced izoalloxazine bending, oxidoreductase; HET:
FAD NAP; 1.45A {Helicobacter pylori} PDB: 2q0k_A*
3ish_A*
Length = 311
Score = 26.7 bits (60), Expect = 2.6
Identities = 12/71 (16%), Positives = 24/71 (33%), Gaps = 23/71 (32%)
Query: 53 DLMERFFEQC-------IFKYL-RAEPEDHYFLLTEPPLNTPENREYTAE---------- 94
D M+ + EQC + R +D +F++ + + + A+
Sbjct: 60 DFMQPWQEQCFRFGLKHEMTAVQRVSKKDSHFVIL-----AEDGKTFEAKSVIIATGGSP 114
Query: 95 REIGIPPEQSL 105
+ GI E
Sbjct: 115 KRTGIKGESEY 125
>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 648
Score = 26.9 bits (59), Expect = 2.8
Identities = 5/43 (11%), Positives = 10/43 (23%), Gaps = 8/43 (18%)
Query: 47 GLVEDWDL--------MERFFEQCIFKYLRAEPEDHYFLLTEP 81
+ + E Q F + P++ P
Sbjct: 253 CAIAGEGVDINDGKAIAEGLLSQFGFTNFKFIPDEKKSKYYTP 295
>1qe5_A Pentosyltransferase; enzyme, purine nucleoside phosphorylase; 2.20A
{Cellulomonas SP} SCOP: c.56.2.1 PDB: 1c3x_A
Length = 266
Score = 26.4 bits (59), Expect = 3.3
Identities = 8/43 (18%), Positives = 13/43 (30%), Gaps = 10/43 (23%)
Query: 81 PPLNTPENREYTAEREIGIPPEQSLETAKAIKERYSYICPDIA 123
PPL+ P + + A I + D+A
Sbjct: 1 PPLDDPATDPF----------LVARAAADHIAQATGVEGHDMA 33
>3u5c_C Guanine nucleotide-binding protein subunit beta-L protein (ASC1,
RACK1); translation, ribosome, ribosomal, ribosomal R
ribosomal protein, eukaryotic ribosome, RNA-protein C;
3.00A {Saccharomyces cerevisiae} PDB: 3izb_E 3o30_B
3o2z_B 3u5g_C 3jyv_E* 1s1h_E
Length = 254
Score = 26.0 bits (57), Expect = 4.0
Identities = 5/19 (26%), Positives = 9/19 (47%)
Query: 107 TAKAIKERYSYICPDIAKE 125
AI Y ++ P++ E
Sbjct: 214 AFVAIGNTYGFLTPNLWAE 232
>1kor_A Argininosuccinate synthetase; ligase, riken structural
genomics/proteomics initiative, RSGI, structural
genomics; HET: ANP ARG; 1.95A {Thermus thermophilus}
SCOP: c.26.2.1 d.210.1.1 PDB: 1j1z_A* 1j21_A* 1kh1_A
1kh2_A* 1kh3_A* 1j20_A*
Length = 400
Score = 25.9 bits (58), Expect = 4.9
Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 69 AEPEDHYFLLTEPPLNTPENREY-TAEREIGIP 100
AEP F +T+ P P+ EY E G P
Sbjct: 193 AEPPKGMFRMTQDPEEAPDAPEYVEVEFFEGDP 225
>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 = 25.7 bits (57), Expect = 5.4
Identities = 12/53 (22%), Positives = 15/53 (28%), Gaps = 15/53 (28%)
Query: 44 VRHGLV---EDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTA 93
+ G V W L + A D LL P + YTA
Sbjct: 17 RQLGTVDYRTAWQLQRELADA-----RVAGGADTLLLLEHPAV-------YTA 57
>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 = 5.4
Identities = 14/69 (20%), Positives = 23/69 (33%), Gaps = 23/69 (33%)
Query: 52 WDLMERFFEQCIFKYLRAEPEDHY-FLLTEPPLNTPENREYTAEREIGIPPEQSLETAKA 110
W+ + F+ D Y F + + +N P I E+ K
Sbjct: 1646 WNRADNHFK------------DTYGFSILDIVINNPV------NLTIHFGGEKG----KR 1683
Query: 111 IKERYSYIC 119
I+E YS +
Sbjct: 1684 IRENYSAMI 1692
>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 = 24.5 bits (53), Expect = 6.4
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 5/36 (13%)
