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= psy13308
(166 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2IRM|A Chain A, Crystal Structure Of Mitogen-Activated Protein Kinase
Kinase Kinase 7 Interacting Protein 1 From Anopheles
Gambiae
Length = 358
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 48 WLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGH 92
+ ++++Q+YKD + C+ R +K D T L A+L GH
Sbjct: 16 GVGEAINQIYKDDGRRCEGYESR-DKKCLCISDNNTSLYAILSGH 59
>pdb|2X3L|A Chain A, Crystal Structure Of The Orn_lys_arg Decarboxylase Family
Protein Sar0482 From Methicillin-Resistant
Staphylococcus Aureus
pdb|2X3L|B Chain B, Crystal Structure Of The Orn_lys_arg Decarboxylase Family
Protein Sar0482 From Methicillin-Resistant
Staphylococcus Aureus
Length = 446
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 2 YITWCDPTTYREVTKVRHGAVAPWPLNIYLTYKKKLTVQHRLKTL-KWLEKSL 53
Y+TWCD + RH + P+P I + +K + ++ ++ + ++LE +
Sbjct: 381 YVTWCDLKKAKGKVLARH--IVPYPPGIPIIFKGETITENMIELVNEYLETGM 431
>pdb|4IZJ|A Chain A, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
With A Wild-type Active Site Reveals Acyl-enzyme
Complexes And Product Complexes.
pdb|4IZJ|E Chain E, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
With A Wild-type Active Site Reveals Acyl-enzyme
Complexes And Product Complexes
Length = 210
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 59 DVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTI----RAYP 114
D + ++L +RLE NN+ + P ++ ++ V + P F S + AYP
Sbjct: 6 DTGRFSRNLKDRLESNNYEEMELPPPTKGVIIPVVHTVESA--PGEAFGSLLVIIPGAYP 63
Query: 115 NLVEHCTRIEQNYFKKDS 132
L++ ++ ++FK D+
Sbjct: 64 ELLDPNQQV-LSHFKNDT 80
>pdb|3R0B|A Chain A, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
With A Wild-Type Active Site Reveals Acyl-Enzyme
Complexes And Product Complexes.
pdb|3R0B|E Chain E, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
With A Wild-Type Active Site Reveals Acyl-Enzyme
Complexes And Product Complexes
Length = 218
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 59 DVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTI----RAYP 114
D + ++L +RLE NN+ + P ++ ++ V + P F S + AYP
Sbjct: 6 DTGRFSRNLKDRLESNNYEEMELPPPTKGVIIPVVHTVESA--PGEAFGSLLVIIPGAYP 63
Query: 115 NLVEHCTRIEQNYFKKDS 132
L++ ++ ++FK D+
Sbjct: 64 ELLDPNQQV-LSHFKNDT 80
>pdb|4IZJ|D Chain D, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
With A Wild-type Active Site Reveals Acyl-enzyme
Complexes And Product Complexes
Length = 210
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 59 DVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTI----RAYP 114
D + ++L +RLE NN+ + P ++ ++ V + P F S + AYP
Sbjct: 6 DTGRFSRNLKDRLESNNYEEMELPPPTKGVIIPVVHTVESA--PGEAFGSLLVIIPGAYP 63
Query: 115 NLVEHCTRIEQNYFKKDS 132
L++ ++ ++FK D+
Sbjct: 64 ELLDPNQQV-LSHFKNDT 80
>pdb|4IZJ|B Chain B, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
With A Wild-type Active Site Reveals Acyl-enzyme
Complexes And Product Complexes.
pdb|4IZJ|C Chain C, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
With A Wild-type Active Site Reveals Acyl-enzyme
Complexes And Product Complexes
Length = 210
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 59 DVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTI----RAYP 114
D + ++L +RLE NN+ + P ++ ++ V + P F S + AYP
Sbjct: 6 DTGRFSRNLKDRLESNNYEEMELPPPTKGVIIPVVHTVESA--PGEAFGSLLVIIPGAYP 63
Query: 115 NLVEHCTRIEQNYFKKDS 132
L++ ++ ++FK D+
Sbjct: 64 ELLDPNQQV-LSHFKNDT 80
>pdb|3R0B|D Chain D, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
With A Wild-Type Active Site Reveals Acyl-Enzyme
Complexes And Product Complexes
Length = 218
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 59 DVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTI----RAYP 114
D + ++L +RLE NN+ + P ++ ++ V + P F S + AYP
Sbjct: 6 DTGRFSRNLKDRLESNNYEEMELPPPTKGVIIPVVHTVESA--PGEAFGSLLVIIPGAYP 63
Query: 115 NLVEHCTRIEQNYFKKDS 132
L++ ++ ++FK D+
Sbjct: 64 ELLDPNQQV-LSHFKNDT 80
>pdb|3R0B|B Chain B, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
With A Wild-Type Active Site Reveals Acyl-Enzyme
Complexes And Product Complexes.
