RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4965
(179 letters)
>1xao_A YDJ1, mitochondrial protein import protein MAS5; beta sheets,
chaperone; 2.07A {Saccharomyces cerevisiae}
Length = 121
Score = 156 bits (397), Expect = 4e-50
Identities = 45/120 (37%), Positives = 64/120 (53%), Gaps = 3/120 (2%)
Query: 20 FQRQGINLVTTETITLTEALCGFTKVIKHLDDRQLLITHPPGEVIKPEDIKGIVGEGMPI 79
F+R G +LV I L A+ G ++H+ L + PGEVI P K I G+GMPI
Sbjct: 2 FKRDGDDLVYEAEIDLLTAIAGGEFALEHVSGDWLKVGIVPGEVIAPGMRKVIEGKGMPI 61
Query: 80 YKNPYEKGTLYIKFDVQFPESYFNNDAKLKELEALLSPRPSVDMPPPHSEHVEEVELREY 139
K G L IKF ++FPE++F ++ LK+LE +L PR P V+E L ++
Sbjct: 62 PKYG-GYGNLIIKFTIKFPENHFTSEENLKKLEEILPPRIVP--AIPKKATVDECVLADF 118
>3agx_A DNAJ homolog subfamily B member 1; chaperone; 1.85A {Homo sapiens}
PDB: 3agy_A 3agz_A 2qld_A
Length = 181
Score = 158 bits (401), Expect = 6e-50
Identities = 41/115 (35%), Positives = 65/115 (56%), Gaps = 4/115 (3%)
Query: 1 PDQEPGDVIIVLEQKPHDRFQRQGINLVTTETITLTEALCGFTKVIKHLDDRQLLITHPP 60
+ P D++ VL+ KPH+ F+R G +++ I+L EALCG T + LD R + +
Sbjct: 69 SNNIPADIVFVLKDKPHNIFKRDGSDVIYPARISLREALCGCTVNVPTLDGRTIPV--VF 126
Query: 61 GEVIKPEDIKGIVGEGMPIYKNPYEKGTLYIKFDVQFPESYFNNDAKLKELEALL 115
+VI+P + + GEG+P+ K P ++G L I+F+V FPE LE +L
Sbjct: 127 KDVIRPGMRRKVPGEGLPLPKTPEKRGDLIIEFEVIFPER--IPQTSRTVLEQVL 179
>1nlt_A Protein YDJ1, mitochondrial protein import protein MAS5;
beta-strands, chaperone, heat shock, mitochondrion;
2.70A {Saccharomyces cerevisiae} SCOP: b.4.1.1 b.4.1.1
g.54.1.1
Length = 248
Score = 157 bits (400), Expect = 6e-49
Identities = 45/112 (40%), Positives = 65/112 (58%), Gaps = 1/112 (0%)
Query: 1 PDQEPGDVIIVLEQKPHDRFQRQGINLVTTETITLTEALCGFTKVIKHLDDRQLLITHPP 60
PD PGDV+ ++ ++PH F+R G +LV I L A+ G ++H+ L + P
Sbjct: 138 PDVIPGDVVFIVSERPHKSFKRDGDDLVYEAEIDLLTAIAGGEFALEHVSGDWLKVGIVP 197
Query: 61 GEVIKPEDIKGIVGEGMPIYKNPYEKGTLYIKFDVQFPESYFNNDAKLKELE 112
GEVI P K I G+GMPI K G L IKF ++ PE++F ++ LK+LE
Sbjct: 198 GEVIAPGMRKVIEGKGMPIPKYG-GYGNLIIKFTIKDPENHFTSEENLKKLE 248
>2q2g_A HSP40 protein, heat shock 40 kDa protein, putative (fragment);
malaria, structural genomics, structural genomics
consortium, SGC; 1.90A {Cryptosporidium parvum iowa II}
Length = 180
Score = 154 bits (392), Expect = 2e-48
Identities = 43/115 (37%), Positives = 65/115 (56%), Gaps = 4/115 (3%)
Query: 1 PDQEPGDVIIVLEQKPHDRFQRQGINLVTTETITLTEALCGFTKVIKHLDDRQLLITHPP 60
P PGD++++++ K H RF R +L+ TI L AL GFT + LD+R L I P
Sbjct: 69 PGTSPGDLVLIIQTKTHPRFTRDDCHLIMKVTIPLVRALTGFTCPVTTLDNRNLQI--PI 126
Query: 61 GEVIKPEDIKGIVGEGMPIYKNPYEKGTLYIKFDVQFPESYFNNDAKLKELEALL 115
E++ P+ K + EGMPI P +KG L ++FD+ FP+S + K ++ L
