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= 029400
(194 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 = 73.2 bits (178), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 44/144 (30%), Positives = 72/144 (50%), Gaps = 8/144 (5%)
Query: 3 DTLSATQIYHFLRKWLIVHSDFLANPLYIAGDSYSGKIVPIVVQEISDGIDAGHKPRMNL 62
D +A Y FL KW + YIAG+SY+G VP E+S + P +NL
Sbjct: 126 DNRTAHDSYAFLAKWFERFPHYKYRDFYIAGESYAGHYVP----ELSQLVHRSKNPVINL 181
Query: 63 KGYMLGNPVTDDKIDQNSKIQFAYLNALITYEIYKSAKKNCKGD-YVNVDPGNYLCKADL 121
KG+M+GN + DD D +F + + +++ + Y+ K+ C D +++ P C A
Sbjct: 182 KGFMVGNGLIDDYHDYVGTFEFWWNHGIVSDDTYRRLKEACLHDSFIHPSPA---CDAAT 238
Query: 122 QNISACTGNVNGGNIYEPKCSFVS 145
+A GN++ ++Y P C+ S
Sbjct: 239 DVATAEQGNIDMYSLYTPVCNITS 262
>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 = 71.6 bits (174), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 43/141 (30%), Positives = 71/141 (50%), Gaps = 8/141 (5%)
Query: 3 DTLSATQIYHFLRKWLIVHSDFLANPLYIAGDSYSGKIVPIVVQEISDGIDAGHKPRMNL 62
D +A Y FL KW + YIAG+SY+G VP E+S + P +NL
Sbjct: 121 DNRTAHDSYAFLAKWFERFPHYKYRDFYIAGESYAGHYVP----ELSQLVHRSKNPVINL 176
Query: 63 KGYMLGNPVTDDKIDQNSKIQFAYLNALITYEIYKSAKKNCKGD-YVNVDPGNYLCKADL 121
KG+M+GN + DD D +F + + +++ + Y+ K+ C D +++ P C A
Sbjct: 177 KGFMVGNGLIDDYHDYVGTFEFWWNHGIVSDDTYRRLKEACLHDSFIHPSPA---CDAAT 233
Query: 122 QNISACTGNVNGGNIYEPKCS 142
+A GN++ ++Y P C+
Sbjct: 234 DVATAEQGNIDMYSLYTPVCN 254
>pdb|3SC2|A Chain A, Refined Atomic Model Of Wheat Serine Carboxypeptidase Ii
At 2.2- Angstroms Resolution
Length = 259
Score = 71.6 bits (174), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 43/141 (30%), Positives = 71/141 (50%), Gaps = 8/141 (5%)
Query: 3 DTLSATQIYHFLRKWLIVHSDFLANPLYIAGDSYSGKIVPIVVQEISDGIDAGHKPRMNL 62
D +A Y FL KW + YIAG+SY+G VP E+S + P +NL
Sbjct: 126 DNRTAHDSYAFLAKWFERFPHYKYRDFYIAGESYAGHYVP----ELSQLVHRSKNPVINL 181
Query: 63 KGYMLGNPVTDDKIDQNSKIQFAYLNALITYEIYKSAKKNCKGD-YVNVDPGNYLCKADL 121
KG+M+GN + DD D +F + + +++ + Y+ K+ C D +++ P C A
Sbjct: 182 KGFMVGNGLIDDYHDYVGTFEFWWNHGIVSDDTYRRLKEACLHDSFIHPSPA---CDAAT 238
Query: 122 QNISACTGNVNGGNIYEPKCS 142
+A GN++ ++Y P C+
Sbjct: 239 DVATAEQGNIDMYSLYTPVCN 259
>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 = 71.6 bits (174), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 43/141 (30%), Positives = 71/141 (50%), Gaps = 8/141 (5%)
Query: 3 DTLSATQIYHFLRKWLIVHSDFLANPLYIAGDSYSGKIVPIVVQEISDGIDAGHKPRMNL 62
D +A Y FL KW + YIAG+SY+G VP E+S + P +NL
Sbjct: 122 DNRTAHDSYAFLAKWFERFPHYKYRDFYIAGESYAGHYVP----ELSQLVHRSKNPVINL 177
Query: 63 KGYMLGNPVTDDKIDQNSKIQFAYLNALITYEIYKSAKKNCKGD-YVNVDPGNYLCKADL 121
KG+M+GN + DD D +F + + +++ + Y+ K+ C D +++ P C A
Sbjct: 178 KGFMVGNGLIDDYHDYVGTFEFWWNHGIVSDDTYRRLKEACLHDSFIHPSPA---CDAAT 234
Query: 122 QNISACTGNVNGGNIYEPKCS 142
+A GN++ ++Y P C+
Sbjct: 235 DVATAEQGNIDMYSLYTPVCN 255
