BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy7709
(336 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GDK|B Chain B, Crystal Structure Of Human Atg12~atg5 Conjugate In Complex
With An N- Terminal Fragment Of Atg16l1
pdb|4GDK|E Chain E, Crystal Structure Of Human Atg12~atg5 Conjugate In Complex
With An N- Terminal Fragment Of Atg16l1
pdb|4GDL|B Chain B, Crystal Structure Of Human Atg12~atg5 Conjugate In Complex
With An N- Terminal Fragment Of Atg16l1
Length = 275
Score = 275 bits (702), Expect = 3e-74, Method: Compositional matrix adjust.
Identities = 141/287 (49%), Positives = 192/287 (66%), Gaps = 24/287 (8%)
Query: 49 DREVLREVWDGKLPVCFTLLADQVSTVGEPDPSYLMVPRLSYFPLVLEKSYPFVGIGTTH 108
D++VLR+VW G++P CFTL D++ T E +P YL++PR+SY LV +K
Sbjct: 4 DKDVLRDVWFGRIPTCFTLYQDEI-TEREAEPYYLLLPRVSYLTLVTDK----------- 51
Query: 109 VQHCFTSVIHHAIVNKHPARNFFLSRTEALSQSSGRHYPIGLLYDLHVTDNQLPWNITVH 168
V+ F V+ +++ +F L HYPIGLL+DL + + LPWNITVH
Sbjct: 52 VKKHFQKVMRQEDISE----IWFEYEGTPLKW----HYPIGLLFDLLASSSALPWNITVH 103
Query: 169 FDKFPANEILHCPSREAVESHFMSCIKEADVLKHRSQIVSNMQKKEHNQLWLGLQNDKFD 228
F FP ++LHCPS++A+E+HFMSC+KEAD LKH+SQ+++ MQKK+H QLW+GLQND+FD
Sbjct: 104 FKSFPEKDLLHCPSKDAIEAHFMSCMKEADALKHKSQVINEMQKKDHKQLWMGLQNDRFD 163
Query: 229 QFWVINKKLME-PGEGGGFKHIPFRCYQ--GDLPFSQCLVKPITNEGNPKTLQNLFEEVY 285
QFW IN+KLME P E GF++IPFR YQ + PF Q L +P+ +G TL +L +EV
Sbjct: 164 QFWAINRKLMEYPAEENGFRYIPFRIYQTTTERPFIQKLFRPVAADGQLHTLGDLLKEVC 223
Query: 286 PKISIDKCKLNGILVILVHGIAIPLDTPLQWMSEHLSYPDNFLHIVV 332
P +ID +++HGI L+TPLQW+SEHLSYPDNFLHI +
Sbjct: 224 PS-AIDPEDGEKKNQVMIHGIEPMLETPLQWLSEHLSYPDNFLHISI 269
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 34/48 (70%), Gaps = 1/48 (2%)
Query: 1 MASDREVLREVWDGKLPVCFTLLADQVSTVGEPDPSYLMVPRYVWILL 48
M D++VLR+VW G++P CFTL D++ T E +P YL++PR ++ L
Sbjct: 1 MTDDKDVLRDVWFGRIPTCFTLYQDEI-TEREAEPYYLLLPRVSYLTL 47
>pdb|3HJB|A Chain A, 1.5 Angstrom Crystal Structure Of Glucose-6-Phosphate
Isomerase From Vibrio Cholerae.
pdb|3HJB|B Chain B, 1.5 Angstrom Crystal Structure Of Glucose-6-Phosphate
Isomerase From Vibrio Cholerae.
pdb|3HJB|C Chain C, 1.5 Angstrom Crystal Structure Of Glucose-6-Phosphate
Isomerase From Vibrio Cholerae.
