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= psy10002
(145 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1S98|A Chain A, E.Coli Isca Crystal Structure To 2.3 A
pdb|1S98|B Chain B, E.Coli Isca Crystal Structure To 2.3 A
Length = 107
Score = 73.2 bits (178), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 37/98 (37%), Positives = 57/98 (58%), Gaps = 15/98 (15%)
Query: 48 GLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVSGVRIFIDRKAQ 107
GL++GV+ GC+G++Y L + +DE +D+ F GV++ +D K+
Sbjct: 25 GLRLGVRTSGCSGMAYVLEF------VDEPTPEDI---------VFEDKGVKVVVDGKSM 69
Query: 108 LTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145
L GT++D+V+ L+ F F NPN+K CGCGESF V
Sbjct: 70 QFLDGTQLDFVKEGLNEGFKFTNPNVKDECGCGESFHV 107
>pdb|1R94|A Chain A, Crystal Structure Of Isca (mercury Derivative)
pdb|1R94|B Chain B, Crystal Structure Of Isca (mercury Derivative)
pdb|1R95|A Chain A, Crystal Structure Of Isca (Native)
pdb|1R95|B Chain B, Crystal Structure Of Isca (Native)
Length = 118
Score = 72.4 bits (176), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 36/98 (36%), Positives = 57/98 (58%), Gaps = 15/98 (15%)
Query: 48 GLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVSGVRIFIDRKAQ 107
GL++GV+ GC+G++Y L + +DE +D+ F GV++ +D K+
Sbjct: 25 GLRLGVRTSGCSGMAYVLEF------VDEPTPEDI---------VFEDKGVKVVVDGKSL 69
Query: 108 LTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145
L GT++D+V+ L+ F F NPN+K CGCGESF +
Sbjct: 70 QFLDGTQLDFVKEGLNEGFKFTNPNVKDECGCGESFKL 107
>pdb|2D2A|A Chain A, Crystal Structure Of Escherichia Coli Sufa Involved In
Biosynthesis Of Iron-Sulfur Clusters
pdb|2D2A|B Chain B, Crystal Structure Of Escherichia Coli Sufa Involved In
Biosynthesis Of Iron-Sulfur Clusters
Length = 145
Score = 66.6 bits (161), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 37/118 (31%), Positives = 56/118 (47%), Gaps = 18/118 (15%)
Query: 31 LLKINKIHCIIFISSQAGL---KVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWAL 87
L IH ++ Q G+ ++GV+Q GC G Y L+ + +K D
Sbjct: 43 LTPAAAIHIRELVAKQPGMVGVRLGVKQTGCAGFGYVLDSVSEPDKDD------------ 90
Query: 88 ILTCFFHVSGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145
F G ++F+ +A + GTE+D+V L+ F F+NP + CGCGESF V
Sbjct: 91 ---LLFEHDGAKLFVPLQAMPFIDGTEVDFVREGLNQIFKFHNPKAQNECGCGESFGV 145
>pdb|1NWB|A Chain A, Solution Nmr Structure Of Protein Aq_1857 From Aquifex
Aeolicus: Northeast Structural Genomics Consortium
Target Qr6
Length = 124
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 44/96 (45%), Gaps = 15/96 (15%)
Query: 49 LKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVSGVRIFIDRKAQL 108
L++ V GC+G Y + + E+ D F GV++ ID +
Sbjct: 34 LRIRVVPGGCSGFQYAMGFDDTVEEGDH---------------VFEYDGVKVVIDPFSMP 78
Query: 109 TLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFS 144
+ G E+DYV + + F NPN G+CGCG SFS
Sbjct: 79 YVNGAELDYVVDFMGGGFTIRNPNATGSCGCGSSFS 114
