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= 009875
(523 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2D1G|A Chain A, Structure Of Francisella Tularensis Acid Phosphatase A
(Acpa) Bound To Orthovanadate
pdb|2D1G|B Chain B, Structure Of Francisella Tularensis Acid Phosphatase A
(Acpa) Bound To Orthovanadate
Length = 498
Score = 49.3 bits (116), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 34/128 (26%), Positives = 61/128 (47%), Gaps = 19/128 (14%)
Query: 241 HQYDL-KFKRDARKGNLPSLTVIE-PRYFDLKGFPANDDHPSHDVANGQKLVKEVYETLR 298
HQYD+ +F + + N+P+++ ++ P Y D G +N + Q+ + ++
Sbjct: 319 HQYDISEFWKALDQNNMPAVSYLKAPGYQDGHGGYSN-------PLDEQEWLVNTINRIQ 371
Query: 299 ASPQWNETLLVITYDEHGGFYDHVETPYVNVPNPDGNTGPAPSFFKFDRLGVRVPTIMVS 358
S W+ T ++I YD+ G YDHV +P + G G P R+P +++S
Sbjct: 372 QSKDWDSTAIIIIYDDSDGDYDHVYSPKSQFSDIKGRQGYGP----------RLPMLVIS 421
Query: 359 PWIKKGTV 366
P+ K V
Sbjct: 422 PYAKANYV 429
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 44/166 (26%), Positives = 62/166 (37%), Gaps = 28/166 (16%)
Query: 30 AQAQQQQSPIKTIVVLVMENRSFDHMLGWMKKAIN-------------PRINGVTGNEC- 75
A + +PIK +V++ EN SFD G A N P +NG+T
Sbjct: 25 ANTLKTTTPIKHVVIIFQENNSFDRYFGMYPNAKNPEGEPKFVAKENTPNVNGLTKQLLE 84
Query: 76 NSVSTKTPKSQTICFTDDAEFVDPDPGHSFEAVEQQVFGSGVIPSMSGFVEQA----LSM 131
N+ +TK P + D F H + E F G+ M+ FVE +
Sbjct: 85 NNPNTKNP------YRLDRNFQPCSQNHEYHQ-EISSFNGGL---MNKFVEHGGHDNDTY 134
Query: 132 SPNLSETVMKGFSAEAVPVYAALIREFALYDRWFSSIPGPTQPNRL 177
N VM + V + FAL D F + GP+ P L
Sbjct: 135 KQNCDGQVMGYYDGNTVTALWNYAQNFALNDNTFGTTFGPSTPGAL 180
>pdb|1G59|A Chain A, Glutamyl-Trna Synthetase Complexed With Trna(Glu).
pdb|1G59|C Chain C, Glutamyl-Trna Synthetase Complexed With Trna(Glu).
pdb|1GLN|A Chain A, Architectures Of Class-Defining And Specific Domains Of
Glutamyl-Trna Synthetase
Length = 468
Score = 33.5 bits (75), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 11/62 (17%)
Query: 258 SLTVIEPRYFDLKGFPAN------DDHPSHDVAN-----GQKLVKEVYETLRASPQWNET 306
++ ++ PR+ LK FP +D+P + A G L+KE+Y LRA +W E
Sbjct: 351 AVELMRPRFDTLKEFPEKARYLFTEDYPVSEKAQRKLEEGLPLLKELYPRLRAQEEWTEA 410
Query: 307 LL 308
L
Sbjct: 411 AL 412
>pdb|1J09|A Chain A, Crystal Structure Of Thermus Thermophilus Glutamyl-Trna
Synthetase Complexed With Atp And Glu
pdb|1N75|A Chain A, Crystal Structure Of Thermus Thermophilus Glutamyl-Trna
Synthetase Complexed With Atp.
pdb|1N77|A Chain A, Crystal Structure Of Thermus Thermophilus Glutamyl-Trna
Synthetase Complexed With Trna(Glu) And Atp.
pdb|1N77|B Chain B, Crystal Structure Of Thermus Thermophilus Glutamyl-Trna
Synthetase Complexed With Trna(Glu) And Atp.