Sbjct: 127 KEIVNPKTRKIVPNEGMPIKNQPGQKGDLILEFDICFPKS--LTPEQKKLIKEAL 179
>1c3g_A Heat shock protein 40; beta sheets, short helices, chaperone; 2.70A
{Saccharomyces cerevisiae} SCOP: b.4.1.1 b.4.1.1 PDB:
2b26_A
Length = 170
Score = 141 bits (357), Expect = 2e-43
Identities = 34/109 (31%), Positives = 62/109 (56%), Gaps = 4/109 (3%)
Query: 4 EPGDVIIVLEQKPHDRFQRQGINLVTTETITLTEALCGFTKVIKHLDDRQLLITHPPGEV 63
+ V+++K H F+R G +L+ T ++ E+L GF+K I+ +D R L ++ +
Sbjct: 66 RRKTLQFVIQEKSHPNFKRDGDDLIYTLPLSFKESLLGFSKTIQTIDGRTLPLSRV--QP 123
Query: 64 IKPEDIKGIVGEGMPIYKNPYEKGTLYIKFDVQFPESYFNNDAKLKELE 112
++P G+GMP KNP ++G L +K+ V +P S NDA+ + ++
Sbjct: 124 VQPSQTSTYPGQGMPTPKNPSQRGNLIVKYKVDYPISL--NDAQKRAID 170
>3lz8_A Putative chaperone DNAJ; structure genomics, structural genomics,
PSI-2, protein STRU initiative; 2.90A {Klebsiella
pneumoniae subsp} PDB: 2kqx_A
Length = 329
Score = 53.8 bits (130), Expect = 3e-09
Identities = 32/124 (25%), Positives = 51/124 (41%), Gaps = 18/124 (14%)
Query: 4 EPGDVIIVLEQKPHDRFQRQGINLVTTETITLTEALCGFTKVIKHLDDRQLLITHPP--- 60
GD+ +V+ PH F G NL + EA G + L + +L+T PP
Sbjct: 211 PNGDLWLVIHIAPHPLFDIVGHNLEIVLPLAPWEAALGAKVTVPTLKES-ILLTVPPGSQ 269
Query: 61 -GEVIKPEDIKGIVGEGMPIYKNPYEKGTLYIKFDVQFPESYFNNDAKLKEL-EALLSPR 118
G+ ++ IK G+G+ + G L+ + P D K +EL + L +
Sbjct: 270 AGQRLR---IK---GKGLV---SKTHTGDLFAVIKIVMPT---KPDEKARELWQQLAAAE 317
Query: 119 PSVD 122
S D
Sbjct: 318 ASFD 321
>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 = 36.4 bits (83), Expect = 0.004
Identities = 28/166 (16%), Positives = 46/166 (27%), Gaps = 63/166 (37%)
Query: 27 LVTTETITLTEALCGFTKVIKHLDDRQLLITHP-----------------PGEVIK--PE 67
L+TT +T+ L T LD + +T P EV+ P
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR 328
Query: 68 DIKGIVGEGMPIYKN-------------------------PYEKGTLYIKFDVQFPESYF 102
+ I+ E + P E ++ + V FP
Sbjct: 329 RL-SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV-FPP--- 383
Query: 103 NNDAKLKE--LEALLSPRPSVDMPPPHSEHVEEV--ELREYIASER 144
A + L + D+ V V +L +Y E+
Sbjct: 384 --SAHIPTILLSLIWF-----DVIK---SDVMVVVNKLHKYSLVEK 419
Score = 36.0 bits (82), Expect = 0.005
Identities = 25/167 (14%), Positives = 51/167 (30%), Gaps = 50/167 (29%)
Query: 44 KVIKHLDDRQLLITHPPGEVIKPEDIKGIVGEGMPIYKNPYEKGTLYIKFDV--QFPES- 100
+ + D + + P ++ E+I I+ GTL + F E
Sbjct: 28 AFVDNFDCKD--VQDMPKSILSKEEIDHIIMSKDA------VSGTLRL-FWTLLSKQEEM 78
Query: 101 --YFNNDAKLKELEALLSP------RPSVDM-------------PPPHSE-HV---EEV- 134
F + + L+SP +PS+ ++ +V +
Sbjct: 79 VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYL 138
Query: 135 ELREYIASERGAGG---GGMGG--------EAYHSDE-DDEMGGHMH 169
+LR+ + R A G+ G + S + +M +
