RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13416
(67 letters)
>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 = 122 bits (309), Expect = 5e-36
Identities = 55/64 (85%), Positives = 58/64 (90%)
Query: 3 DEEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSK 62
++E ALV DNGSG+ KAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSK
Sbjct: 2 EDETTALVCDNGSGLVKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSK 61
Query: 63 RGSY 66
RG
Sbjct: 62 RGIL 65
>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 = 115 bits (289), Expect = 6e-33
Identities = 25/68 (36%), Positives = 35/68 (51%), Gaps = 2/68 (2%)
Query: 1 MCDEEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPR--HQGVMVGMGQKDSYVGDE 58
M + +V DNG+G K G+AG + P +FP++VGRP + + KD VGDE
Sbjct: 1 MDSQGRKVVVCDNGTGFVKCGYAGSNFPEHIFPALVGRPIIRSTTKVGNIEIKDLMVGDE 60
Query: 59 AQSKRGSY 66
A R
Sbjct: 61 ASELRSML 68
>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 = 113 bits (284), Expect = 4e-32
Identities = 22/70 (31%), Positives = 33/70 (47%), Gaps = 8/70 (11%)
Query: 3 DEEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVG--------RPRHQGVMVGMGQKDSY 54
+ A VVD G+G K G+AG+ P+ + PS + + VM G+ D +
Sbjct: 2 AGRLPACVVDCGTGYTKLGYAGNTEPQFIIPSCIAIKESAKVGDQAQRRVMKGVDDLDFF 61
Query: 55 VGDEAQSKRG 64
+GDEA K
Sbjct: 62 IGDEAIEKPT 71
>3qb0_A Actin-related protein 4; actin fold, ATP binding, nucleus,
structural protein; HET: ATP; 3.40A {Saccharomyces
cerevisiae}
Length = 498
Score = 109 bits (274), Expect = 2e-30
Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 5/66 (7%)
Query: 1 MCDEEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQ 60
+EV+A+V+D GS G++G D P+++ PS+ G+ G K +
Sbjct: 18 YGGDEVSAVVIDPGSYTTNIGYSGSDFPQSILPSVYGKYTA-----DEGNKKIFSEQSIG 72
Query: 61 SKRGSY 66
R Y
Sbjct: 73 IPRKDY 78
>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 = 100 bits (250), Expect = 3e-27
Identities = 20/87 (22%), Positives = 34/87 (39%), Gaps = 22/87 (25%)
Query: 3 DEEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPR---------------------- 40
+++DNG+G K G+AG+DAP VFP+++
Sbjct: 2 ASFNVPIIMDNGTGYSKLGYAGNDAPSYVFPTVIATRSAGASSGPAVSSKPSYMASKGSG 61
Query: 41 HQGVMVGMGQKDSYVGDEAQSKRGSYY 67
H D ++G++A K + Y
Sbjct: 62 HLSSKRATEDLDFFIGNDALKKASAGY 88
>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 = 27.3 bits (60), Expect = 0.30
Identities = 10/35 (28%), Positives = 12/35 (34%), Gaps = 10/35 (28%)
Query: 42 QGV-MVGMGQKDSY--------VGDEAQSKRGSYY 67
QG GMG D Y V + A + Y
Sbjct: 1624 QGSQEQGMG-MDLYKTSKAAQDVWNRADNHFKDTY 1657
>3na3_A DNA mismatch repair protein MLH1; MUTL protein homolog 1, DNA
damag repair, structural genomics consortium, SGC,
protein bindin; HET: DNA ATP; 2.50A {Homo sapiens}
Length = 348
Score = 26.7 bits (60), Expect = 0.45
Identities = 6/22 (27%), Positives = 10/22 (45%), Gaps = 5/22 (22%)
Query: 10 VVDNGSGMCKAGFAGDDAPRAV 31
+ DNG+G+ K +D
Sbjct: 62 IQDNGTGIRK-----EDLDIVC 78
>1b63_A MUTL; DNA mismatch repair, ATPase; HET: ANP; 1.90A {Escherichia
coli K12} SCOP: d.14.1.3 d.122.1.2 PDB: 1nhh_A* 1nhi_A*
1bkn_A 1nhj_A* 1b62_A*
Length = 333
Score = 26.6 bits (60), Expect = 0.50
Identities = 7/22 (31%), Positives = 11/22 (50%), Gaps = 5/22 (22%)
Query: 10 VVDNGSGMCKAGFAGDDAPRAV 31
+ DNG G+ K D+ A+
Sbjct: 58 IRDNGCGIKK-----DELALAL 74
>3h4l_A DNA mismatch repair protein PMS1; ATP binding, DNA repair, DNA
damage, nucleus, phosphop DNA binding protein, protein
binding; HET: DNA ANP; 2.50A {Saccharomyces cerevisiae}
Length = 367
Score = 26.4 bits (59), Expect = 0.62
Identities = 4/21 (19%), Positives = 6/21 (28%), Gaps = 5/21 (23%)
Query: 10 VVDNGSGMCKAGFAGDDAPRA 30
DNG G+ +
Sbjct: 59 CSDNGDGIDP-----SNYEFL 74
>2fsj_A Hypothetical protein TA0583; actin homologs, archaea, ATPase,
MREB, PARM, structural PROT; 1.90A {Thermoplasma
acidophilum} SCOP: c.55.1.12 c.55.1.12 PDB: 2fsk_A