pdb|3HJB|D Chain D, 1.5 Angstrom Crystal Structure Of Glucose-6-Phosphate
Isomerase From Vibrio Cholerae
Length = 574
Score = 32.0 bits (71), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 249 IPFRCYQGDLPFSQCLVKPITNEGNPKTLQNLFEEVYPKI 288
+PF+ ++G+ P + LVK IT P+TL NL KI
Sbjct: 483 VPFKVFEGNRPTNSILVKQIT----PRTLGNLIAMYEHKI 518
>pdb|3PVA|A Chain A, Penicillin V Acylase From B. Sphaericus
pdb|3PVA|B Chain B, Penicillin V Acylase From B. Sphaericus
pdb|3PVA|C Chain C, Penicillin V Acylase From B. Sphaericus
pdb|3PVA|D Chain D, Penicillin V Acylase From B. Sphaericus
pdb|3PVA|E Chain E, Penicillin V Acylase From B. Sphaericus
pdb|3PVA|F Chain F, Penicillin V Acylase From B. Sphaericus
pdb|3PVA|G Chain G, Penicillin V Acylase From B. Sphaericus
pdb|3PVA|H Chain H, Penicillin V Acylase From B. Sphaericus
Length = 335
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 6/50 (12%)
Query: 66 TLLADQVSTVGEPDPSYLMVPR------LSYFPLVLEKSYPFVGIGTTHV 109
+L A + EPD ++VPR L +V+ SY FVG+G+T +
Sbjct: 13 SLFARTMDFTMEPDSKVIIVPRNYGIRLLEKENVVINNSYAFVGMGSTDI 62
>pdb|2Z71|A Chain A, Structure Of Truncated Mutant Cys1gly Of Penicillin V
Acylase From Bacillus Sphaericus Co-Crystallized With
Penicillin V
pdb|2Z71|C Chain C, Structure Of Truncated Mutant Cys1gly Of Penicillin V
Acylase From Bacillus Sphaericus Co-Crystallized With
Penicillin V
Length = 335
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 6/50 (12%)
Query: 66 TLLADQVSTVGEPDPSYLMVPR------LSYFPLVLEKSYPFVGIGTTHV 109
+L A + EPD ++VPR L +V+ SY FVG+G+T +
Sbjct: 13 SLFARTMDFTMEPDSKVIIVPRNYGIRLLEKENVVINNSYAFVGMGSTDI 62
>pdb|2QUY|A Chain A, Truncated Mutant Asn175ala Of Penicillin V Acylase From
Bacillus Sphaericus
pdb|2QUY|B Chain B, Truncated Mutant Asn175ala Of Penicillin V Acylase From
Bacillus Sphaericus
pdb|2QUY|C Chain C, Truncated Mutant Asn175ala Of Penicillin V Acylase From
Bacillus Sphaericus
pdb|2QUY|D Chain D, Truncated Mutant Asn175ala Of Penicillin V Acylase From
Bacillus Sphaericus
pdb|2QUY|E Chain E, Truncated Mutant Asn175ala Of Penicillin V Acylase From
Bacillus Sphaericus
pdb|2QUY|F Chain F, Truncated Mutant Asn175ala Of Penicillin V Acylase From
Bacillus Sphaericus
pdb|2QUY|G Chain G, Truncated Mutant Asn175ala Of Penicillin V Acylase From
Bacillus Sphaericus
pdb|2QUY|H Chain H, Truncated Mutant Asn175ala Of Penicillin V Acylase From
Bacillus Sphaericus
Length = 335
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 6/50 (12%)
Query: 66 TLLADQVSTVGEPDPSYLMVPR------LSYFPLVLEKSYPFVGIGTTHV 109
+L A + EPD ++VPR L +V+ SY FVG+G+T +