Query: 50 EDWDLMERFF-----EQCIFKYLRAEPEDHYFLLTE 80
+DW+ + ++CI +LR ED Y ++
Sbjct: 38 DDWNKVSEHVGSRTQDECILHFLRLPIEDPYLENSD 73
>1u5k_A Hypothetical protein; OBD-fold, Zn-binding,
recombination,replication; 2.00A {Deinococcus
radiodurans} SCOP: b.40.4.13 g.45.1.2 PDB: 1w3s_A 2v1c_C
Length = 244
Score = 25.6 bits (56), Expect = 7.0
Identities = 5/24 (20%), Positives = 9/24 (37%)
Query: 26 QWRWCHPCHSSGCFYFYPVRHGLV 49
Q C C + + P+ L+
Sbjct: 149 QTARCARCGAPDPEHPDPLGGQLL 172
>1vjj_A Protein-glutamine glutamyltransferase E; transglutaminase 3, X-RAY
crystallography, metalloenzyme, calcium ION; HET: GDP;
1.90A {Homo sapiens} SCOP: b.1.18.9 b.1.5.1 b.1.5.1
d.3.1.4 PDB: 1sgx_A* 1l9m_A 1l9n_A* 1nud_A 1nuf_A 1nug_A
1rle_A*
Length = 692
Score = 25.4 bits (55), Expect = 8.0
Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 7/47 (14%)
Query: 100 PPEQS-------LETAKAIKERYSYICPDIAKEFAKYDADPGKWMRK 139
P E+S + ++E + D+ FA+ +AD W+
Sbjct: 356 PQERSQGVFQCGPASVIGVREGDVQLNFDMPFIFAEVNADRITWLYD 402
>1v4v_A UDP-N-acetylglucosamine 2-epimerase; UDP-GLCNAC, two domains,
homodimer, riken structural genomics/proteomics
initiative, RSGI; HET: MSE; 1.80A {Thermus thermophilus}
SCOP: c.87.1.3
Length = 376
Score = 25.2 bits (56), Expect = 8.4
Identities = 6/17 (35%), Positives = 7/17 (41%), Gaps = 5/17 (29%)
Query: 5 LITNKNSSAHRRENIDR 21
+T HRREN
Sbjct: 202 TVT-----MHRRENWPL 213
>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 = 25.2 bits (56), Expect = 8.4
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 100 PPEQSLETAKAIKERYSYICPDIA 123
P E + A+ I +R D+A
Sbjct: 8 PDELARRAAQVIADRTGIGEHDVA 31
>1spu_A Copper amine oxidase; oxidoreductase, TPQ, periplasmic, signal;
HET: PAQ; 2.00A {Escherichia coli} SCOP: b.30.2.1
d.17.2.1 d.17.2.1 d.82.1.1 PDB: 1d6y_A* 1d6u_A* 1d6z_A*
2wgq_A 1oac_A* 1dyu_A* 2w0q_A* 2wo0_A* 2wof_A* 2woh_A*
1lvn_A* 1jrq_A* 1qak_A* 1qaf_A* 1qal_A*
Length = 727
Score = 25.2 bits (54), Expect = 9.2
Identities = 8/71 (11%), Positives = 22/71 (30%), Gaps = 1/71 (1%)
Query: 16 RENIDRDCSGQWRWCHPCHSSGCFYFYPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHY 75
++ + +D + G ++ +P+ LV DL ++ + + P
Sbjct: 233 KDGLKQDARLLKVISYLDVGDGNYWAHPI-ENLVAVVDLEQKKIVKIEEGPVVPVPMTAR 291
Query: 76 FLLTEPPLNTP 86
+
Sbjct: 292 PFDGRDRVAPA 302
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 0.137 0.460
Gapped
Lambda K H
0.267 0.0619 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,349,466
Number of extensions: 134977
Number of successful extensions: 493
Number of sequences better than 10.0: 1
Number of HSP's gapped: 490
Number of HSP's successfully gapped: 46
Length of query: 139
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 55
Effective length of database: 4,356,429
Effective search space: 239603595
Effective search space used: 239603595
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: 52 (24.0 bits)