Sbjct: 139 KLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185
Score = 33.3 bits (75), Expect = 0.039
Identities = 19/164 (11%), Positives = 47/164 (28%), Gaps = 44/164 (26%)
Query: 2 DQEPGDVIIVLEQKPHDRFQRQGINLVTTETITLTEALCGFTKVIKHLDDRQLLITHPPG 61
++P + + ++ DR + ++ + + + L + ++
Sbjct: 102 QRQPSMMTRMYIEQ-RDRLYN-DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLID--- 156
Query: 62 EVIKPEDIKGIVGEGMPIYKNPYEKGTLYI------KFDVQFPESYF--------NNDAK 107
G++G G K + + K + F + +
Sbjct: 157 ---------GVLGSG---------KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV 198
Query: 108 LKELEAL-------LSPRPSVDMPPPHSEHVEEVELREYIASER 144
L+ L+ L + R H + ELR + S+
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP 242
>3i38_A Putative chaperone DNAJ; structural genomics, protein structure
initiative, midwest center for structural genomics,
MCSG; 2.30A {Klebsiella pneumoniae subsp}
Length = 109
Score = 31.4 bits (72), Expect = 0.044
Identities = 20/103 (19%), Positives = 30/103 (29%), Gaps = 23/103 (22%)
Query: 16 PHDRFQRQGINLVTTETITLTEALCGFTKVIKHLDDRQLLITHPPGEV---IKPEDIKGI 72
H F G NL + EA G + L + + P G
Sbjct: 3 AHPLFDIVGHNLEIVLPLAPWEAALGAKVTVPTLK----------ESILLTVPPGSQAGQ 52
Query: 73 V----GEGMPIYKNPYEKGTLYIKFDVQFPESYFNNDAKLKEL 111
G+G+ + G L+ + P D K +EL
Sbjct: 53 RLRIKGKGLV---SKTHTGDLFAVIKIVMPT---KPDEKAREL 89
>2l8k_A NSP7, non-structural protein 7; viral protein; NMR {Equine
arteritis virus}
Length = 123
Score = 29.4 bits (65), Expect = 0.33
Identities = 9/47 (19%), Positives = 19/47 (40%)
Query: 1 PDQEPGDVIIVLEQKPHDRFQRQGINLVTTETITLTEALCGFTKVIK 47
+ GD ++V++ + + LV T + + C V+K
Sbjct: 75 QEVTAGDRVVVIDGLDRMAHFKDDLVLVPLTTKVVGGSRCTICDVVK 121
>3vgj_A Tyrosyl-tRNA synthetase, putative; tyrrs, ligase; HET: YAP; 2.21A
{Plasmodium falciparum}
Length = 373
Score = 29.8 bits (67), Expect = 0.49
Identities = 8/51 (15%), Positives = 17/51 (33%)
Query: 28 VTTETITLTEALCGFTKVIKHLDDRQLLITHPPGEVIKPEDIKGIVGEGMP 78
E + E I+ +D I E I+P++++ +
Sbjct: 6 TKREEQEIEEKKAQEESKIEDVDKILNDILSISSECIQPDELRVKLLLKRK 56
>3efg_A Protein SLYX homolog; xanthomonas campestris PV. campestris,
coiled-coil, structur genomics, PSI-2, protein structure
initiative; 2.00A {Xanthomonas campestris PV}
Length = 78
Score = 26.3 bits (58), Expect = 2.0
Identities = 6/21 (28%), Positives = 11/21 (52%)
Query: 107 KLKELEALLSPRPSVDMPPPH 127
L ++ + L + + PPPH
Sbjct: 57 DLGKVRSTLFADAADEPPPPH 77
>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 = 28.1 bits (62), Expect = 2.1
Identities = 7/32 (21%), Positives = 13/32 (40%), Gaps = 7/32 (21%)
Query: 150 GMGGEAYHSDED-----DEMGGHMHE--GQSV 174
GMG + Y + + + H + G S+
Sbjct: 1630 GMGMDLYKTSKAAQDVWNRADNHFKDTYGFSI 1661
