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= 007851
(587 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XF9|A Chain A, Structure Of Nbd1 From Murine Cftr- F508s Mutant
pdb|1XF9|B Chain B, Structure Of Nbd1 From Murine Cftr- F508s Mutant
pdb|1XF9|C Chain C, Structure Of Nbd1 From Murine Cftr- F508s Mutant
pdb|1XF9|D Chain D, Structure Of Nbd1 From Murine Cftr- F508s Mutant
Length = 283
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 3/37 (8%)
Query: 179 LYLYGNVGSGKTMLMDMFYG---ATEGIVKHRQRFHF 212
L + G+ GSGKT L+ + G A+EGI+KH R F
Sbjct: 67 LAITGSTGSGKTSLLMLILGELEASEGIIKHSGRVSF 103
>pdb|3SI7|A Chain A, The Crystal Structure Of The Nbd1 Domain Of The Mouse Cftr
Protein, Deltaf508 Mutant
pdb|3SI7|B Chain B, The Crystal Structure Of The Nbd1 Domain Of The Mouse Cftr
Protein, Deltaf508 Mutant
pdb|3SI7|C Chain C, The Crystal Structure Of The Nbd1 Domain Of The Mouse Cftr
Protein, Deltaf508 Mutant
pdb|3SI7|D Chain D, The Crystal Structure Of The Nbd1 Domain Of The Mouse Cftr
Protein, Deltaf508 Mutant
Length = 285
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 3/37 (8%)
Query: 179 LYLYGNVGSGKTMLMDMFYG---ATEGIVKHRQRFHF 212
L + G+ GSGKT L+ + G A+EGI+KH R F
Sbjct: 67 LAITGSTGSGKTSLLMLILGELEASEGIIKHSGRVSF 103
>pdb|1XFA|A Chain A, Structure Of Nbd1 From Murine Cftr- F508r Mutant
pdb|1XFA|B Chain B, Structure Of Nbd1 From Murine Cftr- F508r Mutant
Length = 283
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 3/37 (8%)
Query: 179 LYLYGNVGSGKTMLMDMFYG---ATEGIVKHRQRFHF 212
L + G+ GSGKT L+ + G A+EGI+KH R F
Sbjct: 67 LAITGSTGSGKTSLLMLILGELEASEGIIKHSGRVSF 103
>pdb|1Q3H|A Chain A, Mouse Cftr Nbd1 With Amp.Pnp
pdb|1Q3H|B Chain B, Mouse Cftr Nbd1 With Amp.Pnp
pdb|1Q3H|C Chain C, Mouse Cftr Nbd1 With Amp.Pnp
pdb|1Q3H|D Chain D, Mouse Cftr Nbd1 With Amp.Pnp
pdb|1R0W|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) Apo
pdb|1R0W|B Chain B, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) Apo
pdb|1R0W|C Chain C, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) Apo
pdb|1R0W|D Chain D, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) Apo
pdb|1R0X|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp
pdb|1R0X|B Chain B, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp
pdb|1R0X|C Chain C, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp
pdb|1R0X|D Chain D, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp
pdb|1R0Y|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Adp
pdb|1R0Y|B Chain B, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Adp
pdb|1R0Y|C Chain C, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Adp
pdb|1R0Y|D Chain D, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Adp
pdb|1R10|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp, I4122
Space Group
pdb|1R10|B Chain B, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp, I4122
Space Group
Length = 286
Score = 33.5 bits (75), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 3/37 (8%)
Query: 179 LYLYGNVGSGKTMLMDMFYG---ATEGIVKHRQRFHF 212
L + G+ GSGKT L+ + G A+EGI+KH R F
Sbjct: 67 LAITGSTGSGKTSLLMLILGELEASEGIIKHSGRVSF 103
>pdb|1R0Z|A Chain A, Phosphorylated Cystic Fibrosis Transmembrane Conductance
Regulator (Cftr) Nucleotide-Binding Domain One (Nbd1)
With Atp
pdb|1R0Z|B Chain B, Phosphorylated Cystic Fibrosis Transmembrane Conductance
Regulator (Cftr) Nucleotide-Binding Domain One (Nbd1)
With Atp
pdb|1R0Z|C Chain C, Phosphorylated Cystic Fibrosis Transmembrane Conductance
Regulator (Cftr) Nucleotide-Binding Domain One (Nbd1)
With Atp
pdb|1R0Z|D Chain D, Phosphorylated Cystic Fibrosis Transmembrane Conductance
Regulator (Cftr) Nucleotide-Binding Domain One (Nbd1)
With Atp
Length = 286
Score = 33.5 bits (75), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 3/37 (8%)
Query: 179 LYLYGNVGSGKTMLMDMFYG---ATEGIVKHRQRFHF 212
L + G+ GSGKT L+ + G A+EGI+KH R F
Sbjct: 67 LAITGSTGSGKTSLLMLILGELEASEGIIKHSGRVSF 103
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 176 PKGLYLYGNVGSGKTMLMDMFYGATEG 202
P+G+ LYG G+GKTML+ +T+
Sbjct: 206 PRGVLLYGPPGTGKTMLVKAVANSTKA 232
>pdb|1L6J|A Chain A, Crystal Structure Of Human Matrix Metalloproteinase Mmp9
(gelatinase B)
Length = 425
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 77 LGRLEQYEKDMEEYHVNLANWEKNRENERRSLLIREAESKQQGDLWTSVN 126
LGR + +E D++ +H N+ W +N + +I +A ++ LW++V
Sbjct: 85 LGRFQTFEGDLKWHHHNITYWIQNYSEDLPRAVIDDAFARAFA-LWSAVT 133
>pdb|2QGZ|A Chain A, Crystal Structure Of A Putative Primosome Component From
Streptococcus Pyogenes Serotype M3. Northeast Structural
Genomics Target Dr58
Length = 308
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 20/29 (68%), Gaps = 2/29 (6%)
Query: 165 LVGRCPTAPPAPKGLYLYGNVGSGKTMLM 193
V + P+A KGLYLYG++G GK+ L+
Sbjct: 143 FVEQYPSAEQ--KGLYLYGDMGIGKSYLL 169
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
0.321 0.136 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,528,290
Number of Sequences: 62578
Number of extensions: 727866
Number of successful extensions: 1772
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1771
Number of HSP's gapped (non-prelim): 9
length of query: 587
length of database: 14,973,337
effective HSP length: 104
effective length of query: 483
effective length of database: 8,465,225
effective search space: 4088703675
effective search space used: 4088703675
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)