>pdb|2APN|A Chain A, Hi1723 Solution Structure
Length = 114
Score = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 36/113 (31%), Positives = 51/113 (45%), Gaps = 17/113 (15%)
Query: 35 NKIHCIIFISSQAGLK--VGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCF 92
NK+ +I LK V + GC+G Y + EK+++ +
Sbjct: 17 NKVKSLISEEENTDLKLRVYITGGGCSGFQYGFTF---DEKVNDGDLT------------ 61
Query: 93 FHVSGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145
SGV++ ID + L+G +DY E S F NNPN TCGCG SFS+
Sbjct: 62 IEKSGVQLVIDPMSLQYLIGGTVDYTEGLEGSRFTVNNPNATSTCGCGSSFSI 114
>pdb|1X0G|A Chain A, Crystal Structure Of Isca With The [2fe-2s] Cluster
pdb|1X0G|B Chain B, Crystal Structure Of Isca With The [2fe-2s] Cluster
pdb|1X0G|C Chain C, Crystal Structure Of Isca With The [2fe-2s] Cluster
pdb|1X0G|D Chain D, Crystal Structure Of Isca With The [2fe-2s] Cluster
Length = 112
Score = 42.7 bits (99), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%)
Query: 112 GTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145
G +DY+E+ + F F+NPN TCGCG +F V
Sbjct: 76 GLRVDYIEDLMGGAFRFHNPNASQTCGCGMAFRV 109
>pdb|3GFX|A Chain A, Klebsiella Pneumoniae Blrp1 Ph 4.5 CalciumCY-Digmp Complex
pdb|3GFX|B Chain B, Klebsiella Pneumoniae Blrp1 Ph 4.5 CalciumCY-Digmp Complex
pdb|3GFY|A Chain A, Klebsiella Pneumoniae Blrp1 With Fmn And Cyclic Digmp, No
Metal Ions
pdb|3GFY|B Chain B, Klebsiella Pneumoniae Blrp1 With Fmn And Cyclic Digmp, No
Metal Ions
pdb|3GFZ|A Chain A, Klebsiella Pneumoniae Blrp1 Ph 6 Manganese/cy-digmp
Complex
pdb|3GFZ|B Chain B, Klebsiella Pneumoniae Blrp1 Ph 6 Manganese/cy-digmp
Complex
pdb|3GG0|A Chain A, Klebsiella Pneumoniae Blrp1 Ph 9.0 ManganeseCY-Digmp
Complex
pdb|3GG0|B Chain B, Klebsiella Pneumoniae Blrp1 Ph 9.0 ManganeseCY-Digmp
Complex
pdb|3GG1|A Chain A, Klebsiella Pneumoniae Blrp1 Ph 8.0 CalciumCY-Digmp Complex
pdb|3GG1|B Chain B, Klebsiella Pneumoniae Blrp1 Ph 8.0 CalciumCY-Digmp Complex
Length = 413
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 13/55 (23%)
Query: 47 AGLKVGVQQRGC--NGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVSGVR 99
AG+K+ + G +GLS + DK K+D E+++D+ H+SG +
Sbjct: 303 AGMKLAIDDFGAGYSGLSLLTRFQPDKIKVDAELVRDI-----------HISGTK 346
>pdb|2PMT|A Chain A, Glutathione Transferase From Proteus Mirabilis
pdb|2PMT|B Chain B, Glutathione Transferase From Proteus Mirabilis
pdb|2PMT|C Chain C, Glutathione Transferase From Proteus Mirabilis
pdb|2PMT|D Chain D, Glutathione Transferase From Proteus Mirabilis
pdb|1PMT|A Chain A, Glutathione Transferase From Proteus Mirabilis
Length = 203
Score = 28.5 bits (62), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 115 MDYVENKLSSEFVFNNPNI-KGTCGCGESFSV 145
+ V+NKL S+FV+ N + K C CG+ F+V
Sbjct: 122 LPVVKNKLKSKFVYINDVLSKQKCVCGDHFTV 153
>pdb|2O01|1 Chain 1, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 187
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 39 CIIFISSQAGLKVGVQQRGCNGLSY-TLNYAKDKEKMDEEVIQDVKYWALILTCF 92
