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= 022437
(297 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HEF|A Chain A, Crystal Structure Of The Bacteriophage Sf6 Terminase Small
Subunit
pdb|3HEF|B Chain B, Crystal Structure Of The Bacteriophage Sf6 Terminase Small
Subunit
Length = 143
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 35/82 (42%), Gaps = 9/82 (10%)
Query: 102 KAGRTLGDLPK---DLAGAIEAGRVPAAIVKRYLELEKSPVFRWLLNFGGFRERLLADDL 158
KAGR +P+ D+ + +G + KR +KS VFRWL FR D
Sbjct: 9 KAGRPSDYMPEVADDICSLLSSGESLLKVCKRPGMPDKSTVFRWLAKHEDFR------DK 62
Query: 159 FLVAFTGTSYSLIQRIGAIVRN 180
+ A + S+ + I I N
Sbjct: 63 YAKATEARADSIFEEIFEIADN 84
>pdb|4DZJ|A Chain A, Crystal Structure Of The Terminase Small Subunit Gp1 With
K59e Mutation Of The Bacterial Virus Sf6
pdb|4DZJ|B Chain B, Crystal Structure Of The Terminase Small Subunit Gp1 With
K59e Mutation Of The Bacterial Virus Sf6
Length = 140
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 35/83 (42%), Gaps = 9/83 (10%)
Query: 102 KAGRTLGDLPK---DLAGAIEAGRVPAAIVKRYLELEKSPVFRWLLNFGGFRERLLADDL 158
KAGR +P+ D+ + +G + KR +KS VFRWL FR D
Sbjct: 6 KAGRPSDYMPEVADDICSLLSSGESLLKVCKRPGMPDKSTVFRWLAKHEDFR------DE 59
Query: 159 FLVAFTGTSYSLIQRIGAIVRNG 181
+ A + S+ + I I N
Sbjct: 60 YAKATEARADSIFEEIFEIADNA 82
>pdb|4DYC|A Chain A, Crystal Structure Of The Terminase Small Subunit Gp1 With
D19r Mutation Of The Bacterial Virus Sf6
pdb|4DYC|B Chain B, Crystal Structure Of The Terminase Small Subunit Gp1 With
D19r Mutation Of The Bacterial Virus Sf6
pdb|4DYQ|A Chain A, High Resolution Crystal Structure Of Terminase Small
Subunit Gp1 Of The Bacterial Virus Sf6
pdb|4DYQ|B Chain B, High Resolution Crystal Structure Of Terminase Small
Subunit Gp1 Of The Bacterial Virus Sf6
pdb|4DYR|A Chain A, Crystal Structure Of Terminase Small Subunit Gp1 Of The
Bacterial Virus Sf6 With Caps Ph10.5 Buffer
pdb|4DYR|B Chain B, Crystal Structure Of Terminase Small Subunit Gp1 Of The
Bacterial Virus Sf6 With Caps Ph10.5 Buffer
Length = 140
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 35/83 (42%), Gaps = 9/83 (10%)
Query: 102 KAGRTLGDLPK---DLAGAIEAGRVPAAIVKRYLELEKSPVFRWLLNFGGFRERLLADDL 158
KAGR +P+ D+ + +G + KR +KS VFRWL FR D
Sbjct: 6 KAGRPSDYMPEVADDICSLLSSGESLLKVCKRPGMPDKSTVFRWLAKHEDFR------DK 59
Query: 159 FLVAFTGTSYSLIQRIGAIVRNG 181
+ A + S+ + I I N
Sbjct: 60 YAKATEARADSIFEEIFEIADNA 82
>pdb|3QML|C Chain C, The Structural Analysis Of Sil1-Bip Complex Reveals The
Mechanism For Sil1 To Function As A Novel Nucleotide
Exchange Factor
pdb|3QML|D Chain D, The Structural Analysis Of Sil1-Bip Complex Reveals The
Mechanism For Sil1 To Function As A Novel Nucleotide
Exchange Factor
Length = 315
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 217 AEDVPIISTSVAYGVYMAVSSNLRYQVLAGVIEQRILEPLLHEN 260
+ED+PI ST V VY + + + Q+ + +IL+ ++EN
Sbjct: 152 SEDLPIYSTVVLQNVYERNNKDKQLQIKVLELISKILKADMYEN 195
>pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
pdb|1GL9|C Chain C, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
Length = 1054
Score = 27.7 bits (60), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 50/120 (41%), Gaps = 8/120 (6%)
Query: 135 EKSPVFRWLLNFGGFRERLLADDLFLVAFTGTSYSLIQRIGAIVRNGAKLFA-VGTSASL 193
+K+ +FR LLNF R+ ++ VA S S + I + G ++A G A
Sbjct: 231 KKAELFRQLLNFDIGSSRITVRNVEDVAVNDESISTLSSILEKLGTGGIIYARTGEEAEE 290
Query: 194 VGVGITN----ALINARKALDTSFAGEAEDVPIISTSVAYGVY---MAVSSNLRYQVLAG 246
+ + N ++ A K D E E +I T+ YG + + +R+ V G
Sbjct: 291 IYESLKNKFRIGIVTATKKGDYEKFVEGEIDHLIGTAHYYGTLVRGLDLPERIRFAVFVG 350
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
0.324 0.137 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,465,701
Number of Sequences: 62578
Number of extensions: 269733
Number of successful extensions: 681
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 678
Number of HSP's gapped (non-prelim): 8
length of query: 297
length of database: 14,973,337
effective HSP length: 98
effective length of query: 199
effective length of database: 8,840,693
effective search space: 1759297907
effective search space used: 1759297907
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)