2fsn_A*
Length = 346
Score = 26.3 bits (57), Expect = 0.63
Identities = 11/58 (18%), Positives = 17/58 (29%), Gaps = 2/58 (3%)
Query: 3 DEEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQ 60
+ + +D G G K G D R +FPS + +G
Sbjct: 18 GSHMVVVGLDVGYGDTKV--IGVDGKRIIFPSRWAVTETESWGIGGKIPVLSTDGGQT 73
>1h7s_A PMS1 protein homolog 2; DNA repair, GHL ATPase, mismatch repair,
HNPCC; 1.95A {Homo sapiens} SCOP: d.14.1.3 d.122.1.2
PDB: 1h7u_A* 1ea6_A*
Length = 365
Score = 26.0 bits (58), Expect = 0.88
Identities = 5/21 (23%), Positives = 9/21 (42%), Gaps = 5/21 (23%)
Query: 10 VVDNGSGMCKAGFAGDDAPRA 30
V DNG G+ + ++
Sbjct: 68 VSDNGCGVEE-----ENFEGL 83
>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 = 25.3 bits (54), Expect = 1.6
Identities = 5/15 (33%), Positives = 9/15 (60%), Gaps = 1/15 (6%)
Query: 22 FAGDDAPR-AVFPSI 35
+A D AP A+ ++
Sbjct: 32 YADDSAPALAIKATM 46
>3fv3_A SAPP1P-secreted aspartic protease 1; secreted aspartic protease,
virulence factor, H; HET: STA; 1.85A {Candida
parapsilosis} PDB: 3tne_A*
Length = 339
Score = 24.2 bits (53), Expect = 3.6
Identities = 7/19 (36%), Positives = 7/19 (36%)
Query: 8 ALVVDNGSGMCKAGFAGDD 26
V NG G C G D
Sbjct: 282 EYVYQNGDGTCLWGIQPSD 300
>3js6_A Uncharacterized PARM protein; partition, segregation, filament,
unknown function; 1.95A {Staphylococcus aureus}
Length = 355
Score = 23.9 bits (51), Expect = 4.6
Identities = 9/44 (20%), Positives = 18/44 (40%), Gaps = 3/44 (6%)
Query: 11 VDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSY 54
+D G+G K + + V PS +GR ++ + +
Sbjct: 9 LDFGNGFVKGKINDE---KFVIPSRIGRKTNENNQLKGFVDNKL 49
>3nk6_A 23S rRNA methyltransferase; nosiheptide, nosiheptide-resistance
methyltransferase, 23S R methyltransferase; 2.00A
{Streptomyces actuosus} PDB: 3nk7_A* 3gyq_A*
Length = 277
Score = 23.7 bits (52), Expect = 5.4
Identities = 2/19 (10%), Positives = 5/19 (26%)
Query: 27 APRAVFPSIVGRPRHQGVM 45
++ + R V
Sbjct: 82 IDVSIVNQLFKAERKAKVF 100
>2cjg_A L-lysine-epsilon aminotransferase; internal aldimine, pyridoxal
phosphate, PLP, RV3290C, lysine amino transferase; HET:
PMP; 1.95A {Mycobacterium tuberculosis} PDB: 2cjd_A*
2cin_A* 2cjh_A* 2jjg_A* 2jje_A* 2jjh_A* 2jjf_A
Length = 449
Score = 23.8 bits (52), Expect = 5.5
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 32 FPSIVGRPRHQGVMVGMGQKDSYVGDEAQSK 62
FP++V PR +G+M + DE +
Sbjct: 375 FPAVVLDPRGRGLMCAFSLPTTADRDELIRQ 405
>1ohv_A 4-aminobutyrate aminotransferase; PLP-dependent enzyme, 4- AMIN
acid, antiepileptic drug target; HET: PLP; 2.3A {Sus
scrofa} SCOP: c.67.1.4 PDB: 1ohw_A* 1ohy_A*
Length = 472
Score = 23.4 bits (51), Expect = 7.0
Identities = 4/17 (23%), Positives = 7/17 (41%)
Query: 32 FPSIVGRPRHQGVMVGM 48
+P + R R +G
Sbjct: 398 YPQFISRVRGRGTFCSF 414
>2zgy_A Plasmid segregation protein PARM; plasmid partition, structural
protein; HET: GDP; 1.90A {Escherichia coli} SCOP:
c.55.1.1 c.55.1.1 PDB: 1mwk_A* 2qu4_A 1mwm_A* 2zgz_A*
2zhc_A* 3iku_A 3iky_A
Length = 320
Score = 23.2 bits (49), Expect = 8.7
Identities = 10/48 (20%), Positives = 16/48 (33%)
Query: 11 VDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDE 58
+D+GS K + D S R V G + +Y +
Sbjct: 5 IDDGSTNIKLQWQESDGTIKQHISPNSFKREWAVSFGDKKVFNYTLNG 52
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
0.317 0.136 0.409
Gapped
Lambda K H
0.267 0.0539 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,041,759
Number of extensions: 51231
Number of successful extensions: 143
Number of sequences better than 10.0: 1
Number of HSP's gapped: 139
Number of HSP's successfully gapped: 20
Length of query: 67
Length of database: 6,701,793
Length adjustment: 38
Effective length of query: 29
Effective length of database: 5,640,795
Effective search space: 163583055
Effective search space used: 163583055
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.9 bits)