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= 041087
(250 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 114 bits (285), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 64/143 (44%), Positives = 76/143 (53%), Gaps = 7/143 (4%)
Query: 63 ADKIKLLPGQSNGVDFDQYSGYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCS 122
AD+I LPGQ VDFD YSGY+TVD +GRSLFY E+P+++ P +LWL+GGPGCS
Sbjct: 8 ADRIARLPGQP-AVDFDMYSGYITVDEGAGRSLFYLLQEAPEDAQPAPLVLWLNGGPGCS 66
Query: 123 SLAYGAVTESGSFRMNKDGKTLFRNNYAWNNGDKTLRLGKRDILGIQRGWGFGTQVQLRT 182
S+AYGA E G+FR+ G L N Y WN L L G GF
Sbjct: 67 SVAYGASEELGAFRVKPRGAGLVLNEYRWNKVANVL------FLDSPAGVGFSYTNTSSD 120
Query: 183 ISLMVKNSMIKIHIPFLIKWLER 205
I N FL KW ER
Sbjct: 121 IYTSGDNRTAHDSYAFLAKWFER 143
>pdb|3SC2|A Chain A, Refined Atomic Model Of Wheat Serine Carboxypeptidase Ii
At 2.2- Angstroms Resolution
Length = 259
Score = 114 bits (285), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 64/143 (44%), Positives = 76/143 (53%), Gaps = 7/143 (4%)
Query: 63 ADKIKLLPGQSNGVDFDQYSGYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCS 122
AD+I LPGQ VDFD YSGY+TVD +GRSLFY E+P+++ P +LWL+GGPGCS
Sbjct: 8 ADRIARLPGQP-AVDFDMYSGYITVDEGAGRSLFYLLQEAPEDAQPAPLVLWLNGGPGCS 66
Query: 123 SLAYGAVTESGSFRMNKDGKTLFRNNYAWNNGDKTLRLGKRDILGIQRGWGFGTQVQLRT 182
S+AYGA E G+FR+ G L N Y WN L L G GF
Sbjct: 67 SVAYGASEELGAFRVKPAGAGLVLNEYRWNKVANVL------FLDSPAGVGFSYTNTSSD 120
Query: 183 ISLMVKNSMIKIHIPFLIKWLER 205
I N FL KW ER
Sbjct: 121 IYTSGDNRTAHDSYAFLAKWFER 143
>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 = 114 bits (284), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 64/143 (44%), Positives = 76/143 (53%), Gaps = 7/143 (4%)
Query: 63 ADKIKLLPGQSNGVDFDQYSGYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCS 122
AD+I LPGQ VDFD YSGY+TVD +GRSLFY E+P+++ P +LWL+GGPGCS
Sbjct: 3 ADRIARLPGQP-AVDFDMYSGYITVDEGAGRSLFYLLQEAPEDAQPAPLVLWLNGGPGCS 61
Query: 123 SLAYGAVTESGSFRMNKDGKTLFRNNYAWNNGDKTLRLGKRDILGIQRGWGFGTQVQLRT 182
S+AYGA E G+FR+ G L N Y WN L L G GF
Sbjct: 62 SVAYGASEELGAFRVKPRGAGLVLNEYRWNKVANVL------FLDSPAGVGFSYTNTSSD 115
Query: 183 ISLMVKNSMIKIHIPFLIKWLER 205
I N FL KW ER
Sbjct: 116 IYTSGDNRTAHDSYAFLAKWFER 138
>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 = 114 bits (284), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 64/143 (44%), Positives = 76/143 (53%), Gaps = 7/143 (4%)
Query: 63 ADKIKLLPGQSNGVDFDQYSGYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCS 122
AD+I LPGQ VDFD YSGY+TVD +GRSLFY E+P+++ P +LWL+GGPGCS
Sbjct: 4 ADRIARLPGQP-AVDFDMYSGYITVDEGAGRSLFYLLQEAPEDAQPAPLVLWLNGGPGCS 62
Query: 123 SLAYGAVTESGSFRMNKDGKTLFRNNYAWNNGDKTLRLGKRDILGIQRGWGFGTQVQLRT 182
S+AYGA E G+FR+ G L N Y WN L L G GF
Sbjct: 63 SVAYGASEELGAFRVKPRGAGLVLNEYRWNKVANVL------FLDSPAGVGFSYTNTSSD 116
Query: 183 ISLMVKNSMIKIHIPFLIKWLER 205
I N FL KW ER
Sbjct: 117 IYTSGDNRTAHDSYAFLAKWFER 139
>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 = 103 bits (257), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 59/146 (40%), Positives = 82/146 (56%), Gaps = 10/146 (6%)
Query: 62 QADKIKLLPGQSNGVDFDQYSGYVTVDPKSGRSLFYYFAESPQNSSTNPSL-LWLDGGPG 120
+ D+I LPGQ NGV F Y GYVT+D +GR+L+Y+F E+ L LWL+GGPG
Sbjct: 6 EDDRILGLPGQPNGVAFGMYGGYVTIDDNNGRALYYWFQEADTADPAAAPLVLWLNGGPG 65
Query: 121 CSSLAYGAVTESGSFRMNKDGKTLFRNNYAWNNGDKTLRLGKRDILGIQRGWGFGTQVQL 180
CSS+ GA+ E G+FR++ +G++L N YAWN +IL + G G
Sbjct: 66 CSSIGLGAMQELGAFRVHTNGESLLLNEYAWNKA--------ANILFAESPAGVGFSYSN 117
Query: 181 RTISL-MVKNSMIKIHIPFLIKWLER 205
+ L M + M + FL+KW ER
Sbjct: 118 TSSDLSMGDDKMAQDTYTFLVKWFER 143