Sbjct: 13 SLFARTMDFTMEPDSKVIIVPRNYGIRLLEKENVVINNSYAFVGMGSTDI 62
>pdb|2IWM|A Chain A, Precursor Mutant Cys1ser Of Penicillin V Acylase From
Bacillus Sphaericus
pdb|2IWM|B Chain B, Precursor Mutant Cys1ser Of Penicillin V Acylase From
Bacillus Sphaericus
pdb|2IWM|C Chain C, Precursor Mutant Cys1ser Of Penicillin V Acylase From
Bacillus Sphaericus
pdb|2IWM|D Chain D, Precursor Mutant Cys1ser Of Penicillin V Acylase From
Bacillus Sphaericus
pdb|3MJI|A Chain A, Activation Of Catalytic Cysteine Without A Base In A
Mutant Penicillin Acylase Precursor
pdb|3MJI|B Chain B, Activation Of Catalytic Cysteine Without A Base In A
Mutant Penicillin Acylase Precursor
pdb|3MJI|C Chain C, Activation Of Catalytic Cysteine Without A Base In A
Mutant Penicillin Acylase Precursor
pdb|3MJI|D Chain D, Activation Of Catalytic Cysteine Without A Base In A
Mutant Penicillin Acylase Precursor
Length = 338
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 6/50 (12%)
Query: 66 TLLADQVSTVGEPDPSYLMVPR------LSYFPLVLEKSYPFVGIGTTHV 109
+L A + EPD ++VPR L +V+ SY FVG+G+T +
Sbjct: 16 SLFARTMDFTMEPDSKVIIVPRNYGIRLLEKENVVINNSYAFVGMGSTDI 65
>pdb|2PVA|A Chain A, Oxidized Penicillin V Acylase From B. Sphaericus
pdb|2PVA|B Chain B, Oxidized Penicillin V Acylase From B. Sphaericus
pdb|2PVA|C Chain C, Oxidized Penicillin V Acylase From B. Sphaericus
pdb|2PVA|D Chain D, Oxidized Penicillin V Acylase From B. Sphaericus
Length = 345
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 6/50 (12%)
Query: 66 TLLADQVSTVGEPDPSYLMVPR------LSYFPLVLEKSYPFVGIGTTHV 109
+L A + EPD ++VPR L +V+ SY FVG+G+T +
Sbjct: 13 SLFARTMDFTMEPDSKVIIVPRNYGIRLLEKENVVINNSYAFVGMGSTDI 62
>pdb|1EGA|A Chain A, Crystal Structure Of A Widely Conserved Gtpase Era
pdb|1EGA|B Chain B, Crystal Structure Of A Widely Conserved Gtpase Era
pdb|1X1L|X Chain X, Interaction Of Era,A Gtpase Protein, With The 3'minor
Domain Of The 16s Rrna Within The Thermus Thermophilus
30s Subunit.
pdb|3IEU|A Chain A, Crystal Structure Of Era In Complex With Gdp
pdb|3IEU|B Chain B, Crystal Structure Of Era In Complex With Gdp
Length = 301
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 63/151 (41%), Gaps = 11/151 (7%)
Query: 28 STVGEPDPSYLMVPRYVWILLDREVLREVWDGKLPVCFTLLADQVSTVGEPDPSYLMVPR 87
S++G+ + +V W D VL ++ +GK PV L ++V V E ++P
Sbjct: 84 SSIGDVELVIFVVEGTRWTPDDEMVLNKLREGKAPVI--LAVNKVDNVQEKAD---LLPH 138
Query: 88 LSYFPLVLEKSYPFVGIGTTHVQHCFTSVIHHAIVNKHPARNFFLSRTEALSQSSGRHYP 147
L + L F+ I + AIV KH + ++ S R
Sbjct: 139 LQF----LASQMNFLDIVPISAETGLNVDTIAAIVRKHLPEATHHFPEDYITDRSQRFMA 194
Query: 148 IGLLYD--LHVTDNQLPWNITVHFDKFPANE 176