I F+ Q ++ +++ G ++ L Y+KD +K++E ++++K L L F
Sbjct: 100 AIAFVEHQRSMEKDPEKKKYPGGAFDPLGYSKDPKKLEELKVKEIKNGRLALLAF 154
>pdb|2WSC|1 Chain 1, Improved Model Of Plant Photosystem I
pdb|2WSE|1 Chain 1, Improved Model Of Plant Photosystem I
pdb|2WSF|1 Chain 1, Improved Model Of Plant Photosystem I
Length = 241
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 39 CIIFISSQAGLKVGVQQRGCNGLSY-TLNYAKDKEKMDEEVIQDVKYWALILTCF 92
I F+ Q ++ +++ G ++ L Y+KD +K++E ++++K L L F
Sbjct: 148 AIAFVEHQRSMEKDPEKKKYPGGAFDPLGYSKDPKKLEELKVKEIKNGRLALLAF 202
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I
Length = 170
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 39 CIIFISSQAGLKVGVQQRGCNGLSY-TLNYAKDKEKMDEEVIQDVKYWALILTCF 92
I F+ Q ++ +++ G ++ L Y+KD +K++E ++++K L L F
Sbjct: 88 AIAFVEHQRSMEKDPEKKKYPGGAFDPLGYSKDPKKLEELKVKEIKNGRLALLAF 142
>pdb|3FN5|A Chain A, Crystal Structure Of Sortase A (Spy1154) From
Streptococcus Pyogenes Serotype M1 Strain Sf370
pdb|3FN5|B Chain B, Crystal Structure Of Sortase A (Spy1154) From
Streptococcus Pyogenes Serotype M1 Strain Sf370
pdb|3FN7|A Chain A, Crystal Structure Of Sortase A (Spy1154) From
Streptococcus Pyogenes Serotype M1 Strain Sf370
Length = 187
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 48/102 (47%), Gaps = 23/102 (22%)
Query: 38 HCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVSG 97
H I I+ + + +R NG+S Y DKEK+ E +I+DV F V+
Sbjct: 80 HHIFGITGSSQMLFSPLERAQNGMSI---YLTDKEKIYEYIIKDV----------FTVAP 126
Query: 98 VRI-FIDRKA---QLTLL------GTEMDYVENKLSSEFVFN 129
R+ ID A ++TL+ TE V+ +L +E+ F+
Sbjct: 127 ERVDVIDDTAGLKEVTLVTCTDIEATERIIVKGELKTEYDFD 168
>pdb|3FN6|A Chain A, Crystal Structure Of Sortase A From Streptococcus Pyogenes
Serotype M1 Strain Sf370 With The Active Site Cys In Its
Sulphenic Acid Form
Length = 187
Score = 27.3 bits (59), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 48/102 (47%), Gaps = 23/102 (22%)
Query: 38 HCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVSG 97
H I I+ + + +R NG+S Y DKEK+ E +I+DV F V+
Sbjct: 80 HHIFGITGSSQMLFSPLERAQNGMSI---YLTDKEKIYEYIIKDV----------FTVAP 126
Query: 98 VRI-FIDRKA---QLTLL------GTEMDYVENKLSSEFVFN 129
R+ ID A ++TL+ TE V+ +L +E+ F+
Sbjct: 127 ERVDVIDDTAGLKEVTLVTXTDIEATERIIVKGELKTEYDFD 168
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 0.139 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,067,554
Number of Sequences: 62578
Number of extensions: 144547
Number of successful extensions: 240
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 230
Number of HSP's gapped (non-prelim): 13
length of query: 145
length of database: 14,973,337
effective HSP length: 89
effective length of query: 56
effective length of database: 9,403,895
effective search space: 526618120
effective search space used: 526618120
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 47 (22.7 bits)