>pdb|1IVY|A Chain A, Physiological Dimer Hpp Precursor
pdb|1IVY|B Chain B, Physiological Dimer Hpp Precursor
Length = 452
Score = 78.6 bits (192), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 41/89 (46%), Positives = 55/89 (61%), Gaps = 3/89 (3%)
Query: 64 DKIKLLPGQSNGVDFDQYSGYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCSS 123
D+I+ LPG + F QYSGY+ + L Y+F ES ++ +P +LWL+GGPGCSS
Sbjct: 5 DEIQRLPGLAKQPSFRQYSGYLK--SSGSKHLHYWFVESQKDPENSPVVLWLNGGPGCSS 62
Query: 124 LAYGAVTESGSFRMNKDGKTLFRNNYAWN 152
L G +TE G F + DG TL N Y+WN
Sbjct: 63 LD-GLLTEHGPFLVQPDGVTLEYNPYSWN 90
>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 = 77.8 bits (190), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 41/89 (46%), Positives = 55/89 (61%), Gaps = 3/89 (3%)
Query: 64 DKIKLLPGQSNGVDFDQYSGYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCSS 123
D+I+ LPG + F QYSGY+ + L Y+F ES ++ +P +LWL+GGPGCSS
Sbjct: 7 DEIQRLPGLAKQPSFRQYSGYLK--GSGSKHLHYWFVESQKDPENSPVVLWLNGGPGCSS 64
Query: 124 LAYGAVTESGSFRMNKDGKTLFRNNYAWN 152
L G +TE G F + DG TL N Y+WN
Sbjct: 65 LD-GLLTEHGPFLVQPDGVTLEYNPYSWN 92
>pdb|1AC5|A Chain A, Crystal Structure Of Kex1(delta)p, A Prohormone-processing
Carboxypeptidase From Saccharomyces Cerevisiae
Length = 483
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 44/126 (34%), Positives = 65/126 (51%), Gaps = 23/126 (18%)
Query: 67 KLLPGQSNGVDFDQ----YSGYVTV-----DPKSGRSLFYYFAESPQNSST----NPSLL 113
+LLPG S D ++G++ + D + L Y+F + N S P ++
Sbjct: 12 ELLPGLSEVPDPSNIPQMHAGHIPLRSEDADEQDSSDLEYFFWKFTNNDSNGNVDRPLII 71
Query: 114 WLDGGPGCSSLAYGAVTESGSFRMNKDGKTLFRNNYAWNNGDKTLRLGKRDILGIQRGWG 173
WL+GGPGCSS+ GA+ ESG FR+N DGK L+ N +W + K D+L I + G
Sbjct: 72 WLNGGPGCSSMD-GALVESGPFRVNSDGK-LYLNEGSW--------ISKGDLLFIDQPTG 121
Query: 174 FGTQVQ 179
G V+
Sbjct: 122 TGFSVE 127
>pdb|1WPX|A Chain A, Crystal Structure Of Carboxypeptidase Y Inhibitor
Complexed With The Cognate Proteinase
pdb|1YSC|A Chain A, 2.8 Angstroms Structure Of Yeast Serine Carboxypeptidase
Length = 421
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/83 (37%), Positives = 47/83 (56%), Gaps = 3/83 (3%)
Query: 80 QYSGYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCSSLAYGAVTESGSFRMNK 139
QY+GY+ V+ + F+ F ES + + +P +LWL+GGPGCSSL G E G +
Sbjct: 16 QYTGYLDVEDEDKHFFFWTF-ESRNDPAKDPVILWLNGGPGCSSLT-GLFFELGPSSIGP 73
Query: 140 DGKTLFRNNYAWNNGDKTLRLGK 162
D K + N Y+WN+ + L +
Sbjct: 74 DLKPI-GNPYSWNSNATVIFLDQ 95
>pdb|1CPY|A Chain A, Site-Directed Mutagenesis On (Serine) Carboxypeptidase Y
From Yeast. The Significance Of Thr 60 And Met 398 In
Hydrolysis And Aminolysis Reactions
Length = 421
Score = 50.4 bits (119), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 46/83 (55%), Gaps = 3/83 (3%)
Query: 80 QYSGYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCSSLAYGAVTESGSFRMNK 139
QY+GY+ V+ + F+ F ES + + +P +LWL+GGPGCSSL G G +
Sbjct: 16 QYTGYLDVEDEDKHFFFWTF-ESRNDPAKDPVILWLNGGPGCSSLT-GLFFALGPSSIGP 73
Query: 140 DGKTLFRNNYAWNNGDKTLRLGK 162
D K + N Y+WN+ + L +
Sbjct: 74 DLKPI-GNPYSWNSNATVIFLDQ 95
>pdb|3OU5|A Chain A, Human Mitochondrial Serine Hydroxymethyltransferase 2
Length = 490
Score = 32.3 bits (72), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 33/64 (51%), Gaps = 5/64 (7%)
Query: 67 KLLPGQSNGVDFDQYSGYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCSSLAY 126
K L G +G+ F + G VDPK+GR + Y F E N + PS L GGP ++A
Sbjct: 266 KTLRGARSGLIFYR-KGVKAVDPKTGREIPYTF-EDRINFAVFPS---LQGGPHNHAIAA 320
Query: 127 GAVT 130
AV
Sbjct: 321 VAVA 324
>pdb|1CJ0|A Chain A, Crystal Structure Of Rabbit Cytosolic Serine
Hydroxymethyltransferase At 2.8 Angstrom Resolution
