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= 037680
(115 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WHS|A Chain A, Structure Of The Complex Of L-Benzylsuccinate With Wheat
Serine Carboxypeptidase Ii At 2.0 Angstroms Resolution
Length = 255
Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/130 (32%), Positives = 55/130 (42%), Gaps = 26/130 (20%)
Query: 3 NMAYAISLECPAGMGLSYSNTKSDYNPNADKSTAQDSYTFPISWLERLPQYKTSFFNTLG 62
+A + L+ PAG+G SY+NT SD + D TA DSY F W ER P YK F G
Sbjct: 92 KVANVLFLDSPAGVGFSYTNTSSDIYTSGDNRTAHDSYAFLAKWFERFPHYKYRDFYIAG 151
Query: 63 ----------VTHLYFRR------------GNAWVDDATGATDLFEHRWTTGLMHAFNSD 100
++ L R GN +DD FE W G++ SD
Sbjct: 152 ESYAGHYVPELSQLVHRSKNPVINLKGFMVGNGLIDDYHDYVGTFEFWWNHGIV----SD 207
Query: 101 QTHKGLFTNC 110
T++ L C
Sbjct: 208 DTYRRLKEAC 217
>pdb|1WHT|A Chain A, Structure Of The Complex Of L-Benzylsuccinate With Wheat
Serine Carboxypeptidase Ii At 2.0 Angstroms Resolution
Length = 256
Score = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 42/130 (32%), Positives = 55/130 (42%), Gaps = 26/130 (20%)
Query: 3 NMAYAISLECPAGMGLSYSNTKSDYNPNADKSTAQDSYTFPISWLERLPQYKTSFFNTLG 62
+A + L+ PAG+G SY+NT SD + D TA DSY F W ER P YK F G
Sbjct: 93 KVANVLFLDSPAGVGFSYTNTSSDIYTSGDNRTAHDSYAFLAKWFERFPHYKYRDFYIAG 152
Query: 63 ----------VTHLYFRR------------GNAWVDDATGATDLFEHRWTTGLMHAFNSD 100
++ L R GN +DD FE W G++ SD
Sbjct: 153 ESYAGHYVPELSQLVHRSKNPVINLKGFMVGNGLIDDYHDYVGTFEFWWNHGIV----SD 208
Query: 101 QTHKGLFTNC 110
T++ L C
Sbjct: 209 DTYRRLKEAC 218
>pdb|1BCR|A Chain A, Complex Of The Wheat Serine Carboxypeptidase, Cpdw-Ii,
With The Microbial Peptide Aldehyde Inhibitor, Antipain,
And Arginine At Room Temperature
pdb|1BCS|A Chain A, Complex Of The Wheat Serine Carboxypeptidase, Cpdw-Ii,
With The Microbial Peptide Aldehyde Inhibitor,
Chymostatin, And Arginine At 100 Degrees Kelvin
Length = 263
Score = 60.1 bits (144), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 42/130 (32%), Positives = 55/130 (42%), Gaps = 26/130 (20%)
Query: 3 NMAYAISLECPAGMGLSYSNTKSDYNPNADKSTAQDSYTFPISWLERLPQYKTSFFNTLG 62
+A + L+ PAG+G SY+NT SD + D TA DSY F W ER P YK F G
Sbjct: 97 KVANVLFLDSPAGVGFSYTNTSSDIYTSGDNRTAHDSYAFLAKWFERFPHYKYRDFYIAG 156
Query: 63 ----------VTHLYFRR------------GNAWVDDATGATDLFEHRWTTGLMHAFNSD 100
++ L R GN +DD FE W G++ SD
Sbjct: 157 ESYAGHYVPELSQLVHRSKNPVINLKGFMVGNGLIDDYHDYVGTFEFWWNHGIV----SD 212
Query: 101 QTHKGLFTNC 110
T++ L C
Sbjct: 213 DTYRRLKEAC 222
>pdb|3SC2|A Chain A, Refined Atomic Model Of Wheat Serine Carboxypeptidase Ii
At 2.2- Angstroms Resolution
Length = 259
Score = 60.1 bits (144), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 42/130 (32%), Positives = 55/130 (42%), Gaps = 26/130 (20%)
Query: 3 NMAYAISLECPAGMGLSYSNTKSDYNPNADKSTAQDSYTFPISWLERLPQYKTSFFNTLG 62
+A + L+ PAG+G SY+NT SD + D TA DSY F W ER P YK F G
Sbjct: 97 KVANVLFLDSPAGVGFSYTNTSSDIYTSGDNRTAHDSYAFLAKWFERFPHYKYRDFYIAG 156
Query: 63 ----------VTHLYFRR------------GNAWVDDATGATDLFEHRWTTGLMHAFNSD 100
++ L R GN +DD FE W G++ SD