>pdb|1IVY|A Chain A, Physiological Dimer Hpp Precursor
pdb|1IVY|B Chain B, Physiological Dimer Hpp Precursor
Length = 452
Score = 57.0 bits (136), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 9/138 (6%)
Query: 2 NDTLSATQIYHFLRKWLIVHSDFLANPLYIAGDSYSGKIVPIVVQEISDGIDAGHKPRMN 61
NDT A + L+ + + ++ N L++ G+SY+G +P + + P MN
Sbjct: 117 NDTEVAQSNFEALQDFFRLFPEYKNNKLFLTGESYAGIYIPTL------AVLVMQDPSMN 170
Query: 62 LKGYMLGNPVTDDKIDQNSKIQFAYLNALITYEIYKSAKKN-CKGDYVNV-DPGNYLCKA 119
L+G +GN ++ + + NS + FAY + L+ ++ S + + C + N D + C
Sbjct: 171 LQGLAVGNGLSSYEQNDNSLVYFAYYHGLLGNRLWSSLQTHCCSQNKCNFYDNKDLECVT 230
Query: 120 DLQNISACTGNVNGGNIY 137
+LQ ++ GN +G NIY
Sbjct: 231 NLQEVARIVGN-SGLNIY 247
>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 = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 9/138 (6%)
Query: 2 NDTLSATQIYHFLRKWLIVHSDFLANPLYIAGDSYSGKIVPIVVQEISDGIDAGHKPRMN 61
NDT A + L+ + + ++ N L++ G+SY+G +P + + P MN
Sbjct: 119 NDTEVAQSNFEALQDFFRLFPEYKNNKLFLTGESYAGIYIPTLA------VLVMQDPSMN 172
Query: 62 LKGYMLGNPVTDDKIDQNSKIQFAYLNALITYEIYKSAKKN-CKGDYVNV-DPGNYLCKA 119
L+G +GN ++ + + NS + FAY + L+ ++ S + + C + N D + C
Sbjct: 173 LQGLAVGNGLSSYEQNDNSLVYFAYYHGLLGNRLWSSLQTHCCSQNKCNFYDNKDLECVT 232
Query: 120 DLQNISACTGNVNGGNIY 137
+LQ ++ GN +G NIY
Sbjct: 233 NLQEVARIVGN-SGLNIY 249
>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 = 50.1 bits (118), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 39/142 (27%), Positives = 61/142 (42%), Gaps = 8/142 (5%)
Query: 1 MNDTLSATQIYHFLRKWLIVHSDFLANPLYIAGDSYSGKIVPIVVQEISDGIDAGHKPRM 60
M D A Y FL KW + YIAG+S G +P + Q + + + P +
Sbjct: 124 MGDDKMAQDTYTFLVKWFERFPHYNYREFYIAGES--GHFIPQLSQVVYR--NRNNSPFI 179
Query: 61 NLKGYMLGNPVTDDKIDQNSKIQFAYLNALITYEIYKSAKKNCKG-DYVNVDPGNYLCKA 119
N +G ++ + +T+D D + + + LI+ E S K C G +++ P C
Sbjct: 180 NFQGLLVSSGLTNDHEDMIGMFESWWHHGLISDETRDSGLKVCPGTSFMHPTP---ECTE 236
Query: 120 DLQNISACTGNVNGGNIYEPKC 141
A GN+N IY P C
Sbjct: 237 VWNKALAEQGNINPYTIYTPTC 258
>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 = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 8/75 (10%)
Query: 2 NDTLSATQIYHFLRKWLIVHSDFL--ANPLYIAGDSYSGKIVPIVVQEISDGIDAGHKPR 59
N + +Y+FL + +++ +IAG+SY+G +P+ EI HK R
Sbjct: 111 NTVAAGKDVYNFLELFFDQFPEYVNKGQDFHIAGESYAGHYIPVFASEI-----LSHKDR 165
Query: 60 -MNLKGYMLGNPVTD 73
NL ++GN +TD
Sbjct: 166 NFNLTSVLIGNGLTD 180
>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 = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 8/75 (10%)
Query: 2 NDTLSATQIYHFLRKWLIVHSDFL--ANPLYIAGDSYSGKIVPIVVQEISDGIDAGHKPR 59
N + +Y+FL + +++ +IAG SY+G +P+ EI HK R
Sbjct: 111 NTVAAGKDVYNFLELFFDQFPEYVNKGQDFHIAGASYAGHYIPVFASEI-----LSHKDR 165
Query: 60 -MNLKGYMLGNPVTD 73
NL ++GN +TD
Sbjct: 166 NFNLTSVLIGNGLTD 180
>pdb|1AC5|A Chain A, Crystal Structure Of Kex1(delta)p, A Prohormone-processing
