RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9930
(67 letters)
>1kp8_A Groel protein; chaperonin, assisted protein folding, chaperone;
HET: ATP; 2.00A {Escherichia coli} SCOP: a.129.1.1
c.8.5.1 d.56.1.1 PDB: 1gr5_A 2c7e_A* 1grl_A 1oel_A
1xck_A 1gru_A 1mnf_A 1aon_A 2c7c_A 2c7d_A 2cgt_A 2nwc_A
3e76_A* 2eu1_A 1j4z_A 1kpo_O 1sx3_A* 3c9v_A 1ss8_A
3cau_A ...
Length = 547
Score = 82.6 bits (205), Expect = 9e-21
Identities = 36/63 (57%), Positives = 43/63 (68%), Gaps = 4/63 (6%)
Query: 5 KGGIIDPTKVVRTAITDAAGVASLLTTAEAVVTDIPKEEAAPAMGGMGGMGGMGGMGGMG 64
GI+DPTKV R+A+ AA VA L+ T E +VTD+PK +AA GGMGGMGGMG
Sbjct: 489 DMGILDPTKVTRSALQYAASVAGLMITTECMVTDLPKNDAADLGAA----GGMGGMGGMG 544
Query: 65 GMM 67
GMM
Sbjct: 545 GMM 547
>1iok_A Chaperonin 60; chaperone; 3.20A {Paracoccus denitrificans} SCOP:
a.129.1.1 c.8.5.1 d.56.1.1
Length = 545
Score = 74.5 bits (184), Expect = 6e-18
Identities = 31/54 (57%), Positives = 38/54 (70%), Gaps = 1/54 (1%)
Query: 5 KGGIIDPTKVVRTAITDAAGVASLLTTAEAVVTDIPKEE-AAPAMGGMGGMGGM 57
K G+IDP KVVRTA+ DAA VA LL T EA++ + P+ + A M MGGMGGM
Sbjct: 491 KFGVIDPAKVVRTALEDAASVAGLLITTEAMIAEKPEPKAPAGGMPDMGGMGGM 544
>3rtk_A 60 kDa chaperonin 2; heat shock protein, chaperone; 2.80A
{Mycobacterium tuberculosis} PDB: 1sjp_A
Length = 546
Score = 70.7 bits (174), Expect = 1e-16
Identities = 26/54 (48%), Positives = 33/54 (61%), Gaps = 1/54 (1%)
Query: 5 KGGIIDPTKVVRTAITDAAGVASLLTTAEAVVTDIPKEEAAPAMGGMGGMGGMG 58
G+ DP KV R+A+ +AA +A L T EAVV D P++E A G G MGGM
Sbjct: 487 AAGVADPVKVTRSALQNAASIAGLFLTTEAVVADKPEKEKASVP-GGGDMGGMD 539
>1we3_A CPN60(groel); chaperonin, chaperone, groel, HSP60, HSP10, folding,
ADP, ATP; HET: ADP; 2.80A {Thermus thermophilus} SCOP:
a.129.1.1 c.8.5.1 d.56.1.1 PDB: 1wf4_a*
Length = 543
Score = 70.7 bits (174), Expect = 1e-16
Identities = 22/52 (42%), Positives = 35/52 (67%), Gaps = 1/52 (1%)
Query: 5 KGGIIDPTKVVRTAITDAAGVASLLTTAEAVVTDIPKEE-AAPAMGGMGGMG 55
+ GI+DP KV R+A+ +AA + +L+ T EAVV + P+++ + PA G G M
Sbjct: 491 EAGIVDPAKVTRSALQNAASIGALILTTEAVVAEKPEKKESTPASAGAGDMD 542
>3ruv_A Chaperonin, CPN; double-ring, protein folding machinery, group II
chaperonin, binding, chaperone; HET: ANP; 2.24A
{Methanococcus maripaludis} PDB: 3rus_A* 3ruw_A* 3ruq_A*
3los_A 3kfb_A* 3izi_A 3izj_A 3izm_A 3izh_A 3kfe_A*
3iyf_A* 3kfk_A* 3izk_A 3izl_A 3j03_A 3izn_A 3j02_A
Length = 543
Score = 36.4 bits (85), Expect = 2e-04
Identities = 24/64 (37%), Positives = 32/64 (50%), Gaps = 4/64 (6%)
Query: 4 KKGGIIDPTKVVRTAITDAAGVASLLTTAEAVVTDIPKEEAAPAMGGMGGMGGMGGMGGM 63
+ G+++P +V AI AA +L + V+ A MG MGGM GMGGM
Sbjct: 484 CENGVVEPLRVKTQAIQSAAESTEMLLRIDDVIAAEKLRGA----PDMGDMGGMPGMGGM 539
Query: 64 GGMM 67