++ + + +LP+++TV ++F +NE
Sbjct: 195 SEIIREKLMRFLGAELPYSVTVEIERFVSNE 225
>pdb|1X18|X Chain X, Contact Sites Of Era Gtpase On The Thermus Thermophilus
30s Subunit
Length = 292
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 63/151 (41%), Gaps = 11/151 (7%)
Query: 28 STVGEPDPSYLMVPRYVWILLDREVLREVWDGKLPVCFTLLADQVSTVGEPDPSYLMVPR 87
S++G+ + +V W D VL ++ +GK PV L ++V V E ++P
Sbjct: 81 SSIGDVELVIFVVEGTRWTPDDEMVLNKLREGKAPVI--LAVNKVDNVQEKAD---LLPH 135
Query: 88 LSYFPLVLEKSYPFVGIGTTHVQHCFTSVIHHAIVNKHPARNFFLSRTEALSQSSGRHYP 147
L + L F+ I + AIV KH + ++ S R
Sbjct: 136 LQF----LASQMNFLDIVPISAETGLNVDTIAAIVRKHLPEATHHFPEDYITDRSQRFMA 191
Query: 148 IGLLYD--LHVTDNQLPWNITVHFDKFPANE 176
++ + + +LP+++TV ++F +NE
Sbjct: 192 SEIIREKLMRFLGAELPYSVTVEIERFVSNE 222
>pdb|3D2F|B Chain B, Crystal Structure Of A Complex Of Sse1p And Hsp70
pdb|3D2F|D Chain D, Crystal Structure Of A Complex Of Sse1p And Hsp70
Length = 382
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 216 NQLWLGLQNDKFDQFWVINKKLMEPGEGGGFKHIPFRCYQ-GDLPFSQCLVKPITNEGNP 274
NQ+ L QN FD +I +K +P KH PF+ GD P Q K T P
Sbjct: 57 NQVALNPQNTVFDAKRLIGRKFGDPVVQSDMKHWPFQVINDGDKPKVQVSYKGETKAFYP 116
Query: 275 KTLQNL 280
+ + ++
Sbjct: 117 EEISSM 122
>pdb|1S3X|A Chain A, The Crystal Structure Of The Human Hsp70 Atpase Domain
Length = 382
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 216 NQLWLGLQNDKFDQFWVINKKLMEPGEGGGFKHIPFRCYQ-GDLPFSQCLVKPITNEGNP 274
NQ+ L QN FD +I +K +P KH PF+ GD P Q K T P
Sbjct: 57 NQVALNPQNTVFDAKRLIGRKFGDPVVQSDMKHWPFQVINDGDKPKVQVSYKGETKAFYP 116
Query: 275 KTLQNL 280
+ + ++
Sbjct: 117 EEISSM 122
>pdb|2E8A|A Chain A, Crystal Structure Of The Human Hsp70 Atpase Domain In
Complex With Amp-Pnp
Length = 391
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 216 NQLWLGLQNDKFDQFWVINKKLMEPGEGGGFKHIPFRCYQ-GDLPFSQCLVKPITNEGNP 274
NQ+ L QN FD +I +K +P KH PF+ GD P Q K T P
Sbjct: 60 NQVALNPQNTVFDAKRLIGRKFGDPVVQSDMKHWPFQVINDGDKPKVQVSYKGETKAFYP 119
Query: 275 KTLQNL 280
+ + ++
Sbjct: 120 EEISSM 125
>pdb|2E88|A Chain A, Crystal Structure Of The Human Hsp70 Atpase Domain In The
Apo Form
Length = 391
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 216 NQLWLGLQNDKFDQFWVINKKLMEPGEGGGFKHIPFRCYQ-GDLPFSQCLVKPITNEGNP 274
NQ+ L QN FD +I +K +P KH PF+ GD P Q K T P
Sbjct: 60 NQVALNPQNTVFDAKRLIGRKFGDPVVQSDMKHWPFQVINDGDKPKVQVSYKGETKAFYP 119
Query: 275 KTLQNL 280
+ + ++
Sbjct: 120 EEISSM 125
>pdb|1HJO|A Chain A, Atpase Domain Of Human Heat Shock 70kda Protein 1
Length = 380
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 216 NQLWLGLQNDKFDQFWVINKKLMEPGEGGGFKHIPFRCYQ-GDLPFSQCLVKPITNEGNP 274
