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= 046034
(64 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WFZ|A Chain A, Solution Structure Of Iron-Sulfur Cluster Protein U (Iscu)
Length = 130
Score = 57.0 bits (136), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 26/34 (76%), Positives = 29/34 (85%)
Query: 13 EIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKH 46
+IAK L LPPVKLHCSMLAEDAIKAA+ DY+ K
Sbjct: 88 DIAKELCLPPVKLHCSMLAEDAIKAALADYKLKQ 121
>pdb|1Q48|A Chain A, Solution Nmr Structure Of The Haemophilus Influenzae Iron-
Sulfur Cluster Assembly Protein U (Iscu) With Zinc Bound
At The Active Site. Northeast Structural Genomics
Consortium Target Ir24. This Protein Is Not Apo, It Is A
Model Without Zinc Binding Constraints.
pdb|1R9P|A Chain A, Solution Nmr Structure Of The Haemophilus Influenzae Iron-
Sulfur Cluster Assembly Protein U (Iscu) With Zinc Bound
At The Active Site. Northeast Structural Genomics
Consortium Target Ir24
Length = 134
Score = 55.5 bits (132), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 24/34 (70%), Positives = 30/34 (88%)
Query: 13 EIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKH 46
+IA+ L LPPVK+HCS+LAEDAIKAA+ DY+AK
Sbjct: 92 QIAEELELPPVKVHCSILAEDAIKAAIADYKAKQ 125
>pdb|3LVL|A Chain A, Crystal Structure Of E.Coli Iscs-Iscu Complex
Length = 129
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 23/34 (67%), Positives = 30/34 (88%)
Query: 13 EIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKH 46
+IA+ L LPPVK+HCS+LAEDAIKAA+ DY++K
Sbjct: 93 DIAEELELPPVKIHCSILAEDAIKAAIADYKSKR 126
>pdb|2L4X|A Chain A, Solution Structure Of Apo-Iscu(Wt)
Length = 128
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 23/34 (67%), Positives = 30/34 (88%)
Query: 13 EIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKH 46
+IA+ L LPPVK+HCS+LAEDAIKAA+ DY++K
Sbjct: 92 DIAEELELPPVKIHCSILAEDAIKAAIADYKSKR 125
>pdb|2KQK|A Chain A, Solution Structure Of Apo-Iscu(D39a)
Length = 128
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 23/34 (67%), Positives = 30/34 (88%)
Query: 13 EIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKH 46
+IA+ L LPPVK+HCS+LAEDAIKAA+ DY++K
Sbjct: 92 DIAEELELPPVKIHCSILAEDAIKAAIADYKSKR 125
>pdb|4EB5|C Chain C, A. Fulgidus Iscs-Iscu Complex Structure
pdb|4EB5|D Chain D, A. Fulgidus Iscs-Iscu Complex Structure
pdb|4EB7|C Chain C, A. Fulgidus Iscs-Iscu Complex Structure
Length = 153
Score = 32.3 bits (72), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 19 SLPPVKLHCSMLAEDAIKAAVKDYEAKH 46
LP K+HCS LA DA++ A+ DY K+
Sbjct: 94 GLPKQKMHCSNLAADALRRAIVDYFRKN 121
>pdb|2Z7E|A Chain A, Crystal Structure Of Aquifex Aeolicus Iscu With Bound
[2fe- 2s] Cluster
pdb|2Z7E|B Chain B, Crystal Structure Of Aquifex Aeolicus Iscu With Bound
[2fe- 2s] Cluster
pdb|2Z7E|C Chain C, Crystal Structure Of Aquifex Aeolicus Iscu With Bound
[2fe- 2s] Cluster
Length = 157
Score = 32.3 bits (72), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 12 KEIAKHLS-LPPVKLHCSMLAEDAIKAAVKDYEAKH 46
K+I + L LPP K+HC+ L + + A+KDY K
Sbjct: 91 KDIFEELGGLPPQKIHCTNLGLETLHVAIKDYLMKQ 126
>pdb|2GV9|A Chain A, Crystal Structure Of The Herpes Simplex Virus Type 1 Dna
Polymerase
pdb|2GV9|B Chain B, Crystal Structure Of The Herpes Simplex Virus Type 1 Dna
Polymerase
Length = 1193
Score = 25.8 bits (55), Expect = 6.8, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 7 LSGLSKEIAKHLS----LPPVKLHCSMLAEDAIKAAVKDY 42
L+ + ++A H+S LPP+KL C + A K Y
Sbjct: 860 LTAMGDKMASHISRALFLPPIKLECEKTFTKLLLIAKKKY 899
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
0.315 0.127 0.351
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,181,519
Number of Sequences: 62578
Number of extensions: 24503
Number of successful extensions: 66
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 58
Number of HSP's gapped (non-prelim): 8
length of query: 64
length of database: 14,973,337
effective HSP length: 35
effective length of query: 29
effective length of database: 12,783,107
effective search space: 370710103
effective search space used: 370710103
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: 45 (21.9 bits)