RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy351
(146 letters)
>3d2f_A Heat shock protein homolog SSE1; nucleotide exchange factor,
protein folding, ATP-binding, Ca binding, chaperone,
nucleotide-binding, phosphoprotein; HET: ATP; 2.30A
{Saccharomyces cerevisiae} PDB: 3d2e_A* 3c7n_A* 2qxl_A*
Length = 675
Score = 48.1 bits (115), Expect = 1e-07
Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 1/85 (1%)
Query: 34 VDLGSEWMKVAIVSPGVPMEIALNKESKRKTPTLVAFHKGERTFGEDAQIIGTRFPSNSY 93
+DLG+ +A+ +I +N+ S R TP++V F R GE + T N+
Sbjct: 7 LDLGNNNSVLAVARNRGI-DIVVNEVSNRSTPSVVGFGPKNRYLGETGKNKQTSNIKNTV 65
Query: 94 GYFLDLLGKSIDSPVVQLFKSRFPY 118
++G P + F
Sbjct: 66 ANLKRIIGLDYHHPDFEQESKHFTS 90
>1yuw_A Heat shock cognate 71 kDa protein; chaperone; 2.60A {Bos taurus}
SCOP: b.130.1.1 c.55.1.1 c.55.1.1 PDB: 3c7n_B* 2v7z_A*
Length = 554
Score = 41.7 bits (99), Expect = 2e-05
Identities = 35/109 (32%), Positives = 51/109 (46%), Gaps = 9/109 (8%)
Query: 26 SYGIAVMSVDLGSEWMKVAIVSPGVPMEIALNKESKRKTPTLVAFHKGERTFGEDAQIIG 85
S G AV +DLG+ + V + G EI N + R TP+ VAF ER G+ A+
Sbjct: 2 SKGPAV-GIDLGTTYSCVGVFQHGKV-EIIANDQGNRTTPSYVAFTDTERLIGDAAKNQV 59
Query: 86 TRFPSNSYGYFLD---LLGKSIDSPVVQLFKSRFPYYDIVADEERGTIV 131
P+N+ D L+G+ D VVQ +P + +V D R +
Sbjct: 60 AMNPTNT---VFDAKRLIGRRFDDAVVQSDMKHWP-FMVVNDAGRPKVQ 104
>2kho_A Heat shock protein 70; molecular chaperone, HSP70, peptide binding,
protein folding, acetylation, ATP-binding, cell inner
membrane; NMR {Escherichia coli}
Length = 605
Score = 41.1 bits (97), Expect = 4e-05
Identities = 29/97 (29%), Positives = 46/97 (47%), Gaps = 6/97 (6%)
Query: 31 VMSVDLGSEWMKVAIVSPGVPMEIALNKESKRKTPTLVAFHK-GERTFGEDA--QIIGTR 87
++ +DLG+ VAI+ P + N E R TP+++A+ + GE G+ A Q +
Sbjct: 4 IIGIDLGTTNSCVAIMDGTTPRVLE-NAEGDRTTPSIIAYTQDGETLVGQPAKRQAVTN- 61
Query: 88 FPSNSYGYFLDLLGKSIDSPVVQLFKSRFPYYDIVAD 124
P N+ L+G+ VQ S P+ I AD
Sbjct: 62 -PQNTLFAIKRLIGRRFQDEEVQRDVSIMPFKIIAAD 97
>2v7y_A Chaperone protein DNAK; HSP70, heat shock protein, ATPase, domain
rearrangement; HET: ADP; 2.37A {Geobacillus
kaustophilus HTA426}
Length = 509
Score = 39.9 bits (94), Expect = 1e-04
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 31 VMSVDLGSEWMKVAIVSPGVPMEIALNKESKRKTPTLVAFHKGERTFGEDA 81
++ +DLG+ VA++ G I N E R TP++VAF GER GE A
Sbjct: 4 IIGIDLGTTNSCVAVLEGGEVKVIP-NPEGNRTTPSVVAFKNGERLVGEVA 53
>1dkg_D Molecular chaperone DNAK; HSP70, GRPE, nucleotide exchange factor,
coiled-coil, complex (HSP24/HSP70); 2.80A {Escherichia
coli} SCOP: c.55.1.1 c.55.1.1
Length = 383
Score = 39.5 bits (93), Expect = 2e-04
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 6/91 (6%)
Query: 31 VMSVDLGSEWMKVAIVSPGVPMEIALNKESKRKTPTLVAFHK-GERTFGEDA--QIIGTR 87
++ +DLG+ VAI+ P + N E R TP+++A+ + GE G+ A Q +
Sbjct: 4 IIGIDLGTTNSCVAIMDGTTPRVLE-NAEGDRTTPSIIAYTQDGETLVGQPAKRQAVTN- 61
Query: 88 FPSNSYGYFLDLLGKSIDSPVVQLFKSRFPY 118
P N+ L+G+ VQ S P+
Sbjct: 62 -PQNTLFAIKRLIGRRFQDEEVQRDVSIMPF 91
>3i33_A Heat shock-related 70 kDa protein 2; protein-ADP complex,
ATP-binding, chaperone, nucleotide-BIND phosphoprotein,
stress response; HET: ADP; 1.30A {Homo sapiens} PDB:
1hx1_A 3jxu_A* 2qwl_A* 2qw9_A* 2qwm_A* 1hpm_A* 1ngi_A*
1ngj_A* 3hsc_A* 1ngb_A* 3ldq_A* 3fzf_A* 3fzk_A* 3fzl_A*
3fzm_A* 3fzh_A* 3m3z_A* 1ngh_A* 1ngd_A* 1ngf_A* ...