pdb|3R0B|C Chain C, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
With A Wild-Type Active Site Reveals Acyl-Enzyme
Complexes And Product Complexes
Length = 218
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 59 DVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTI----RAYP 114
D + ++L +RLE NN+ + P ++ ++ V + P F S + AYP
Sbjct: 6 DTGRFSRNLKDRLESNNYEEMELPPPTKGVIIPVVHTVESA--PGEAFGSLLVIIPGAYP 63
Query: 115 NLVEHCTRIEQNYFKKDS 132
L++ ++ ++FK D+
Sbjct: 64 ELLDPNQQV-LSHFKNDT 80
>pdb|4IZK|A Chain A, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
Active Site Mutant (k674a) Reveals Both An Acyl-enzyme
Complex And An Empty Active Site
Length = 210
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 59 DVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTI----RAYP 114
D + ++L +RLE NN+ + P ++ ++ V + P F S + AYP
Sbjct: 6 DTGRFSRNLKDRLESNNYEEMELPPPTKGVIIPVVHTVESA--PGEAFGSLLVIIPGAYP 63
Query: 115 NLVEHCTRIEQNYFKKDS 132
L++ ++ ++FK D+
Sbjct: 64 ELLDPNQQV-LSHFKNDT 80
>pdb|4HHC|A Chain A, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
Active Site Mutant (K674a) Reveals Both An Acyl-Enzyme
Complex And An Empty Active Site
Length = 218
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 59 DVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTI----RAYP 114
D + ++L +RLE NN+ + P ++ ++ V + P F S + AYP
Sbjct: 6 DTGRFSRNLKDRLESNNYEEMELPPPTKGVIIPVVHTVESA--PGEAFGSLLVIIPGAYP 63
Query: 115 NLVEHCTRIEQNYFKKDS 132
L++ ++ ++FK D+
Sbjct: 64 ELLDPNQQV-LSHFKNDT 80
>pdb|2GAG|A Chain A, Heteroteterameric Sarcosine: Structure Of A Diflavin
Metaloenzyme At 1.85 A Resolution
Length = 965
Score = 27.7 bits (60), Expect = 3.2, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 46 LKWLEKSLDQVYKDVDKCCQSLSERL 71
L WLE+ L + D+D C S++E+L
Sbjct: 701 LDWLEEWLQTEWPDLDVTCTSVTEQL 726
>pdb|2GAH|A Chain A, Heterotetrameric Sarcosine: Structure Of A Diflavin
Metaloenzyme At 1.85 A Resolution
Length = 965
Score = 27.7 bits (60), Expect = 3.2, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 46 LKWLEKSLDQVYKDVDKCCQSLSERL 71
L WLE+ L + D+D C S++E+L
Sbjct: 701 LDWLEEWLQTEWPDLDVTCTSVTEQL 726
>pdb|4HHC|B Chain B, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
Active Site Mutant (K674a) Reveals Both An Acyl-Enzyme
Complex And An Empty Active Site
Length = 219
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 59 DVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTI----RAYP 114
D + ++L +RLE NN+ + P ++ ++ V + P F S + AYP
Sbjct: 6 DTGRFSRNLKDRLESNNYEEMELPPPTKGVIIPVVHTVESA--PGEAFGSLLVIIPGAYP 63
Query: 115 NLVEHCTRIEQNYFKKDS 132
L++ ++ ++FK D+
Sbjct: 64 ELLDPNQQV-LSHFKNDT 80
>pdb|3P56|B Chain B, The Structure Of The Human Rnase H2 Complex Defines Key
Interaction Interfaces Relevant To Enzyme Function And
Human Disease
pdb|3P56|E Chain E, The Structure Of The Human Rnase H2 Complex Defines Key
Interaction Interfaces Relevant To Enzyme Function And
Human Disease
Length = 237
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 45 TLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPT---ELDALLFGH 92
TLKWLEK ++Q + ++S R++ FF D+ + E D + + H
Sbjct: 174 TLKWLEKKVNQTVAALKTNNVNVSSRVQSTAFFSGDQASTDKEEDYIRYAH 224
>pdb|4IZK|B Chain B, Crystal Structure Of Yellowtail Ascites Virus Vp4 Protease
Active Site Mutant (k674a) Reveals Both An Acyl-enzyme
Complex And An Empty Active Site
Length = 210
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 59 DVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTI----RAYP 114
D + ++L +RLE NN+ + P ++ ++ V + P F S + AYP
Sbjct: 6 DTGRFSRNLKDRLESNNYEEMELPPPTKGVIIPVVHTVESA--PGEAFGSLLVIIPGAYP 63
Query: 115 NLVEHCTRIEQNYFKKDS 132
L++ ++ ++FK D+
Sbjct: 64 ELLDPNQQV-LSHFKNDT 80
>pdb|3PUF|B Chain B, Crystal Structure Of Human Rnase H2 Complex
pdb|3PUF|E Chain E, Crystal Structure Of Human Rnase H2 Complex
pdb|3PUF|H Chain H, Crystal Structure Of Human Rnase H2 Complex
pdb|3PUF|K Chain K, Crystal Structure Of Human Rnase H2 Complex
pdb|3PUF|N Chain N, Crystal Structure Of Human Rnase H2 Complex
pdb|3PUF|Q Chain Q, Crystal Structure Of Human Rnase H2 Complex
Length = 224
Score = 27.3 bits (59), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 45 TLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPT---ELDALLFGH 92
TLKWLEK ++Q + ++S R++ FF D+ + E D + + H
Sbjct: 154 TLKWLEKKVNQTVAALKTNNVNVSSRVQSTAFFSGDQASTDKEEDYIRYAH 204
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
0.320 0.134 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,107,404
Number of Sequences: 62578
Number of extensions: 200889
Number of successful extensions: 486
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 482
Number of HSP's gapped (non-prelim): 17
length of query: 166
length of database: 14,973,337
effective HSP length: 92
effective length of query: 74
effective length of database: 9,216,161
effective search space: 681995914
effective search space used: 681995914
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)