pdb|1N78|A Chain A, Crystal Structure Of Thermus Thermophilus Glutamyl-Trna
Synthetase Complexed With Trna(Glu) And Glutamol-Amp.
pdb|1N78|B Chain B, Crystal Structure Of Thermus Thermophilus Glutamyl-Trna
Synthetase Complexed With Trna(Glu) And Glutamol-Amp.
pdb|2CUZ|A Chain A, Glutamyl-Trna Synthetase From Thermus Thermophilus In
Complex With L-Glutamate
pdb|2CV0|A Chain A, Glutamyl-Trna Synthetase From Thermus Thermophilus In
Complex With Trna(Glu) And L-Glutamate
pdb|2CV0|B Chain B, Glutamyl-Trna Synthetase From Thermus Thermophilus In
Complex With Trna(Glu) And L-Glutamate
pdb|2CV1|A Chain A, Glutamyl-Trna Synthetase From Thermus Thermophilus In
Complex With Trna(Glu), Atp, And An Analog Of
L-Glutamate: A Quaternary Complex
pdb|2CV1|B Chain B, Glutamyl-Trna Synthetase From Thermus Thermophilus In
Complex With Trna(Glu), Atp, And An Analog Of
L-Glutamate: A Quaternary Complex
pdb|2CV2|A Chain A, Glutamyl-Trna Synthetase From Thermus Thermophilus In
Complex With Trna(Glu) And An Enzyme Inhibitor, Glu-Ams
pdb|2CV2|B Chain B, Glutamyl-Trna Synthetase From Thermus Thermophilus In
Complex With Trna(Glu) And An Enzyme Inhibitor, Glu-Ams
pdb|2DXI|A Chain A, 2.2 A Crystal Structure Of Glutamyl-Trna Synthetase From
Thermus Thermophilus Complexed With Trna(Glu), Atp, And
L- Glutamol
pdb|2DXI|B Chain B, 2.2 A Crystal Structure Of Glutamyl-Trna Synthetase From
Thermus Thermophilus Complexed With Trna(Glu), Atp, And
L- Glutamol
Length = 468
Score = 33.5 bits (75), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 11/62 (17%)
Query: 258 SLTVIEPRYFDLKGFPAN------DDHPSHDVAN-----GQKLVKEVYETLRASPQWNET 306
++ ++ PR+ LK FP +D+P + A G L+KE+Y LRA +W E
Sbjct: 351 AVELMRPRFDTLKEFPEKARYLFTEDYPVSEKAQRKLEEGLPLLKELYPRLRAQEEWTEA 410
Query: 307 LL 308
L
Sbjct: 411 AL 412
>pdb|3CT4|A Chain A, Structure Of Dha-Kinase Subunit Dhak From L. Lactis
pdb|3CT4|B Chain B, Structure Of Dha-Kinase Subunit Dhak From L. Lactis
pdb|3CT4|C Chain C, Structure Of Dha-Kinase Subunit Dhak From L. Lactis
Length = 332
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/112 (21%), Positives = 49/112 (43%), Gaps = 7/112 (6%)
Query: 85 SQTICFTDDAEFVDPDPGHSFEAVEQQVFGSGVIPSMSGFVEQALS--MSPNLSETVMKG 142
S +C A F P P +EA++ G+GV+ + ++ ++ M+ ++E M+
Sbjct: 72 SAAVC---GAIFTSPTPDQIYEAIKSADEGAGVLLIIKNYLGDVMNFEMAREMAE--MEE 126
Query: 143 FSAEAVPVYAALIREFALYDRWFSSIPGPTQPNRLFVYSATSHGSTSHVKKL 194
E + V + E +LY + + G +++ +A S +K L
Sbjct: 127 IKVEQIIVDDDIAVENSLYTQGRRGVAGTVLVHKILGAAAHQEASLDEIKDL 178
>pdb|3OMB|A Chain A, Crystal Structure Of Extracellular Solute-Binding Protein
From Bifidobacterium Longum Subsp. Infantis
Length = 535
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 4/47 (8%)
