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= 001709
(1022 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1TIA|A Chain A, An Unusual Buried Polar Cluster In A Family Of Fungal
Lipases
Length = 279
Score = 37.4 bits (85), Expect = 0.047, Method: Composition-based stats.
Identities = 27/94 (28%), Positives = 39/94 (41%), Gaps = 11/94 (11%)
Query: 226 LAQKKKRKLVLCGHSLGGXXXXXXXXXXXXXXXXSSSLKENDKVQVKCITFSQPPVGNAA 285
+AQ +LV+ GHSLG ++ L+ K ++ P VGNAA
Sbjct: 131 VAQNPNYELVVVGHSLGAAVATLA----------ATDLRGKGYPSAKLYAYASPRVGNAA 180
Query: 286 LRDYVNRKGWQHYFKSYCIPEDLVPRILSPAYFH 319
L Y+ +G F P +P +LS Y H
Sbjct: 181 LAKYITAQGNNFRFTHTNDPVPKLP-LLSMGYVH 213
>pdb|1XMJ|A Chain A, Crystal Structure Of Human Deltaf508 Human Nbd1 Domain
With Atp
Length = 290
Score = 32.7 bits (73), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 3/37 (8%)
Query: 712 TTVFKEVHFRTRRVRLL---GLEGAGKTSLFKAILGQ 745
T V K+++F+ R +LL G GAGKTSL I+G+
Sbjct: 51 TPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGE 87
>pdb|1MKY|A Chain A, Structural Analysis Of The Domain Interactions In Der, A
Switch Protein Containing Two Gtpase Domains
Length = 439
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 26/105 (24%), Positives = 50/105 (47%), Gaps = 2/105 (1%)
Query: 724 RVRLLGLEGAGKTSLFKAILGQGKLVRTINSGNLDAEADDQEGIAG-GLCYCDSAGVNLQ 782
+V ++G GK++LF AIL + + + + G DD+ I G + D+AG+ +
Sbjct: 182 KVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLR-R 240
Query: 783 ELTMEAARFKDEMWMGIRDLSRKTDLIVLVHNLSHKIPRYNYSSA 827
+ +E + + D K D++V+V + + I R + A
Sbjct: 241 KSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRXA 285
>pdb|2BBO|A Chain A, Human Nbd1 With Phe508
Length = 291
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 3/37 (8%)
Query: 712 TTVFKEVHFRTRRVRLL---GLEGAGKTSLFKAILGQ 745
T V K+++F+ R +LL G GAGKTSL I+G+
Sbjct: 51 TPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGE 87
>pdb|2PZG|A Chain A, Minimal Human Cftr First Nucleotide Binding Domain As A
Monomer
pdb|2PZG|B Chain B, Minimal Human Cftr First Nucleotide Binding Domain As A
Monomer
Length = 241
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 3/49 (6%)
Query: 700 LSDVFIFCTSDFTTVFKEVHFRTRRVRLL---GLEGAGKTSLFKAILGQ 745
+ +V F T V K+++F+ R +LL G GAGKTSL I+G+
Sbjct: 21 MENVTAFWEEGGTPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGE 69
>pdb|2PZF|A Chain A, Minimal Human Cftr First Nucleotide Binding Domain As A
Head-To-Tail Dimer With Delta F508
pdb|2PZF|B Chain B, Minimal Human Cftr First Nucleotide Binding Domain As A
Head-To-Tail Dimer With Delta F508
Length = 228
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 3/49 (6%)
Query: 700 LSDVFIFCTSDFTTVFKEVHFRTRRVRLL---GLEGAGKTSLFKAILGQ 745
+ +V F T V K+++F+ R +LL G GAGKTSL I+G+
Sbjct: 9 MENVTAFWEEGGTPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGE 57
>pdb|2BBS|A Chain A, Human Deltaf508 Nbd1 With Three Solubilizing Mutations
pdb|2BBS|B Chain B, Human Deltaf508 Nbd1 With Three Solubilizing Mutations
Length = 290
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 3/37 (8%)
Query: 712 TTVFKEVHFRTRRVRLL---GLEGAGKTSLFKAILGQ 745
T V K+++F+ R +LL G GAGKTSL I+G+
Sbjct: 51 TPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGE 87
>pdb|2BBT|A Chain A, Human Deltaf508 Nbd1 With Two Solublizing Mutations.
pdb|2BBT|B Chain B, Human Deltaf508 Nbd1 With Two Solublizing Mutations
Length = 290
Score = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 3/37 (8%)
Query: 712 TTVFKEVHFRTRRVRLL---GLEGAGKTSLFKAILGQ 745
T V K+++F+ R +LL G GAGKTSL I+G+
Sbjct: 51 TPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGE 87
>pdb|1XMI|A Chain A, Crystal Structure Of Human F508a Nbd1 Domain With Atp
pdb|1XMI|B Chain B, Crystal Structure Of Human F508a Nbd1 Domain With Atp
pdb|1XMI|C Chain C, Crystal Structure Of Human F508a Nbd1 Domain With Atp
pdb|1XMI|D Chain D, Crystal Structure Of Human F508a Nbd1 Domain With Atp
pdb|1XMI|E Chain E, Crystal Structure Of Human F508a Nbd1 Domain With Atp
Length = 291
Score = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 3/37 (8%)
Query: 712 TTVFKEVHFRTRRVRLL---GLEGAGKTSLFKAILGQ 745
T V K+++F+ R +LL G GAGKTSL I+G+
Sbjct: 51 TPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGE 87
>pdb|2PZE|A Chain A, Minimal Human Cftr First Nucleotide Binding Domain As A
Head-To-Tail Dimer
pdb|2PZE|B Chain B, Minimal Human Cftr First Nucleotide Binding Domain As A
Head-To-Tail Dimer
Length = 229
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 3/37 (8%)
Query: 712 TTVFKEVHFRTRRVRLL---GLEGAGKTSLFKAILGQ 745
T V K+++F+ R +LL G GAGKTSL I+G+
Sbjct: 21 TPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGE 57
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
0.318 0.134 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,992,697
Number of Sequences: 62578
Number of extensions: 1055385
Number of successful extensions: 2637
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 2631
Number of HSP's gapped (non-prelim): 19
length of query: 1022
length of database: 14,973,337
effective HSP length: 109
effective length of query: 913
effective length of database: 8,152,335
effective search space: 7443081855
effective search space used: 7443081855
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: 56 (26.2 bits)