GMM
Sbjct: 540 PGMM 543
>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 = 31.6 bits (71), Expect = 0.011
Identities = 15/86 (17%), Positives = 26/86 (30%), Gaps = 33/86 (38%)
Query: 1 MAA----KKGGIIDPTKVVRTAITDAAG-----------VASLLTTAEAV--V------- 36
AA K G+I AG +A +++ V V
Sbjct: 1741 KAAFEDLKSKGLIPADATF-------AGHSLGEYAALASLADVMSIESLVEVVFYRGMTM 1793
Query: 37 -TDIPKEEAAPAMGGMGGMGGMGGMG 61
+P++E + GM + G +
Sbjct: 1794 QVAVPRDELGRSNYGMIAINP-GRVA 1818
>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 = 31.4 bits (70), Expect = 0.013
Identities = 11/54 (20%), Positives = 16/54 (29%), Gaps = 22/54 (40%)
Query: 8 IIDPTKVVR----TAITDAAGVASL--LTTAEAVVTDIPKEEAAPAMGGMGGMG 55
+ V R + A L L A+ V+ D G+ G G
Sbjct: 125 VFAKYNVSRLQPYLKLRQA-----LLELRPAKNVLID-----------GVLGSG 162
Score = 28.7 bits (63), Expect = 0.11
Identities = 3/6 (50%), Positives = 4/6 (66%)
Query: 59 GMGGMG 64
G+ G G
Sbjct: 157 GVLGSG 162
>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus} PDB: 3lvh_A
Length = 624
Score = 30.0 bits (67), Expect = 0.036
Identities = 6/24 (25%), Positives = 6/24 (25%)
Query: 44 AAPAMGGMGGMGGMGGMGGMGGMM 67
AP G G G M
Sbjct: 601 QAPFGYGYTAPAYGQPQPGFGYSM 624
>1q3q_A Thermosome alpha subunit; chaperone, chaperonin; HET: ANP; 2.30A
{Thermococcus SP} SCOP: a.129.1.2 c.8.5.2 d.56.1.2 PDB:
1q2v_A* 1q3s_A* 1q3r_A
Length = 548
Score = 29.5 bits (67), Expect = 0.049
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 5/64 (7%)
Query: 4 KKGGIIDPTKVVRTAITDAAGVASLLTTAEAVVTDIPKEEAAPAMGGMGGMGGMGGMGGM 63
+ GII+P +V + AI A+ A ++ + V+ + GGM GGMGGM
Sbjct: 490 LEKGIIEPLRVKKQAIKSASEAAIMILRIDDVIAAKATKPEGGQGGGM-----PGGMGGM 544
Query: 64 GGMM 67
M
Sbjct: 545 DMGM 548
>3aq1_B Thermosome subunit; group II chaperonin, protein folding,
chaperone; 2.75A {Methanococcoides burtonii}
Length = 500
Score = 28.7 bits (65), Expect = 0.089
Identities = 10/58 (17%), Positives = 20/58 (34%)
Query: 4 KKGGIIDPTKVVRTAITDAAGVASLLTTAEAVVTDIPKEEAAPAMGGMGGMGGMGGMG 61
+ +I+P ++ AI A ++ + VV GG+ M +
Sbjct: 441 WENDVIEPLRIKTQAINAAMEATVMILRIDDVVASKGSANQGMGPGGLPDMPDLDMDA 498
>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 = 28.3 bits (63), Expect = 0.12
Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 6/46 (13%)
Query: 28 LLTTAEAV------VTDIPKEEAAPAMGGMGGMGGMGGMGGMGGMM 67
L++ EA + + G GMGG+ + GM
Sbjct: 1017 LVSVVEAFIASGITDPYEMYKYVHVSEVGNCSGSGMGGVSALRGMF 1062
>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP,
translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A
Length = 504
Score = 28.4 bits (64), Expect = 0.13
Identities = 7/26 (26%), Positives = 12/26 (46%)
Query: 42 EEAAPAMGGMGGMGGMGGMGGMGGMM 67