>2yb1_A Amidohydrolase; HET: AMP; 1.90A {Chromobacterium violaceum} PDB:
2yb4_A
Length = 292
Score = 26.1 bits (58), Expect = 6.8
Identities = 7/38 (18%), Positives = 12/38 (31%), Gaps = 2/38 (5%)
Query: 126 PHSEHVEEVELREYIASERGAGGGGMGGEAYHSDEDDE 163
P + + I + AGG G+ E +
Sbjct: 192 PGRYDMGRTLIERLILDFQAAGGQGI--EVASGSHSLD 227
>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 = 25.7 bits (55), Expect = 7.5
Identities = 7/22 (31%), Positives = 10/22 (45%), Gaps = 7/22 (31%)
Query: 107 KLKELEA---LLSPRPSVDMPP 125
LK+L+A L + D P
Sbjct: 21 ALKKLQASLKLYAD----DSAP 38
>1ocy_A Bacteriophage T4 short tail fibre; structural protein, fibrous
protein, LIPO-polysaccharide binding, bacteriophage
structural protein; HET: CIT; 1.5A {Bacteriophage T4}
SCOP: d.231.1.1
Length = 198
Score = 25.9 bits (56), Expect = 7.7
Identities = 7/33 (21%), Positives = 10/33 (30%)
Query: 141 ASERGAGGGGMGGEAYHSDEDDEMGGHMHEGQS 173
+ G G G + +M H H G
Sbjct: 90 QFGKPRLGVGCTGGYVGEVQKQQMSYHKHAGGF 122
>1w85_B Pyruvate dehydrogenase E1 component, beta subunit; dehydrogenase,
multienzyme complex, oxidoreductase; HET: TDP; 2.0A
{Geobacillus stearothermophilus} SCOP: c.36.1.7 c.48.1.2
PDB: 1w88_B* 3dva_B* 3dv0_B* 3duf_B*
Length = 324
Score = 25.5 bits (57), Expect = 9.5
Identities = 7/16 (43%), Positives = 8/16 (50%)
Query: 144 RGAGGGGMGGEAYHSD 159
R GGG+ HSD
Sbjct: 115 RSPFGGGVHTPELHSD 130
>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 = 26.0 bits (57), Expect = 9.7
Identities = 7/21 (33%), Positives = 10/21 (47%), Gaps = 2/21 (9%)
Query: 135 ELREYIASERGAG--GGGMGG 153
E+ +Y+ G GMGG
Sbjct: 1034 EMYKYVHVSEVGNCSGSGMGG 1054
>1umd_B E1-beta, 2-OXO acid dehydrogenase beta subunit; alpha(2)beta(2)
tetramer, structural genomics; HET: TDP; 1.90A {Thermus
thermophilus} SCOP: c.36.1.7 c.48.1.2 PDB: 1um9_B*
1umc_B* 1umb_B*
Length = 324
Score = 25.5 bits (57), Expect = 9.8
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 144 RGAGGGGMGGEAYHSD 159
R GGG+ G +HS
Sbjct: 116 RMPSGGGVRGGHHHSQ 131
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 0.138 0.408
Gapped
Lambda K H
0.267 0.0648 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,009,098
Number of extensions: 187157
Number of successful extensions: 447
Number of sequences better than 10.0: 1
Number of HSP's gapped: 439
Number of HSP's successfully gapped: 45
Length of query: 179
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 92
Effective length of database: 4,272,666
Effective search space: 393085272
Effective search space used: 393085272
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: 42 (21.9 bits)
S2: 54 (24.7 bits)