pdb|1CJ0|B Chain B, Crystal Structure Of Rabbit Cytosolic Serine
Hydroxymethyltransferase At 2.8 Angstrom Resolution
Length = 470
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 83 GYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCSSLAYGAVT 130
G +VDPK+G+ + Y ES NS+ P L GGP ++A AV
Sbjct: 258 GVRSVDPKTGKEILYNL-ESLINSAVFPG---LQGGPHNHAIAGVAVA 301
>pdb|1RVU|A Chain A, E75q Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase
pdb|1RVU|B Chain B, E75q Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase
pdb|1RVY|A Chain A, E75q Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase, Complex With Glycine
pdb|1RVY|B Chain B, E75q Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase, Complex With Glycine
Length = 483
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 83 GYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCSSLAYGAVT 130
G +VDPK+G+ + Y ES NS+ P L GGP ++A AV
Sbjct: 271 GVRSVDPKTGKEILYNL-ESLINSAVFPG---LQGGPHNHAIAGVAVA 314
>pdb|1LS3|B Chain B, Crystal Structure Of The Complex Between Rabbit Cytosolic
Serine Hydroxymethyltransferase And
Triglu-5-Formyl-Tetrahydrofolate
pdb|1LS3|D Chain D, Crystal Structure Of The Complex Between Rabbit Cytosolic
Serine Hydroxymethyltransferase And
Triglu-5-Formyl-Tetrahydrofolate
pdb|1LS3|A Chain A, Crystal Structure Of The Complex Between Rabbit Cytosolic
Serine Hydroxymethyltransferase And
Triglu-5-Formyl-Tetrahydrofolate
pdb|1LS3|C Chain C, Crystal Structure Of The Complex Between Rabbit Cytosolic
Serine Hydroxymethyltransferase And
Triglu-5-Formyl-Tetrahydrofolate
Length = 483
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 83 GYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCSSLAYGAVT 130
G +VDPK+G+ + Y ES NS+ P L GGP ++A AV
Sbjct: 271 GVRSVDPKTGKEILYNL-ESLINSAVFPG---LQGGPHNHAIAGVAVA 314
>pdb|1RV3|A Chain A, E75l Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase, Complex With Glycine
pdb|1RV4|A Chain A, E75l Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase
pdb|1RV4|B Chain B, E75l Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase
pdb|1RV3|B Chain B, E75l Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase, Complex With Glycine
Length = 483
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 83 GYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCSSLAYGAVT 130
G +VDPK+G+ + Y ES NS+ P L GGP ++A AV
Sbjct: 271 GVRSVDPKTGKEILYNL-ESLINSAVFPG---LQGGPHNHAIAGVAVA 314
>pdb|1EJI|A Chain A, Recombinant Serine Hydroxymethyltransferase (Mouse)
pdb|1EJI|B Chain B, Recombinant Serine Hydroxymethyltransferase (Mouse)
pdb|1EJI|C Chain C, Recombinant Serine Hydroxymethyltransferase (Mouse)
pdb|1EJI|D Chain D, Recombinant Serine Hydroxymethyltransferase (Mouse)
Length = 478
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 83 GYVTVDPKSGRSLFYYFAESPQNSSTNPSLLWLDGGPGCSSLAYGAVT 130
G +VDPK+G+ YY ES NS+ P L GGP ++A AV
Sbjct: 266 GVRSVDPKTGKET-YYELESLINSAVFPG---LQGGPHNHAIAGVAVA 309
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 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,387,215
Number of Sequences: 62578
Number of extensions: 301787
Number of successful extensions: 580
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 564
Number of HSP's gapped (non-prelim): 26
length of query: 250
length of database: 14,973,337
effective HSP length: 96
effective length of query: 154
effective length of database: 8,965,849
effective search space: 1380740746
effective search space used: 1380740746
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: 50 (23.9 bits)