RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2724
(174 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 = 347 bits (893), Expect = e-122
Identities = 155/168 (92%), Positives = 160/168 (95%)
Query: 3 DDDVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSK 62
+D+ ALV DNGSG+ KAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSK
Sbjct: 2 EDETTALVCDNGSGLVKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSK 61
Query: 63 RGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPILLTEAPLNPKANREKMTQ 122
RGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHP LLTEAPLNPKANREKMTQ
Sbjct: 62 RGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPLNPKANREKMTQ 121
Query: 123 IMFETFNTPAMYVAIQAVLSLYASGRTTGIVLDSGDGVSHTVPIYEDH 170
IMFETFN PAMYVAIQAVLSLYASGRTTGIVLDSGDGV+H VPIYE +
Sbjct: 122 IMFETFNVPAMYVAIQAVLSLYASGRTTGIVLDSGDGVTHNVPIYEGY 169
>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 = 337 bits (865), Expect = e-117
Identities = 75/182 (41%), Positives = 103/182 (56%), Gaps = 17/182 (9%)
Query: 3 DDDVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGR--------PRHQGVMVGMGQKDSY 54
+ A VVD G+G K G+AG+ P+ + PS + + VM G+ D +
Sbjct: 2 AGRLPACVVDCGTGYTKLGYAGNTEPQFIIPSCIAIKESAKVGDQAQRRVMKGVDDLDFF 61
Query: 55 VGDEAQSKRGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPILLTEAPLNPK 114
+GDEA K K+PI HGI+ +WD ME+ + LR PE+H LLTE PLN
Sbjct: 62 IGDEAIEKPT-YATKWPIRHGIVEDWDLMERFMEQVIFKYLRAEPEDHYFLLTEPPLNTP 120
Query: 115 ANREKMTQIMFETFNTPAMYVAIQAVLSLYASGRT--------TGIVLDSGDGVSHTVPI 166
NRE +IMFE+FN P +Y+A+QAVL+L AS + TG V+DSGDGV+H +P+
Sbjct: 121 ENREYTAEIMFESFNVPGLYIAVQAVLALAASWTSRQVGERTLTGTVIDSGDGVTHVIPV 180
Query: 167 YE 168
E
Sbjct: 181 AE 182
>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 = 333 bits (856), Expect = e-116
Identities = 82/171 (47%), Positives = 111/171 (64%), Gaps = 3/171 (1%)
Query: 1 MCDDDVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPR--HQGVMVGMGQKDSYVGDE 58
M +V DNG+G K G+AG + P +FP++VGRP + + KD VGDE
Sbjct: 1 MDSQGRKVVVCDNGTGFVKCGYAGSNFPEHIFPALVGRPIIRSTTKVGNIEIKDLMVGDE 60
Query: 59 AQSKRGILTLKYPIEHGIITNWDDMEKIWHHTFYNE-LRVAPEEHPILLTEAPLNPKANR 117
A R +L + YP+E+GI+ NWDDM+ +W +TF E L + ILLTE P+NP NR
Sbjct: 61 ASELRSMLEVNYPMENGIVRNWDDMKHLWDYTFGPEKLNIDTRNCKILLTEPPMNPTKNR 120
Query: 118 EKMTQIMFETFNTPAMYVAIQAVLSLYASGRTTGIVLDSGDGVSHTVPIYE 168
EK+ ++MFET+ +YVAIQAVL+LYA G TG+V+DSGDGV+H P+YE
Sbjct: 121 EKIVEVMFETYQFSGVYVAIQAVLTLYAQGLLTGVVVDSGDGVTHICPVYE 171
>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 = 311 bits (799), Expect = e-107
Identities = 75/197 (38%), Positives = 104/197 (52%), Gaps = 31/197 (15%)
Query: 3 DDDVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPR---------------------- 40
+++DNG+G K G+AG+DAP VFP+++
Sbjct: 2 ASFNVPIIMDNGTGYSKLGYAGNDAPSYVFPTVIATRSAGASSGPAVSSKPSYMASKGSG 61