Length = 404
Score = 38.7 bits (91), Expect = 3e-04
Identities = 29/118 (24%), Positives = 52/118 (44%), Gaps = 9/118 (7%)
Query: 31 VMSVDLGSEWMKVAIVSPGVPMEIALNKESKRKTPTLVAFHKGERTFGEDAQIIGTRFPS 90
+ +DLG+ + V + G EI N + R TP+ VAF ER G+ A+ P+
Sbjct: 25 AIGIDLGTTYSCVGVFQHGKV-EIIANDQGNRTTPSYVAFTDTERLIGDAAKNQVAMNPT 83
Query: 91 NSYGYFLD---LLGKSIDSPVVQLFKSRFPYYDIVADEERGTIVFKTNDNE-LYHVEE 144
N+ D L+G+ + VQ +P + +V++ + + + + EE
Sbjct: 84 NT---IFDAKRLIGRKFEDATVQSDMKHWP-FRVVSEGGKPKVQVEYKGETKTFFPEE 137
>3qfu_A 78 kDa glucose-regulated protein homolog; HSP70, KAR2, BIP,
chaperone; HET: ADP; 1.80A {Saccharomyces cerevisiae}
PDB: 3qfp_A 3qml_A 3ldo_A* 3ldl_A 3ldn_A* 3ldp_A*
Length = 394
Score = 37.5 bits (88), Expect = 7e-04
Identities = 31/118 (26%), Positives = 54/118 (45%), Gaps = 9/118 (7%)
Query: 31 VMSVDLGSEWMKVAIVSPGVPMEIALNKESKRKTPTLVAFHKGERTFGEDAQIIGTRFPS 90
V+ +DLG+ + VA++ G EI N++ R TP+ VAF ER G+ A+ P
Sbjct: 20 VIGIDLGTTYSCVAVMKNGKT-EILANEQGNRITPSYVAFTDDERLIGDAAKNQVAANPQ 78
Query: 91 NSYGYFLD---LLGKSIDSPVVQLFKSRFPYYDIVADEERGTIVFKTNDNE-LYHVEE 144
N+ D L+G + VQ P +++V + + + + ++ EE
Sbjct: 79 NT---IFDIKRLIGLKYNDRSVQKDIKHLP-FNVVNKDGKPAVEVSVKGEKKVFTPEE 132
>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 = 28.9 bits (64), Expect = 0.63
Identities = 29/131 (22%), Positives = 44/131 (33%), Gaps = 50/131 (38%)
Query: 17 VLLLTL--FEHSY--G------IAVMSVDLGSEWMKV---------AIVSPGVPMEI--- 54
VL L L FE+ Y G A + + + +K A + P +
Sbjct: 83 VLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSN 142
Query: 55 -ALNKESKRKTPTLVAFHKGERTFGEDAQIIGTRFPSNSYGYFLDLLGKSIDSPVVQLFK 113
AL + LVA FG Q G N+ YF +L L++
Sbjct: 143 SALFRAVGEGNAQLVA------IFG--GQ--G-----NTDDYFEEL---------RDLYQ 178
Query: 114 SRFPYYDIVAD 124
+ Y+ +V D
Sbjct: 179 T---YHVLVGD 186
Score = 28.5 bits (63), Expect = 0.97
Identities = 19/117 (16%), Positives = 41/117 (35%), Gaps = 27/117 (23%)
Query: 37 GSEWMKVAIVSPGVPMEIALNKESKRKTPTLVAFHKGER----TFGEDAQIIGTRFPSNS 92
GS+ G+ M++ ++ + +++ + T+G I P N
Sbjct: 1625 GSQ-------EQGMGMDLYKTSKAAQD-----VWNRADNHFKDTYGFSILDIVINNPVNL 1672
Query: 93 YGYFLDLLGKSI---------DSPVVQLFKSRFPYYDIVADEERGTIVFKTNDNELY 140
+F GK I ++ V K+ + +I +E + F++ L
Sbjct: 1673 TIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEI--NEHSTSYTFRSEKGLLS 1727
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 28.5 bits (63), Expect = 0.74
Identities = 8/32 (25%), Positives = 12/32 (37%), Gaps = 13/32 (40%)
Query: 11 TLCSS--VVLLLTLFEHSYGIAVMSVDLGSEW 40
+C+ +VL + VD SEW
Sbjct: 43 VVCALCGLVLS----DKL-------VDTRSEW 63
>2j5u_A MREC protein; bacterial cell shape determining protein MREC, cell