+ A + MGG+ G+ G M +
Sbjct: 425 TKFAQMVKKMGGIKGLFKGGDMSKNV 450
Score = 28.4 bits (64), Expect = 0.14
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 46 PAMGGMGGMGGMGGMGGMGGMM 67
M + MGGM G+ MM
Sbjct: 463 AKMMDPRVLHHMGGMAGLQSMM 484
Score = 28.0 bits (63), Expect = 0.18
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 46 PAMGGMGGMGGMGGMGGMGGMM 67
M M + MGGM G+
Sbjct: 460 QQMAKMMDPRVLHHMGGMAGLQ 481
Score = 26.1 bits (58), Expect = 0.88
Identities = 6/20 (30%), Positives = 8/20 (40%)
Query: 48 MGGMGGMGGMGGMGGMGGMM 67
MGG+ G+ G M
Sbjct: 434 MGGIKGLFKGGDMSKNVSQS 453
Score = 25.3 bits (56), Expect = 1.6
Identities = 12/30 (40%), Positives = 13/30 (43%), Gaps = 6/30 (20%)
Query: 44 AAPAMGGMGGMGGM------GGMGGMGGMM 67
MGGM G+ M G G M GMM
Sbjct: 470 VLHHMGGMAGLQSMMRQFQQGAAGNMKGMM 499
Score = 24.5 bits (54), Expect = 2.6
Identities = 6/23 (26%), Positives = 8/23 (34%)
Query: 45 APAMGGMGGMGGMGGMGGMGGMM 67
+ MGGM G+ M
Sbjct: 465 MMDPRVLHHMGGMAGLQSMMRQF 487
Score = 24.5 bits (54), Expect = 3.3
Identities = 7/22 (31%), Positives = 8/22 (36%)
Query: 45 APAMGGMGGMGGMGGMGGMGGM 66
A M M + MGGM
Sbjct: 456 AKLNQQMAKMMDPRVLHHMGGM 477
Score = 23.4 bits (51), Expect = 7.2
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 38 DIPKEEAAPAMGGMGGMGGMGGM 60
+ ++ A G M GM G M
Sbjct: 482 SMMRQFQQGAAGNMKGMMGFNNM 504
Score = 23.4 bits (51), Expect = 8.0
Identities = 4/20 (20%), Positives = 6/20 (30%)
Query: 48 MGGMGGMGGMGGMGGMGGMM 67
+ G+ G M M
Sbjct: 437 IKGLFKGGDMSKNVSQSQMA 456
>1a6d_A Thermosome (alpha subunit); group II chaperonin, CCT, TRIC, PR
folding, ATPase, chaperonin; 2.60A {Thermoplasma
acidophilum} SCOP: a.129.1.2 c.8.5.2 d.56.1.2 PDB:
1a6e_A*
Length = 545
Score = 26.3 bits (59), Expect = 0.55
Identities = 15/55 (27%), Positives = 25/55 (45%)
Query: 4 KKGGIIDPTKVVRTAITDAAGVASLLTTAEAVVTDIPKEEAAPAMGGMGGMGGMG 58
K G++DP +V A+ A VA+++ + V+ + G GM G G
Sbjct: 487 KAKGVVDPLRVKTHALESAVEVATMILRIDDVIASKKSTPPSGQGGQGQGMPGGG 541
>3p9d_G T-complex protein 1 subunit ETA; HSP60, eukaryotic chaperonin,
actin/tubulin binding, hexadec chaperone; HET: ADP;
3.80A {Saccharomyces cerevisiae} PDB: 3p9e_g*
Length = 550
Score = 26.0 bits (58), Expect = 0.79
Identities = 13/57 (22%), Positives = 22/57 (38%)
Query: 4 KKGGIIDPTKVVRTAITDAAGVASLLTTAEAVVTDIPKEEAAPAMGGMGGMGGMGGM 60
+ +P V A+ A +L+ + + +T+ E A M G G GM
Sbjct: 492 FAKFVWEPALVKINALNSATEATNLILSVDETITNKGSESANAGMMPPQGAGRGRGM 548
>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal
recognition particle, SRP-GTPase, protein targeting,
cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus
furiosus}
Length = 443
Score = 24.8 bits (55), Expect = 2.3