Query: 41 HQGVMVGMGQKDSYVGDEAQSKRGI-LTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAP 99
H D ++G++A K +L YPI HG I NWD ME+ W + + LR P
Sbjct: 62 HLSSKRATEDLDFFIGNDALKKASAGYSLDYPIRHGQIENWDHMERFWQQSLFKYLRCEP 121
Query: 100 EEHPILLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAVLSLYASGRT--------TG 151
E+H LLTE PLNP NRE +IMFE+FN +Y+A+QAVL+L AS + TG
Sbjct: 122 EDHYFLLTEPPLNPPENRENTAEIMFESFNCAGLYIAVQAVLALAASWTSSKVTDRSLTG 181
Query: 152 IVLDSGDGVSHTVPIYE 168
V+DSGDGV+H +P+ E
Sbjct: 182 TVVDSGDGVTHIIPVAE 198
>3qb0_A Actin-related protein 4; actin fold, ATP binding, nucleus,
structural protein; HET: ATP; 3.40A {Saccharomyces
cerevisiae}
Length = 498
Score = 308 bits (790), Expect = e-105
Identities = 49/169 (28%), Positives = 79/169 (46%), Gaps = 6/169 (3%)
Query: 1 MCDDDVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQ 60
D+V+A+V+D GS G++G D P+++ PS+ G+ G K +
Sbjct: 18 YGGDEVSAVVIDPGSYTTNIGYSGSDFPQSILPSVYGKYTA-----DEGNKKIFSEQSIG 72
Query: 61 SKRGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEH-PILLTEAPLNPKANREK 119
R LK IE+G++ +WD ++ W NEL + P LLTE N NR+K
Sbjct: 73 IPRKDYELKPIIENGLVIDWDTAQEQWQWALQNELYLNSNSGIPALLTEPVWNSTENRKK 132
Query: 120 MTQIMFETFNTPAMYVAIQAVLSLYASGRTTGIVLDSGDGVSHTVPIYE 168
+++ E A Y+A + +A+GR +V+D G PI +
Sbjct: 133 SLEVLLEGMQFEACYLAPTSTCVSFAAGRPNCLVVDIGHDTCSVSPIVD 181
>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 = 39.6 bits (92), Expect = 3e-04
Identities = 32/193 (16%), Positives = 50/193 (25%), Gaps = 78/193 (40%)
Query: 14 GS---GMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKY 70
GS GM + A + V+ + A T +
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVW------------------------NRA-DNHFKDTYGF 1659
Query: 71 PIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPILLTEAPLNPKANREKM--------TQ 122
I I+ N + + H R+ E + ++ E ++ K EK+ T
Sbjct: 1660 SILD-IVIN-NPVNLTIHFGGEKGKRIR-ENYSAMIFETIVDGKLKTEKIFKEINEHSTS 1716
Query: 123 IMFE--------TFNT-PAMY---VAIQAVL---------------SL--YA-----SGR 148
F T T PA+ A L SL YA +
Sbjct: 1717 YTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLAD- 1775
Query: 149 TTGIVLDSGDGVS 161
V+ V
Sbjct: 1776 ----VMSIESLVE 1784
>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 = 26.8 bits (58), Expect = 3.1
Identities = 5/20 (25%), Positives = 10/20 (50%), Gaps = 1/20 (5%)
Query: 93 NELRV-APEEHPILLTEAPL 111
L++ A + P L +A +
Sbjct: 27 ASLKLYADDSAPALAIKATM 46
Score = 26.5 bits (57), Expect = 4.2
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 137 IQAVLSLYASGRTTGIVLDS 156
+QA L LYA + + +
Sbjct: 25 LQASLKLYADDSAPALAIKA 44
>3q3q_A Alkaline phosphatase; hydrolase; 1.95A {Sphingomonas SP}
Length = 565
Score = 27.0 bits (58), Expect = 4.5
Identities = 25/128 (19%), Positives = 38/128 (29%), Gaps = 5/128 (3%)
Query: 21 GFAGD--DAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPIEHGIIT 78