shape regulation; 2.5A {Listeria monocytogenes}
Length = 255
Score = 25.9 bits (57), Expect = 5.6
Identities = 6/27 (22%), Positives = 12/27 (44%)
Query: 6 KISLVTLCSSVVLLLTLFEHSYGIAVM 32
K++ S+ V LLT + ++
Sbjct: 112 KVTTTGAKSATVELLTSSDVKNRVSAK 138
>3fxg_A Rhamnonate dehydratase; structural gemomics, enolase superfamily,
NYSGXRC, target 9265J, lyase, structural genomics,
PSI-2; 1.90A {Gibberella zeae ph-1} PDB: 2p0i_A
Length = 455
Score = 25.8 bits (57), Expect = 6.7
Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 8/46 (17%)
Query: 98 DLLGKSIDSPVVQL----FKSRFPYY----DIVADEERGTIVFKTN 135
DLLGK + PV +L K R +Y + A + G K
Sbjct: 142 DLLGKVRNEPVYRLIGGATKERLDFYCTGPEPTAAKAMGFWGGKVP 187
>2pfe_A Protease A, alkaline serine protease, TFPA; beta-barrels,
thermophIle, kinetic stabilit thermostability, protein
folding; HET: 2AB; 1.44A {Thermobifida fusca}
Length = 186
Score = 25.2 bits (55), Expect = 7.7
Identities = 10/62 (16%), Positives = 21/62 (33%), Gaps = 1/62 (1%)
Query: 73 GERTFGEDAQIIGTRFPSNSYGYFLDLLGKSIDSPVVQLFKSRFPYYDIVADEERGTIVF 132
G R + G+ FP G+ + +P+V + + G+ V
Sbjct: 40 GTRVSSPSGTVAGSYFPGRDMGWV-RITSADTVTPLVNRYNGGTVTVTGSQEAATGSSVC 98
Query: 133 KT 134
++
Sbjct: 99 RS 100
>3p0w_A Mandelate racemase/muconate lactonizing protein; structural
genomics, PSI-2, protein structure initiative; HET: GKR;
1.71A {Ralstonia pickettii} PDB: 3nxl_A
Length = 470
Score = 25.6 bits (56), Expect = 8.0
Identities = 9/28 (32%), Positives = 14/28 (50%), Gaps = 5/28 (17%)
Query: 97 LDLLGKSIDSPVVQL-----FKSRFPYY 119
LDLLG+ ++ PV +L + P
Sbjct: 137 LDLLGQFLEVPVAELLGAGQQRDSAPML 164
>3pfr_A Mandelate racemase/muconate lactonizing protein; emolase
superfamily fold, D-glucarate dehydratase, D-glucara
isomerase; HET: GKR; 1.90A {Actinobacillus succinogenes}
PDB: 3n6j_A 3n6h_A*
Length = 455
Score = 25.5 bits (56), Expect = 8.3
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 97 LDLLGKSIDSPVVQL 111
LDL+G+ + PV +L
Sbjct: 122 LDLMGQFLGVPVAEL 136
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 0.138 0.400
Gapped
Lambda K H
0.267 0.0639 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,205,973
Number of extensions: 123234
Number of successful extensions: 341
Number of sequences better than 10.0: 1
Number of HSP's gapped: 340
Number of HSP's successfully gapped: 26
Length of query: 146
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 61
Effective length of database: 4,328,508
Effective search space: 264038988
Effective search space used: 264038988
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 (21.9 bits)
S2: 53 (24.4 bits)