Query: 345 FDRLGVRVPTIMVSPWIKKGTVMSGPKGPTPNSEFEHSSIPATIKKM 391
D+LG++VPT W + V+ K PN + IP IKK+
Sbjct: 174 LDKLGLQVPTT----WDELENVLKAFKTQDPNGNGQADEIPXNIKKL 216
>pdb|1PJ5|A Chain A, Crystal Structure Of Dimethylglycine Oxidase Of
Arthrobacter Globiformis In Complex With Acetate
pdb|1PJ6|A Chain A, Crystal Structure Of Dimethylglycine Oxidase Of
Arthrobacter Globiformis In Complex With Folic Acid
pdb|1PJ7|A Chain A, Structure Of Dimethylglycine Oxidase Of Arthrobacter
Globiformis In Complex With Folinic Acid
Length = 830
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 22/47 (46%)
Query: 402 RDAWAGTFEEVVGQLTSPRTDCPETLPDVAPLRKTEAKEDGGLSEFQ 448
RDAW+G F + + +T + D+ PL++ E G L Q
Sbjct: 477 RDAWSGMFSSPIAAAEAWKTRTAVAMYDMTPLKRLEVSGPGALKLLQ 523
>pdb|3GSI|A Chain A, Crystal Structure Of D552a Dimethylglycine Oxidase Mutant
Of Arthrobacter Globiformis In Complex With
Tetrahydrofolate
Length = 827
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 22/47 (46%)
Query: 402 RDAWAGTFEEVVGQLTSPRTDCPETLPDVAPLRKTEAKEDGGLSEFQ 448
RDAW+G F + + +T + D+ PL++ E G L Q
Sbjct: 474 RDAWSGMFSSPIAAAEAWKTRTAVAMYDMTPLKRLEVSGPGALKLLQ 520
>pdb|2GON|A Chain A, Xray Structure Of Gag133-278
pdb|2GON|B Chain B, Xray Structure Of Gag133-278
pdb|2GON|C Chain C, Xray Structure Of Gag133-278
pdb|2GON|D Chain D, Xray Structure Of Gag133-278
Length = 146
Score = 30.0 bits (66), Expect = 3.3, Method: Composition-based stats.
Identities = 19/71 (26%), Positives = 28/71 (39%)
Query: 106 EAVEQQVFGSGVIPSMSGFVEQALSMSPNLSETVMKGFSAEAVPVYAALIREFALYDRWF 165
+ VE++ F VIP S E A N + G A + + E A +DR
Sbjct: 25 KVVEEKAFSPEVIPXFSALSEGATPQDLNTXLNTVGGHQAAXQXLKETINEEAAEWDRLH 84
Query: 166 SSIPGPTQPNR 176
GP +P +
Sbjct: 85 PVHAGPIEPGQ 95
>pdb|2PWM|A Chain A, Crystal Structure Of Hiv-1 Ca146 A92e Real Cell
pdb|2PWM|B Chain B, Crystal Structure Of Hiv-1 Ca146 A92e Real Cell
pdb|2PWM|C Chain C, Crystal Structure Of Hiv-1 Ca146 A92e Real Cell
pdb|2PWM|D Chain D, Crystal Structure Of Hiv-1 Ca146 A92e Real Cell
pdb|2PWM|E Chain E, Crystal Structure Of Hiv-1 Ca146 A92e Real Cell
pdb|2PWM|F Chain F, Crystal Structure Of Hiv-1 Ca146 A92e Real Cell
pdb|2PWM|G Chain G, Crystal Structure Of Hiv-1 Ca146 A92e Real Cell
pdb|2PWM|H Chain H, Crystal Structure Of Hiv-1 Ca146 A92e Real Cell
pdb|2PWO|A Chain A, Crystal Structure Of Hiv-1 Ca146 A92e Psuedo Cell
pdb|2PWO|B Chain B, Crystal Structure Of Hiv-1 Ca146 A92e Psuedo Cell
pdb|2PWO|C Chain C, Crystal Structure Of Hiv-1 Ca146 A92e Psuedo Cell
pdb|2PWO|D Chain D, Crystal Structure Of Hiv-1 Ca146 A92e Psuedo Cell
Length = 146
Score = 29.3 bits (64), Expect = 5.1, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 29/72 (40%)
