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= psy16319
(246 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3AFH|A Chain A, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With A Glutamyl-Amp
Analog
Length = 488
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 28/50 (56%)
Query: 184 EVGDPLALRFEILDPNSPYEIFVRELVAMDGVDSSEIVLIDSNGCPTDHF 233
E G P+ ++F++L + +E ++ + D + +++ SNG PT +F
Sbjct: 152 EKGHPVTIKFKVLPGKTSFEDLLKGYMEFDNSTLEDFIIMKSNGFPTYNF 201
>pdb|3AKZ|B Chain B, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With Trnagln And A
Glutamyl-Amp Analog
pdb|3AKZ|D Chain D, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With Trnagln And A
Glutamyl-Amp Analog
pdb|3AKZ|C Chain C, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With Trnagln And A
Glutamyl-Amp Analog
pdb|3AKZ|A Chain A, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With Trnagln And A
Glutamyl-Amp Analog
Length = 487
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 28/50 (56%)
Query: 184 EVGDPLALRFEILDPNSPYEIFVRELVAMDGVDSSEIVLIDSNGCPTDHF 233
E G P+ ++F++L + +E ++ + D + +++ SNG PT +F
Sbjct: 151 EKGHPVTIKFKVLPGKTSFEDLLKGYMEFDNSTLEDFIIMKSNGFPTYNF 200
>pdb|3AL0|C Chain C, Crystal Structure Of The Glutamine Transamidosome From
Thermotoga Maritima In The Glutamylation State
Length = 592
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 28/50 (56%)
Query: 184 EVGDPLALRFEILDPNSPYEIFVRELVAMDGVDSSEIVLIDSNGCPTDHF 233
E G P+ ++F++L + +E ++ + D + +++ SNG PT +F
Sbjct: 256 EKGHPVTIKFKVLPGKTSFEDLLKGYMEFDNSTLEDFIIMKSNGFPTYNF 305
>pdb|1VG1|A Chain A, Gdp-bound Rab7
pdb|1VG9|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
pdb|1VG9|D Chain D, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
pdb|1VG9|F Chain F, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
pdb|1VG9|H Chain H, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
Length = 185
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 41/90 (45%), Gaps = 13/90 (14%)
Query: 119 IITSSDLGLAVTC---QYDLTNKTVSNEVDLGVQGDVKSALTEEVVVDSPNVAMKITDRS 175
+I D G+ T QY NK SN+ + D LT+EV+VD V M+I D +
Sbjct: 11 VIILGDSGVGKTSLMNQY--VNKKFSNQYKATIGADF---LTKEVMVDDRLVTMQIWDTA 65
Query: 176 GADVKPSAEV-----GDPLALRFEILDPNS 200
G + S V D L F++ PN+
Sbjct: 66 GQERFQSLGVAFYRGADCCVLVFDVTAPNT 95
>pdb|3NK3|A Chain A, Crystal Structure Of Full-Length Sperm Receptor Zp3 At 2.6
A Resolution
pdb|3NK3|B Chain B, Crystal Structure Of Full-Length Sperm Receptor Zp3 At 2.6
A Resolution
pdb|3NK4|A Chain A, Crystal Structure Of Full-Length Sperm Receptor Zp3 At 2.0
A Resolution
pdb|3NK4|B Chain B, Crystal Structure Of Full-Length Sperm Receptor Zp3 At 2.0
A Resolution
Length = 297
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 53/120 (44%), Gaps = 12/120 (10%)
Query: 119 IITSSDLGLAVTCQYDLTNKTVSNEVDLGVQGDVKSALT-EEVVVDSPNVAMKITDRSGA 177
II ++ + + C Y + SN + SAL+ EE +V S +++ +
Sbjct: 90 IIRTNPAVIPIECHYPRREQVSSNAIR-PTWSPFNSALSAEERLVFS----LRLMSDDWS 144
Query: 178 DVKPSA--EVGDPLALRFEILDPNS-PYEIFVRELVAM---DGVDSSEIVLIDSNGCPTD 231
+P ++GD L ++ E+ N P +FV VA DG S +ID NGC D
Sbjct: 145 TERPFTGFQLGDILNIQAEVSTENHVPLRLFVDSCVAALSPDGDSSPHYAIIDFNGCLVD 204
>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7
pdb|3LAW|B Chain B, Structure Of Gtp-Bound L129f Mutant Rab7
pdb|3LAW|C Chain C, Structure Of Gtp-Bound L129f Mutant Rab7
pdb|3LAW|D Chain D, Structure Of Gtp-Bound L129f Mutant Rab7
pdb|3LAW|E Chain E, Structure Of Gtp-Bound L129f Mutant Rab7
Length = 207
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 41/90 (45%), Gaps = 13/90 (14%)
Query: 119 IITSSDLGLAVTC---QYDLTNKTVSNEVDLGVQGDVKSALTEEVVVDSPNVAMKITDRS 175
+I D G+ T QY NK SN+ + D LT+EV+VD V M+I D +
Sbjct: 11 VIILGDSGVGKTSLMNQY--VNKKFSNQYKATIGADF---LTKEVMVDDRLVTMQIWDTA 65