NQ+ L QN FD +I +K +P KH PF+ GD P Q K T P
Sbjct: 55 NQVALNPQNTVFDAKRLIGRKFGDPVVQSDMKHWPFQVINDGDKPKVQVSYKGETKAFYP 114
Query: 275 KTLQNL 280
+ + ++
Sbjct: 115 EEISSM 120
>pdb|3A8Y|A Chain A, Crystal Structure Of The Complex Between The Bag5 Bd5 And
Hsp70 Nbd
pdb|3A8Y|B Chain B, Crystal Structure Of The Complex Between The Bag5 Bd5 And
Hsp70 Nbd
pdb|3ATU|A Chain A, Crystal Structure Of Human Hsp70 Nbd In The Adp- And Mg
Ion-Bound State
pdb|3ATV|A Chain A, Crystal Structure Of Human Hsp70 Nbd In The Adp-Bound And
Mg Ion-Free State
pdb|3AY9|A Chain A, Crystal Structure Of Human Hsp70 Nbd In The Adp-, Mg Ion-,
And K Ion- Bound State
Length = 392
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 216 NQLWLGLQNDKFDQFWVINKKLMEPGEGGGFKHIPFRCYQ-GDLPFSQCLVKPITNEGNP 274
NQ+ L QN FD +I +K +P KH PF+ GD P Q K T P
Sbjct: 61 NQVALNPQNTVFDAKRLIGRKFGDPVVQSDMKHWPFQVINDGDKPKVQVSYKGETKAFYP 120
Query: 275 KTLQNL 280
+ + ++
Sbjct: 121 EEISSM 126
>pdb|3JXU|A Chain A, Crystal Structure Of The Human 70kda Heat Shock Protein 1a
(Hsp70-1) Atpase Domain In Complex With Adp And
Inorganic Phosphate
Length = 409
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 216 NQLWLGLQNDKFDQFWVINKKLMEPGEGGGFKHIPFRCYQ-GDLPFSQCLVKPITNEGNP 274
NQ+ L QN FD +I +K +P KH PF+ GD P Q K T P
Sbjct: 79 NQVALNPQNTVFDAKRLIGRKFGDPVVQSDMKHWPFQVINDGDKPKVQVSYKGETKAFYP 138
Query: 275 KTLQNL 280
+ + ++
Sbjct: 139 EEISSM 144
>pdb|3D2E|B Chain B, Crystal Structure Of A Complex Of Sse1p And Hsp70,
Selenomethionine- Labeled Crystals
pdb|3D2E|D Chain D, Crystal Structure Of A Complex Of Sse1p And Hsp70,
Selenomethionine- Labeled Crystals
Length = 382
Score = 28.1 bits (61), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 1/65 (1%)
Query: 216 NQLWLGLQNDKFDQFWVINKKLMEPGEGGGFKHIPFRCYQ-GDLPFSQCLVKPITNEGNP 274
NQ+ L QN FD +I +K +P KH PF+ GD P Q K T P
Sbjct: 57 NQVALNPQNTVFDAKRLIGRKFGDPVVQSDXKHWPFQVINDGDKPKVQVSYKGETKAFYP 116
Query: 275 KTLQN 279
+ + +
Sbjct: 117 EEISS 121
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.140 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,938,640
Number of Sequences: 62578
Number of extensions: 462756
Number of successful extensions: 850
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 840
Number of HSP's gapped (non-prelim): 19
length of query: 336
length of database: 14,973,337
effective HSP length: 99
effective length of query: 237
effective length of database: 8,778,115
effective search space: 2080413255
effective search space used: 2080413255
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)