F+ D R + + R +G + G + + ILT P GII
Sbjct: 50 QFSADLFSEYRQYYTGGLKRLTSEGAVFPRGYQSHAATETCPGHSTILTGSRPSRTGIIA 109
Query: 79 N-WDDMEKIWHHTFYNELRVAPEEHPILLTEAPLNPKANREKMTQIMFETFNTPAMYVAI 137
N W D++ N E P ++ + + T PA V
Sbjct: 110 NNWFDLDA--KREDKNLYCAEDESQPGSSSDKYEASPLHLKVPTLGGRMKAANPATRVVS 167
Query: 138 QAVLSLYA 145
A A
Sbjct: 168 VAGKDRAA 175
>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 = 26.8 bits (60), Expect = 4.7
Identities = 11/40 (27%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 32 FPSIVGRPRHQGVMVGMGQKDSYVGDEAQSK---RGILTL 68
FP++V PR +G+M + DE + R ++ L
Sbjct: 375 FPAVVLDPRGRGLMCAFSLPTTADRDELIRQLWQRAVIVL 414
>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 = 26.3 bits (59), Expect = 5.3
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
>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 = 25.9 bits (58), Expect = 7.0
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
>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 = 25.7 bits (57), Expect = 8.9
Identities = 7/40 (17%), Positives = 16/40 (40%), Gaps = 3/40 (7%)
Query: 32 FPSIVGRPRHQGVMVGMGQKDSYVGDEAQSK---RGILTL 68
+P + R R +G D + ++ S +G++
Sbjct: 398 YPQFISRVRGRGTFCSFDTPDESIRNKLISIARNKGVMLG 437
>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 = 25.5 bits (55), Expect = 9.7
Identities = 11/58 (18%), Positives = 17/58 (29%), Gaps = 2/58 (3%)
Query: 3 DDDVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQ 60
+ + +D G G K G D R +FPS + +G
Sbjct: 18 GSHMVVVGLDVGYGDTKV--IGVDGKRIIFPSRWAVTETESWGIGGKIPVLSTDGGQT 73
>3sy7_A Porin D; beta-barrel, channel, outer membrane, membrane protein;
HET: C8E; 2.15A {Pseudomonas aeruginosa} PDB: 2odj_A*
Length = 428
Score = 25.6 bits (55), Expect = 9.9
Identities = 9/62 (14%), Positives = 22/62 (35%), Gaps = 3/62 (4%)
Query: 112 NPKANREKMTQIMFETFNTPAMYVAIQAVLSLYASGRTTGIVLDSGDGVSHTVPIYEDHE 171
+ +R TQ T+ + + + + G+ LD + T + ++
Sbjct: 34 SGSGDRVDWTQGFLTTYESGFTQGTVGFGVDAFG---YLGLKLDGTSDKTGTGNLPVMND 90
Query: 172 GE 173
G+
Sbjct: 91 GK 92
>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 = 25.6 bits (57), Expect = 10.0
Identities = 4/21 (19%), Positives = 6/21 (28%), Gaps = 5/21 (23%)
Query: 10 VVDNGSGMCKAGFAGDDAPRA 30
DNG G+ +
Sbjct: 59 CSDNGDGIDP-----SNYEFL 74
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
0.318 0.136 0.413
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,793,487
Number of extensions: 165504
Number of successful extensions: 359
Number of sequences better than 10.0: 1
Number of HSP's gapped: 348
Number of HSP's successfully gapped: 21
Length of query: 174
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 87
Effective length of database: 4,272,666
Effective search space: 371721942
Effective search space used: 371721942
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: 54 (25.2 bits)