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= 039881
(315 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|V Chain V, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 306
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 3/69 (4%)
Query: 54 QETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTPPGDCFQSVEFIETFMNYKENIGKCV 113
+ DD+ +Q MM L+ D VVGWY S P C+ S + T ++++ + V
Sbjct: 81 EAVDDV---FQAKMMDMLKQTGRDQMVVGWYHSHPGFGCWLSSVDVNTQKSFEQLNSRAV 137
Query: 114 CIICDPSRS 122
++ DP +S
Sbjct: 138 AVVVDPIQS 146
>pdb|1JYL|A Chain A, Catalytic Mechanism Of Ctp:phosphocholine
Cytidylytransferase From Streptococcus Pneumoniae (Licc)
pdb|1JYL|B Chain B, Catalytic Mechanism Of Ctp:phosphocholine
Cytidylytransferase From Streptococcus Pneumoniae (Licc)
pdb|1JYL|C Chain C, Catalytic Mechanism Of Ctp:phosphocholine
Cytidylytransferase From Streptococcus Pneumoniae (Licc)
pdb|1JYL|D Chain D, Catalytic Mechanism Of Ctp:phosphocholine
Cytidylytransferase From Streptococcus Pneumoniae (Licc)
Length = 254
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 170 IRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFL 214
IRV L + + L P +T+ + +Q++ KPL+E +EFL
Sbjct: 24 IRVKAIILAAGLGTRLRP--LTENTPKALVQVNQKPLIEYQIEFL 66
>pdb|1JYK|A Chain A, Catalytic Mechanism Of Ctp:phosphocholine
Cytidylytransferase From Streptococcus Pneumoniae (Licc)
Length = 254
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 170 IRVSNSALVSAFMSTLEPDRVTDQSDHDRLQISSKPLLESNVEFL 214
IRV L + + L P +T+ + +Q++ KPL+E +EFL
Sbjct: 24 IRVKAIILAAGLGTRLRP--LTENTPKALVQVNQKPLIEYQIEFL 66
>pdb|2O96|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-177)
pdb|2O96|B Chain B, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-177)
Length = 178
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 35/95 (36%), Gaps = 26/95 (27%)
Query: 20 ALQVVQIEGLVLLKIIKHCKDLSP-------------SWLRQ-------------ENDID 53
A+Q V + LVLL ++ H + SW ++ E+D D
Sbjct: 6 AVQKVVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKD 65
Query: 54 QETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTP 88
+ +Y +M + N +VGWY + P
Sbjct: 66 DSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGP 100
>pdb|2O95|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-186)
pdb|2O95|B Chain B, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-186)
Length = 187
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 35/95 (36%), Gaps = 26/95 (27%)
Query: 20 ALQVVQIEGLVLLKIIKHCKDLSP-------------SWLRQ-------------ENDID 53
A+Q V + LVLL ++ H + SW ++ E+D D
Sbjct: 6 AVQKVVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKD 65
Query: 54 QETDDIGANYQLDMMSCLRDANVDSNVVGWYQSTP 88
+ +Y +M + N +VGWY + P
Sbjct: 66 DSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGP 100
>pdb|1CD0|A Chain A, Structure Of Human Lamda-6 Light Chain Dimer Jto
pdb|1CD0|B Chain B, Structure Of Human Lamda-6 Light Chain Dimer Jto
Length = 111
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 68 MSCLRD-ANVDSNVVGWYQSTP 88
+SC R N+DSN V WYQ P
Sbjct: 20 ISCTRSSGNIDSNYVQWYQQRP 41
>pdb|1PW3|A Chain A, Crystal Structure Of Jtor68s
pdb|1PW3|B Chain B, Crystal Structure Of Jtor68s
Length = 111
Score = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 68 MSCLRD-ANVDSNVVGWYQSTP 88
+SC R N+DSN V WYQ P
Sbjct: 20 ISCTRSSGNIDSNYVQWYQQRP 41
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
0.317 0.133 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,610,023
Number of Sequences: 62578
Number of extensions: 337176
Number of successful extensions: 804
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 803
Number of HSP's gapped (non-prelim): 13
length of query: 315
length of database: 14,973,337
effective HSP length: 99
effective length of query: 216
effective length of database: 8,778,115
effective search space: 1896072840
effective search space used: 1896072840
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: 51 (24.3 bits)