Query: 106 EAVEQQVFGSGVIPSMSGFVEQALSMSPNLSETVMKGFSAEAVPVYAALIREFALYDRWF 165
+ VE++ F VIP S E A N + G A + + E A +DR
Sbjct: 25 KVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLH 84
Query: 166 SSIPGPTQPNRL 177
GP +P ++
Sbjct: 85 PVHAGPIEPGQM 96
>pdb|1UT9|A Chain A, Structural Basis For The Exocellulase Activity Of The
Cellobiohydrolase Cbha From C. Thermocellum
Length = 609
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 375 PNSEFEHSSIPATIKKMFNLSSNFLTHRDAWA 406
PNS FE +I A +KK F+ H D+W+
Sbjct: 554 PNSRFEDPTINAAVKKDTPPQKCFIDHTDSWS 585
>pdb|1RQ5|A Chain A, Structural Basis For The Exocellulase Activity Of The
Cellobiohydrolase Cbha From C. Thermocellum
Length = 610
Score = 29.3 bits (64), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 375 PNSEFEHSSIPATIKKMFNLSSNFLTHRDAWA 406
PNS FE +I A +KK F+ H D+W
Sbjct: 554 PNSRFEDPTINAAVKKDTPPQKCFIDHTDSWG 585
>pdb|1M9E|C Chain C, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a Complex.
pdb|1M9E|D Chain D, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a Complex
Length = 146
Score = 29.3 bits (64), Expect = 5.9, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 28/72 (38%)
Query: 106 EAVEQQVFGSGVIPSMSGFVEQALSMSPNLSETVMKGFSAEAVPVYAALIREFALYDRWF 165
+ VE++ F VIP S E A N + G A + + E A +DR
Sbjct: 25 KVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLH 84
Query: 166 SSIPGPTQPNRL 177
GP P ++
Sbjct: 85 PVAAGPIAPGQM 96
>pdb|2HRU|A Chain A, T. Maritima Purl Complexed With Adp
pdb|2HRY|A Chain A, T. Maritima Purl Complexed With Amppcp
Length = 603
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 3/59 (5%)
Query: 162 DRWFS---SIPGPTQPNRLFVYSATSHGSTSHVKKLLAQGYPQKTIFDSLHENGIDFGI 217
D ++S I P+ + Y+ + G ++ +LA G IFDSLH + I GI
Sbjct: 60 DDYYSVAFKIESANHPSAIEPYNGAATGVGGIIRDVLAMGARPTAIFDSLHMSRIIDGI 118
>pdb|3O0Y|A Chain A, The Crystal Structure Of The Putative Lipoprotein From
Colwellia Psychrerythraea
pdb|3O0Y|B Chain B, The Crystal Structure Of The Putative Lipoprotein From
Colwellia Psychrerythraea
pdb|3O0Y|C Chain C, The Crystal Structure Of The Putative Lipoprotein From
Colwellia Psychrerythraea
Length = 609
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 26/110 (23%), Positives = 47/110 (42%), Gaps = 3/110 (2%)
Query: 381 HSSIPATIKKMFNLSSNF-LTHRDAWAGTFEEVVGQLTSPRTDCPETLPDVAPLRKTEAK 439
+ + A + + F NF + + D W G +V Q+ P D P + + P+ T K
Sbjct: 105 NQQVMAGLTRYFAGEPNFNIGYIDTWMGLSPFIVNQINGPLIDIPRVMQNDQPI--TTEK 162
Query: 440 EDGGLSEFQSEVVQLAAVLNGDHFLSSFPDEMGKKMTVKEAHEYAKGAVS 489
E + +LAA + + + + K+T++ A +Y KG S
Sbjct: 163 EALDYIVRLGQFDKLAATIIEKQTADAAQNWLPSKVTLQGAIKYLKGFTS 212
>pdb|1M9F|C Chain C, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m Complex.