Carboxypeptidase From Saccharomyces Cerevisiae
Length = 483
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 25/121 (20%), Positives = 50/121 (41%), Gaps = 9/121 (7%)
Query: 13 FLRKWLIVHSDFLANPLYIAGDSYSGKIVPIVVQEI--SDGIDAGHKPRMNLKGYMLGNP 70
FL + + + L + ++G+SY+G+ +P I + +LK ++GN
Sbjct: 154 FLENYFKIFPEDLTRKIILSGESYAGQYIPFFANAILNHNKFSKIDGDTYDLKALLIGNG 213
Query: 71 VTDDKIDQNSKIQFAYLNALI-----TYEIYKSAKKNCKG--DYVNVDPGNYLCKADLQN 123
D S + FA LI ++ +A +NC+ + + D + + +N
Sbjct: 214 WIDPNTQSLSYLPFAMEKKLIDESNPNFKHLTNAHENCQNLINSASTDEAAHFSYQECEN 273
Query: 124 I 124
I
Sbjct: 274 I 274
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 31/72 (43%), Gaps = 1/72 (1%)
Query: 85 AYLNALITYEIYKSAKKNCKGDYVNVDPGNYLCKADLQNISACTGNVNG-GNIYEPKCSF 143
A L + T KS C+ DY+ + + C A Q+I A + GN+Y KC
Sbjct: 40 AQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFT 99
Query: 144 VSPKPTRLSPRD 155
S RL P D
Sbjct: 100 CSTCRNRLVPGD 111
>pdb|2DFY|X Chain X, Crystal Structure Of A Cyclized Protein Fusion Of Lmo4 Lim
Domains 1 And 2 With The Lim Interacting Domain Of Ldb1
pdb|2DFY|C Chain C, Crystal Structure Of A Cyclized Protein Fusion Of Lmo4 Lim
Domains 1 And 2 With The Lim Interacting Domain Of Ldb1
Length = 195
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 31/72 (43%), Gaps = 1/72 (1%)
Query: 85 AYLNALITYEIYKSAKKNCKGDYVNVDPGNYLCKADLQNISACTGNVNG-GNIYEPKCSF 143
A L + T KS C+ DY+ + + C A Q+I A + GN+Y KC
Sbjct: 38 AQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFT 97
Query: 144 VSPKPTRLSPRD 155
S RL P D
Sbjct: 98 CSTCRNRLVPGD 109
>pdb|2ZW9|A Chain A, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZW9|B Chain B, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZWA|A Chain A, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZWA|B Chain B, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZZK|A Chain A, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZZK|B Chain B, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
Length = 695
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 30/49 (61%)
Query: 73 DDKIDQNSKIQFAYLNALITYEIYKSAKKNCKGDYVNVDPGNYLCKADL 121
+ ++ + +K+ FAY+N +++++SA + K + + V+P + L + L
Sbjct: 290 ESQVQRFNKLGFAYVNVGDMFQLWESADEATKKELLKVEPFDELEEFHL 338
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 0.138 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,118,385
Number of Sequences: 62578
Number of extensions: 250961
Number of successful extensions: 542
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 521
Number of HSP's gapped (non-prelim): 16
length of query: 194
length of database: 14,973,337
effective HSP length: 94
effective length of query: 100
effective length of database: 9,091,005
effective search space: 909100500
effective search space used: 909100500
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: 49 (23.5 bits)