Query: 176 GADVKPSAEV-----GDPLALRFEILDPNS 200
G + S V D L F++ PN+
Sbjct: 66 GQERFQSLGVAFYRGADCCVLVFDVTAPNT 95
>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex
With Monoprenylated Rab7 Protein
pdb|1VG8|A Chain A, Gppnhp-Bound Rab7
pdb|1VG8|B Chain B, Gppnhp-Bound Rab7
pdb|1VG8|C Chain C, Gppnhp-Bound Rab7
pdb|1VG8|D Chain D, Gppnhp-Bound Rab7
Length = 207
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 41/90 (45%), Gaps = 13/90 (14%)
Query: 119 IITSSDLGLAVTC---QYDLTNKTVSNEVDLGVQGDVKSALTEEVVVDSPNVAMKITDRS 175
+I D G+ T QY NK SN+ + D LT+EV+VD V M+I D +
Sbjct: 11 VIILGDSGVGKTSLMNQY--VNKKFSNQYKATIGADF---LTKEVMVDDRLVTMQIWDTA 65
Query: 176 GADVKPSAEV-----GDPLALRFEILDPNS 200
G + S V D L F++ PN+
Sbjct: 66 GQERFQSLGVAFYRGADCCVLVFDVTAPNT 95
>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp)
pdb|1T91|B Chain B, Crystal Structure Of Human Small Gtpase Rab7(Gtp)
pdb|1T91|C Chain C, Crystal Structure Of Human Small Gtpase Rab7(Gtp)
pdb|1T91|D Chain D, Crystal Structure Of Human Small Gtpase Rab7(Gtp)
pdb|1YHN|A Chain A, Structure Basis Of Rilp Recruitment By Rab7
Length = 207
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 41/90 (45%), Gaps = 13/90 (14%)
Query: 119 IITSSDLGLAVTC---QYDLTNKTVSNEVDLGVQGDVKSALTEEVVVDSPNVAMKITDRS 175
+I D G+ T QY NK SN+ + D LT+EV+VD V M+I D +
Sbjct: 11 VIILGDSGVGKTSLMNQY--VNKKFSNQYKATIGADF---LTKEVMVDDRLVTMQIWDTA 65
Query: 176 GADVKPSAEV-----GDPLALRFEILDPNS 200
G + S V D L F++ PN+
Sbjct: 66 GLERFQSLGVAFYRGADCCVLVFDVTAPNT 95
>pdb|1YQ3|D Chain D, Avian Respiratory Complex Ii With Oxaloacetate And
Ubiquinone
pdb|1YQ4|D Chain D, Avian Respiratory Complex Ii With 3-Nitropropionate And
Ubiquinone
pdb|2FBW|D Chain D, Avian Respiratory Complex Ii With Carboxin Bound
pdb|2FBW|Q Chain Q, Avian Respiratory Complex Ii With Carboxin Bound
pdb|2H88|D Chain D, Avian Mitochondrial Respiratory Complex Ii At 1.8 Angstrom
Resolution
pdb|2H88|Q Chain Q, Avian Mitochondrial Respiratory Complex Ii At 1.8 Angstrom
Resolution
pdb|2H89|D Chain D, Avian Respiratory Complex Ii With Malonate Bound
pdb|2WQY|D Chain D, Remodelling Of Carboxin Binding To The Q-Site Of Avian
Respiratory Complex Ii
pdb|2WQY|Q Chain Q, Remodelling Of Carboxin Binding To The Q-Site Of Avian
Respiratory Complex Ii
Length = 103
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 101 HQGLGRYMNDVVIQHHDTIITSSDLGLAVTCQYDLTNKTVSNEVDLGV 148
H GLG+ + D V H DT I ++ GL V T N D+G+
Sbjct: 48 HWGLGQVITDYV--HGDTPIKVANTGLYVLSAITFTGLCYFNYYDVGI 93
>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 = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 182 SAEVGDPLALRFEILDPNSPYEIF--VRELVAMDGVDSSEIVLIDSNGCPTDHF 233
A G+P +R ++ P + E+ +R +V D + ++VL+ S+G PT H
Sbjct: 137 RARRGEPHVIRLKVPRPGT-TEVKDELRGVVVYDNQEIPDVVLLKSDGYPTYHL 189
>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 = 27.3 bits (59), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 182 SAEVGDPLALRFEILDPNSPYEIF--VRELVAMDGVDSSEIVLIDSNGCPTDHF 233
A G+P +R ++ P + E+ +R +V D + ++VL+ S+G PT H
Sbjct: 137 RARRGEPHVIRLKVPRPGT-TEVKDELRGVVVYDNQEIPDVVLLKSDGYPTYHL 189
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
0.317 0.134 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,170,519
Number of Sequences: 62578
Number of extensions: 290528
Number of successful extensions: 583
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 580
Number of HSP's gapped (non-prelim): 13
length of query: 246
length of database: 14,973,337
effective HSP length: 96
effective length of query: 150
effective length of database: 8,965,849
effective search space: 1344877350
effective search space used: 1344877350
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)