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= 031606
(156 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3H0L|C Chain C, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|F Chain F, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|I Chain I, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|L Chain L, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|O Chain O, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|R Chain R, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|U Chain U, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|X Chain X, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|C Chain C, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|F Chain F, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|I Chain I, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|L Chain L, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|O Chain O, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|R Chain R, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|U Chain U, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|X Chain X, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|C Chain C, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|F Chain F, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|I Chain I, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|L Chain L, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|O Chain O, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|R Chain R, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|U Chain U, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|X Chain X, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
Length = 94
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 32/48 (66%)
Query: 63 VPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPALRA 110
V ++A+ AR+ L E+E F ++ ++D+ QL+++D ++V+P ++
Sbjct: 7 VLKIAKLARLELKEEEIEVFQKQLSDILDFIDQLKELDTENVEPYIQE 54
>pdb|2DF4|C Chain C, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Mn2+
pdb|2DQN|C Chain C, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Asn
pdb|2F2A|C Chain C, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Gln
pdb|2G5H|C Chain C, Structure Of Trna-Dependent Amidotransferase Gatcab
pdb|2G5I|C Chain C, Structure Of Trna-dependent Amidotransferase Gatcab
Complexed With Adp-alf4
pdb|3IP4|C Chain C, The High Resolution Structure Of Gatcab
Length = 100
Score = 34.3 bits (77), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 62 DVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDP 106
+V +A AR+ ++P E EE A + ++D+ Q D + V+P
Sbjct: 8 EVEHIANLARLQISPEETEEMANTLESILDFAKQNDSADTEGVEP 52
>pdb|3AL0|C Chain C, Crystal Structure Of The Glutamine Transamidosome From
Thermotoga Maritima In The Glutamylation State
Length = 592
Score = 28.5 bits (62), Expect = 1.4, Method: Composition-based stats.
Identities = 12/44 (27%), Positives = 24/44 (54%)
Query: 63 VPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDP 106
V L AR+ L+ + E ++++D+ L +VD++ V+P
Sbjct: 10 VLHLENLARLELSEDQRESLMKDFQEILDYVELLNEVDVEGVEP 53
>pdb|3GR1|A Chain A, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|B Chain B, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|C Chain C, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|D Chain D, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|E Chain E, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|F Chain F, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|G Chain G, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|H Chain H, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
Length = 227
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 33/65 (50%)
Query: 71 RISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPALRAGSKREKNTLCYYPRICAGGT 130
R +++ E+E + K+R ++ + + +D V A +A + ++ L Y R GG
Sbjct: 99 RNTMSKKELEVLSQKLRALMPYADSVNITLMDDVTAAGQAEAGLKQQALPYSRRNHKGGV 158
Query: 131 SLIIQ 135
+ +IQ
Sbjct: 159 TFVIQ 163
>pdb|3GR0|A Chain A, Periplasmic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-362)
pdb|3GR0|B Chain B, Periplasmic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-362)
pdb|3GR0|C Chain C, Periplasmic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-362)
pdb|3GR0|D Chain D, Periplasmic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-362)
Length = 197
Score = 27.7 bits (60), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 33/65 (50%)
Query: 71 RISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPALRAGSKREKNTLCYYPRICAGGT 130
R +++ E+E + K+R ++ + + +D V A +A + ++ L Y R GG
Sbjct: 99 RNTMSKKELEVLSQKLRALMPYADSVNITLMDDVTAAGQAEAGLKQQALPYSRRNHKGGV 158
Query: 131 SLIIQ 135
+ +IQ
Sbjct: 159 TFVIQ 163
>pdb|2Y9J|A Chain A, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|B Chain B, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|C Chain C, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|D Chain D, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|E Chain E, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|F Chain F, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|G Chain G, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|H Chain H, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|I Chain I, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|J Chain J, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|K Chain K, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|L Chain L, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|M Chain M, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|N Chain N, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|O Chain O, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|P Chain P, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|Q Chain Q, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|R Chain R, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|S Chain S, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|T Chain T, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|U Chain U, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|V Chain V, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|W Chain W, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|X Chain X, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
Length = 186
Score = 27.3 bits (59), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 33/65 (50%)
Query: 71 RISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPALRAGSKREKNTLCYYPRICAGGT 130
R +++ E+E + K+R ++ + + +D V A +A + ++ L Y R GG
Sbjct: 88 RNTMSKKELEVLSQKLRALMPYADSVNITLMDDVTAAGQAEAGLKQQALPYSRRNHKGGV 147
Query: 131 SLIIQ 135
+ +IQ
Sbjct: 148 TFVIQ 152
>pdb|2BNG|A Chain A, Structure Of An M.Tuberculosis Leh-Like Epoxide Hydrolase
pdb|2BNG|B Chain B, Structure Of An M.Tuberculosis Leh-Like Epoxide Hydrolase
pdb|2BNG|C Chain C, Structure Of An M.Tuberculosis Leh-Like Epoxide Hydrolase
Length = 149
Score = 26.9 bits (58), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 20/39 (51%)
Query: 70 ARISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPAL 108
A ++ T E E IR V + LQ+ D D+VD AL
Sbjct: 2 AELTETSPETPETTEAIRAVEAFLNALQNEDFDTVDAAL 40
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 0.139 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,928,796
Number of Sequences: 62578
Number of extensions: 116356
Number of successful extensions: 227
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 216
Number of HSP's gapped (non-prelim): 11
length of query: 156
length of database: 14,973,337
effective HSP length: 91
effective length of query: 65
effective length of database: 9,278,739
effective search space: 603118035
effective search space used: 603118035
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 47 (22.7 bits)