Sbjct: 157 ESYAGHYVPELSQLVHRSKNPVINLKGFMVGNGLIDDYHDYVGTFEFWWNHGIV----SD 212
Query: 101 QTHKGLFTNC 110
T++ L C
Sbjct: 213 DTYRRLKEAC 222
>pdb|1GXS|A Chain A, Crystal Structure Of Hydroxynitrile Lyase From Sorghum
Bicolor In Complex With Inhibitor Benzoic Acid: A Novel
Cyanogenic Enzyme
pdb|1GXS|C Chain C, Crystal Structure Of Hydroxynitrile Lyase From Sorghum
Bicolor In Complex With Inhibitor Benzoic Acid: A Novel
Cyanogenic Enzyme
Length = 270
Score = 52.8 bits (125), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 27/52 (51%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 11 ECPAGMGLSYSNTKSDYNPNADKSTAQDSYTFPISWLERLPQYKTSFFNTLG 62
E PAG+G SYSNT SD + DK AQD+YTF + W ER P Y F G
Sbjct: 106 ESPAGVGFSYSNTSSDLSMGDDK-MAQDTYTFLVKWFERFPHYNYREFYIAG 156
>pdb|4AZ0|A Chain A, Crystal Structure Of Cathepsin A, Complexed With 8a.
pdb|4AZ3|A Chain A, Crystal Structure Of Cathepsin A, Complexed With 15a
Length = 300
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 4 MAYAISLECPAGMGLSYSNTKSDYNPNADKSTAQDSYTFPISWLERLPQYKTS 56
+A + LE PAG+G SYS+ K + D AQ ++ + P+YK +
Sbjct: 94 IANVLYLESPAGVGFSYSDDK--FYATNDTEVAQSNFEALQDFFRLFPEYKNN 144
>pdb|1IVY|A Chain A, Physiological Dimer Hpp Precursor
pdb|1IVY|B Chain B, Physiological Dimer Hpp Precursor
Length = 452
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 4 MAYAISLECPAGMGLSYSNTKSDYNPNADKSTAQDSYTFPISWLERLPQYKTS 56
+A + LE PAG+G SYS+ K + D AQ ++ + P+YK +
Sbjct: 92 IANVLYLESPAGVGFSYSDDK--FYATNDTEVAQSNFEALQDFFRLFPEYKNN 142
>pdb|3E0F|A Chain A, Crystal Structure Of A Putative Metal-Dependent
Phosphoesterase (Bad_1165) From Bifidobacterium
Adolescentis Atcc 15703 At 2.40 A Resolution
pdb|3O0F|A Chain A, Crystal Structure Of A Putative Metal-Dependent
Phosphoesterase (Bad_1165) From Bifidobacterium
Adolescentis Atcc 15703 At 1.94 A Resolution
Length = 301
Score = 28.5 bits (62), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 23/47 (48%)
Query: 20 YSNTKSDYNPNADKSTAQDSYTFPISWLERLPQYKTSFFNTLGVTHL 66
++NT++ + + S FPI+W + L Q K T+G H+
Sbjct: 103 FANTRAARLRRTKRXVERLSQDFPITWDDVLAQVKEGERTTIGRPHI 149
>pdb|1B8M|A Chain A, Brain Derived Neurotrophic Factor, Neurotrophin-4
Length = 119
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 13 PAGMG-LSYSNTKSDYNPNADKSTAQDSYTFPISWLERLP----QYKTSFFNTLGVTHLY 67
PA G LS ++ S++ ADK TA D ++ LE++P Q K F+ T Y
Sbjct: 4 PARRGELSVCDSISEWVTAADKKTAVDMSGGTVTVLEKVPVSKGQLKQYFYETKCNPMGY 63
Query: 68 FRRGNAWVD 76
+ G +D
Sbjct: 64 TKEGCRGID 72
>pdb|1BND|A Chain A, Structure Of The Brain-Derived Neurotrophic
Factor(Slash)neurotrophin 3 Heterodimer
Length = 119
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 13 PAGMG-LSYSNTKSDYNPNADKSTAQDSYTFPISWLERLP----QYKTSFFNTLGVTHLY 67
PA G LS ++ S++ ADK TA D ++ LE++P Q K F+ T Y
Sbjct: 4 PARRGQLSVCDSISEWVTAADKKTAVDMSGGTVTVLEKVPVSKGQLKQYFYETKCNPMGY 63
Query: 68 FRRGNAWVD 76
+ G +D
Sbjct: 64 TKEGCRGID 72
>pdb|2C4M|A Chain A, Starch Phosphorylase: Structural Studies Explain Oxyanion-
Dependent Kinetic Stability And Regulatory Control.
