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= 017922
(364 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WLJ|A Chain A, Human Isg20
Length = 189
Score = 72.4 bits (176), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 53/155 (34%), Positives = 85/155 (54%), Gaps = 10/155 (6%)
Query: 8 AVDCEMV-LCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVT 66
A+DCEMV L GL R +V+ + V D+ ++PE + DYR+ ++G+T +VG T
Sbjct: 9 AMDCEMVGLGPHRESGLARCSLVNVHGAVLYDKFIRPEGEITDYRTRVSGVTPQHMVGAT 68
Query: 67 CSLAEIQKRMKKLLSNGTILVGHSLNNDLEVLKLDHP--RVIDTS---LIFK--YVDEYR 119
A + + +LL G ++VGH L +D + LK D + DTS L+++ +D R
Sbjct: 69 -PFAVARLEILQLL-KGKLVVGHDLKHDFQALKEDMSGYTIYDTSTDRLLWREAKLDHCR 126
Query: 120 RPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAMKL 154
R SL L + +L I+ H+ ++DA A M+L
Sbjct: 127 RVSLRVLSERLLHKSIQNSLLGHSSVEDARATMEL 161
>pdb|2P1J|A Chain A, Crystal Structure Of A Polc-Type Dna Polymerase Iii
Exonuclease Domain From Thermotoga Maritima
pdb|2P1J|B Chain B, Crystal Structure Of A Polc-Type Dna Polymerase Iii
Exonuclease Domain From Thermotoga Maritima
Length = 186
Score = 35.4 bits (80), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 33/126 (26%), Positives = 56/126 (44%), Gaps = 7/126 (5%)
Query: 40 LVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSNGTILVGHSLNNDLEVLK 99
L+KP + ++ SEITG+T +++ S+ E+ L + +I+V H+ N D L+
Sbjct: 51 LIKPSREISRKSSEITGITQ-EMLENKRSIEEVLPEFLGFLED-SIIVAHNANFDYRFLR 108
Query: 100 LDHPRVIDTSLIFKYVDEYRRPSLYNLCKSV-LGYEIRKKGTP----HNCLDDASAAMKL 154
L +V+ Y+D +S L + K G H LDDA ++
Sbjct: 109 LWIKKVMGLDWERPYIDTLALAKSLLKLRSYSLDSVVEKLGLGPFRHHRALDDARVTAQV 168
Query: 155 VLAIIE 160
L +E
Sbjct: 169 FLRFVE 174
>pdb|1A9X|A Chain A, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
pdb|1A9X|C Chain C, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
pdb|1A9X|E Chain E, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
pdb|1A9X|G Chain G, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
Length = 1073
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 26/42 (61%), Gaps = 2/42 (4%)
Query: 21 EGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDL 62
+G+ L +DR V I+ELV+ E+ VA+ ITGL AD L
Sbjct: 450 DGVFNLTNIDRWFLVQIEELVRLEEKVAEV--GITGLNADFL 489
>pdb|1CE8|A Chain A, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1CE8|C Chain C, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1CE8|E Chain E, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1CE8|G Chain G, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1M6V|A Chain A, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
pdb|1M6V|C Chain C, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
pdb|1M6V|E Chain E, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
pdb|1M6V|G Chain G, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
Length = 1073
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 26/42 (61%), Gaps = 2/42 (4%)
Query: 21 EGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDL 62
+G+ L +DR V I+ELV+ E+ VA+ ITGL AD L
Sbjct: 450 DGVFNLTNIDRWFLVQIEELVRLEEKVAEV--GITGLNADFL 489
>pdb|1JDB|B Chain B, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1JDB|E Chain E, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1JDB|H Chain H, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1JDB|K Chain K, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1BXR|A Chain A, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1BXR|C Chain C, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1BXR|E Chain E, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1BXR|G Chain G, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1C30|A Chain A, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C30|C Chain C, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C30|E Chain E, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C30|G Chain G, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C3O|A Chain A, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1C3O|C Chain C, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1C3O|E Chain E, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1C3O|G Chain G, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1CS0|A Chain A, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1CS0|C Chain C, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1CS0|E Chain E, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1CS0|G Chain G, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1KEE|A Chain A, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1KEE|C Chain C, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1KEE|E Chain E, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1KEE|G Chain G, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1T36|A Chain A, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
pdb|1T36|C Chain C, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
pdb|1T36|E Chain E, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
pdb|1T36|G Chain G, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
Length = 1073
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 26/42 (61%), Gaps = 2/42 (4%)
Query: 21 EGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDL 62
+G+ L +DR V I+ELV+ E+ VA+ ITGL AD L
Sbjct: 450 DGVFNLTNIDRWFLVQIEELVRLEEKVAEV--GITGLNADFL 489
>pdb|3A0U|A Chain A, Crystal Structure Of Response Regulator Protein Trra
(Tm1360) From Thermotoga Maritima In Complex With
Mg(2+)- Bef (Wild Type)
Length = 116
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 25/36 (69%)
Query: 46 AVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLS 81
A + YRS+++ AD+ V + + E+++++KKLLS
Sbjct: 81 AYSHYRSDLSSWAADEYVVKSFNFDELKEKVKKLLS 116
>pdb|3A0R|B Chain B, Crystal Structure Of Histidine Kinase Thka (Tm1359) In
Complex With Response Regulator Protein Trra (Tm1360)
pdb|3A10|A Chain A, Crystal Structure Of Response Regulator Protein Trra
(Tm1360) From Thermotoga Maritima In Complex With
Mg(2+)- Bef (Semet, L89m)
Length = 116
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 24/36 (66%)
Query: 46 AVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLS 81
A + YRS+ + AD+ V + + E+++++KKLLS
Sbjct: 81 AYSHYRSDXSSWAADEYVVKSFNFDELKEKVKKLLS 116
>pdb|2NO2|A Chain A, Crystal Structure Of The Dllrkn-Containing Coiled-Coil
Domain Of Huntingtin-Interacting Protein 1
Length = 107
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 19/25 (76%)
Query: 308 EKIADTNQCKCEDHLKVIERLKREL 332
E+I+D Q K ++ L+V+E LK+EL
Sbjct: 39 ERISDQGQRKTQEQLEVLESLKQEL 63
>pdb|2FPN|A Chain A, The Crystal Structure Of The Ywmb Protein From Bacillus
Subtilis
Length = 216
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 24/38 (63%), Gaps = 4/38 (10%)
Query: 325 IERLKRELREKDFQISMQDKNISDLKKKVAEMKDQKSR 362
++RLK+E R+ D+ I+ +DK I K + D+K+R
Sbjct: 40 VQRLKQEYRQYDWVIAREDKXI----KAIGTYTDKKNR 73
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 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,226,815
Number of Sequences: 62578
Number of extensions: 416025
Number of successful extensions: 1112
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1105
Number of HSP's gapped (non-prelim): 13
length of query: 364
length of database: 14,973,337
effective HSP length: 100
effective length of query: 264
effective length of database: 8,715,537
effective search space: 2300901768
effective search space used: 2300901768
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: 52 (24.6 bits)