pdb|1M9F|D Chain D, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m Complex
Length = 146
Score = 28.5 bits (62), Expect = 9.1, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 28/72 (38%)
Query: 106 EAVEQQVFGSGVIPSMSGFVEQALSMSPNLSETVMKGFSAEAVPVYAALIREFALYDRWF 165
+ VE++ F VIP S E A N + G A + + E A +DR
Sbjct: 25 KVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLH 84
Query: 166 SSIPGPTQPNRL 177
GP P ++
Sbjct: 85 PVAMGPIAPGQM 96
>pdb|1AK4|C Chain C, Human Cyclophilin A Bound To The Amino-Terminal Domain Of
Hiv-1 Capsid
pdb|1AK4|D Chain D, Human Cyclophilin A Bound To The Amino-Terminal Domain Of
Hiv-1 Capsid
Length = 145
Score = 28.5 bits (62), Expect = 9.6, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 28/72 (38%)
Query: 106 EAVEQQVFGSGVIPSMSGFVEQALSMSPNLSETVMKGFSAEAVPVYAALIREFALYDRWF 165
+ VE++ F VIP S E A N + G A + + E A +DR
Sbjct: 25 KVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLH 84
Query: 166 SSIPGPTQPNRL 177
GP P ++
Sbjct: 85 PVHAGPIAPGQM 96
>pdb|2X2D|D Chain D, Acetyl-Cypa:hiv-1 N-Term Capsid Domain Complex
pdb|2X2D|E Chain E, Acetyl-Cypa:hiv-1 N-Term Capsid Domain Complex
Length = 147
Score = 28.5 bits (62), Expect = 9.7, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 28/72 (38%)
Query: 106 EAVEQQVFGSGVIPSMSGFVEQALSMSPNLSETVMKGFSAEAVPVYAALIREFALYDRWF 165
+ VE++ F VIP S E A N + G A + + E A +DR
Sbjct: 26 KVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLH 85
Query: 166 SSIPGPTQPNRL 177
GP P ++
Sbjct: 86 PVHAGPIAPGQM 97
>pdb|2JPR|A Chain A, Joint Refinement Of The Hiv-1 Ca-Ntd In Complex With The
Assembly Inhibitor Cap-1
Length = 145
Score = 28.5 bits (62), Expect = 9.7, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 28/72 (38%)
Query: 106 EAVEQQVFGSGVIPSMSGFVEQALSMSPNLSETVMKGFSAEAVPVYAALIREFALYDRWF 165
+ VE++ F VIP S E A N + G A + + E A +DR
Sbjct: 25 KVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLH 84
Query: 166 SSIPGPTQPNRL 177
GP P ++
Sbjct: 85 PVHAGPIAPGQM 96
>pdb|4ARG|A Chain A, Structure Of The Immature Retroviral Capsid At 8a
Resolution By Cryo-Electron Microscopy
pdb|4ARG|C Chain C, Structure Of The Immature Retroviral Capsid At 8a
Resolution By Cryo-Electron Microscopy
Length = 129
Score = 28.5 bits (62), Expect = 10.0, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 28/72 (38%)
Query: 106 EAVEQQVFGSGVIPSMSGFVEQALSMSPNLSETVMKGFSAEAVPVYAALIREFALYDRWF 165
+ VE++ F VIP S E A N + G A + + E A +DR
Sbjct: 9 KVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLH 68
Query: 166 SSIPGPTQPNRL 177
GP P ++
Sbjct: 69 PVHAGPIAPGQM 80
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
0.318 0.134 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,153,831
Number of Sequences: 62578
Number of extensions: 705427
Number of successful extensions: 1474
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1428
Number of HSP's gapped (non-prelim): 32
length of query: 523
length of database: 14,973,337
effective HSP length: 103
effective length of query: 420
effective length of database: 8,527,803
effective search space: 3581677260
effective search space used: 3581677260
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)