pdb|2C4M|B Chain B, Starch Phosphorylase: Structural Studies Explain Oxyanion-
Dependent Kinetic Stability And Regulatory Control.
pdb|2C4M|C Chain C, Starch Phosphorylase: Structural Studies Explain Oxyanion-
Dependent Kinetic Stability And Regulatory Control.
pdb|2C4M|D Chain D, Starch Phosphorylase: Structural Studies Explain Oxyanion-
Dependent Kinetic Stability And Regulatory Control
Length = 796
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 23/50 (46%)
Query: 47 LERLPQYKTSFFNTLGVTHLYFRRGNAWVDDATGATDLFEHRWTTGLMHA 96
++RL +YK N L V LYFR + D T +F + G + A
Sbjct: 522 IKRLHEYKRQLMNALYVLDLYFRIKEDGLTDIPARTVIFGAKAAPGYVRA 571
>pdb|3OLM|A Chain A, Structure And Function Of A Ubiquitin Binding Site
Within The Catalytic Domain Of A Hect Ubiquitin Ligase
Length = 429
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 13 PAGMGLSYSNTKSDYNPNAD-KSTAQDSYTFPISWLERLPQYKTSFFNTLGVTHLYFR 69
P+G + +NT Y + + K+T D P S + +PQYK F + +YFR
Sbjct: 10 PSGWEMRLTNTARVYFVDHNTKTTTWDDPRLPSSLDQNVPQYKRDFRRKV----IYFR 63
>pdb|3ES5|A Chain A, Crystal Structure Of Partitivirus (Psv-F)
pdb|3ES5|B Chain B, Crystal Structure Of Partitivirus (Psv-F)
Length = 420
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 7/57 (12%)
Query: 8 ISLECPAGMGLSYSNT-------KSDYNPNADKSTAQDSYTFPISWLERLPQYKTSF 57
+S E GM N + P STAQ + T + W++ LPQ T F
Sbjct: 1 MSFETSEGMSRPGDNPNKLNAKPRQSARPKTRNSTAQSNQTMRLGWIDPLPQVDTIF 57
>pdb|1T77|A Chain A, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
pdb|1T77|B Chain B, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
pdb|1T77|C Chain C, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
pdb|1T77|D Chain D, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
Length = 414
Score = 25.8 bits (55), Expect = 5.8, Method: Composition-based stats.
Identities = 12/43 (27%), Positives = 20/43 (46%)
Query: 20 YSNTKSDYNPNADKSTAQDSYTFPISWLERLPQYKTSFFNTLG 62
Y + + D P T + +F ++WL R+ + T F N G
Sbjct: 213 YESWEDDQVPKFHYGTHYSTASFVLAWLLRIEPFTTYFLNLQG 255
>pdb|1MI1|A Chain A, Crystal Structure Of The Ph-Beach Domain Of Human
Neurobeachin
pdb|1MI1|B Chain B, Crystal Structure Of The Ph-Beach Domain Of Human
Neurobeachin
Length = 414
Score = 25.4 bits (54), Expect = 9.3, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 20 YSNTKSDYNPNADKSTAQDSYTFPISWLERLPQYKTSFFN 59
Y + D +P +T + T +SWL R+ + T F N
Sbjct: 213 YETWEDDQSPPYHYNTHYSTATSTLSWLVRIEPFTTFFLN 252
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 0.132 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,837,872
Number of Sequences: 62578
Number of extensions: 154604
Number of successful extensions: 294
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 273
Number of HSP's gapped (non-prelim): 19
length of query: 115
length of database: 14,973,337
effective HSP length: 78
effective length of query: 37
effective length of database: 10,092,253
effective search space: 373413361
effective search space used: 373413361
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)