Identities = 3/25 (12%), Positives = 6/25 (24%), Gaps = 1/25 (4%)
Query: 42 EEAAPAMGGMGGMGGMGGMGGMGGM 66
+ M + + GM
Sbjct: 420 RQMKKLFKSMNK-RQLSRLARRFGM 443
>3ko1_A Chaperonin; 9-fold symmetry, double ring, ATP hydrolase, chaperone,
NUCL binding; HET: ADP; 3.70A {Acidianus tengchongensis}
Length = 553
Score = 24.0 bits (53), Expect = 4.7
Identities = 13/53 (24%), Positives = 20/53 (37%)
Query: 4 KKGGIIDPTKVVRTAITDAAGVASLLTTAEAVVTDIPKEEAAPAMGGMGGMGG 56
+ G+I+P V AI A A+L+ + VV+ K G
Sbjct: 498 WQKGVIEPALVKMNAIKAATEAATLVLRIDDVVSAGKKSGGESKTPGGANKPS 550
>1a6d_B Thermosome (beta subunit); group II chaperonin, CCT, TRIC, PR
folding, ATPase, chaperonin; 2.60A {Thermoplasma
acidophilum} SCOP: a.129.1.2 c.8.5.2 d.56.1.2 PDB:
1a6e_B* 1e0r_B
Length = 543
Score = 23.3 bits (51), Expect = 6.9
Identities = 10/54 (18%), Positives = 20/54 (37%)
Query: 4 KKGGIIDPTKVVRTAITDAAGVASLLTTAEAVVTDIPKEEAAPAMGGMGGMGGM 57
K G+I+P +V + AI A A ++ + V+ ++
Sbjct: 488 VKNGVIEPIRVGKQAIESATEAAIMILRIDDVIATKSSSSSSNPPKSGSSSESS 541
>3p9d_F T-complex protein 1 subunit zeta; HSP60, eukaryotic chaperonin,
actin/tubulin binding, hexadec chaperone; HET: ADP;
3.80A {Saccharomyces cerevisiae} PDB: 3p9e_f*
Length = 546
Score = 23.3 bits (51), Expect = 8.3
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 4 KKGGIIDPTKVVRTAITDAAGVASLL 29
GI D +V+R AIT A G+AS L
Sbjct: 502 TIEGIWDSYRVLRNAITGATGIASNL 527
>3iyg_Z T-complex protein 1 subunit zeta; TRIC/CCT, asymmetric, cryo-EM,
subunit arrangement, acetylation, ATP-binding,
chaperone, cytoplasm, isopeptide bond; 4.00A {Bos
taurus}
Length = 517
Score = 23.3 bits (51), Expect = 8.4
Identities = 5/26 (19%), Positives = 11/26 (42%)
Query: 4 KKGGIIDPTKVVRTAITDAAGVASLL 29
+ GI D V + + +A+ +
Sbjct: 482 AEAGIWDNYCVKKQLLHSCTVIATNI 507
>3p9d_C T-complex protein 1 subunit gamma; HSP60, eukaryotic chaperonin,
actin/tubulin binding, hexadec chaperone; HET: ADP;
3.80A {Saccharomyces cerevisiae} PDB: 3p9e_c* 2bbm_B
2bbn_B
Length = 590
Score = 23.1 bits (50), Expect = 9.8
Identities = 10/40 (25%), Positives = 20/40 (50%)
Query: 4 KKGGIIDPTKVVRTAITDAAGVASLLTTAEAVVTDIPKEE 43
GI +P + + ++ A A LL + +V+ + K+E
Sbjct: 551 VSYGIWEPEVIKQQSVKTAIESACLLLRVDDIVSGVRKQE 590
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
0.314 0.133 0.373
Gapped
Lambda K H
0.267 0.0800 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,124,419
Number of extensions: 61325
Number of successful extensions: 344
Number of sequences better than 10.0: 1
Number of HSP's gapped: 272
Number of HSP's successfully gapped: 72
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 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (23.3 bits)