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= 029797
(187 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2A33|A Chain A, X-Ray Structure Of A Lysine Decarboxylase-Like Protein
From Arabidopsis Thaliana Gene At2g37210
pdb|2A33|B Chain B, X-Ray Structure Of A Lysine Decarboxylase-Like Protein
From Arabidopsis Thaliana Gene At2g37210
pdb|2Q4O|A Chain A, Ensemble Refinement Of The Crystal Structure Of A Lysine
Decarboxylase-Like Protein From Arabidopsis Thaliana
Gene At2g37210
pdb|2Q4O|B Chain B, Ensemble Refinement Of The Crystal Structure Of A Lysine
Decarboxylase-Like Protein From Arabidopsis Thaliana
Gene At2g37210
Length = 215
Score = 183 bits (465), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 97/145 (66%), Positives = 116/145 (80%)
Query: 2 EMEGKIQKNSRFKRVCVFCGSSTGKRNCYSDAAIDLAHELVARRLDLVYGGGSIGLMGLV 61
E++G+ + S+F+R+CVFCGSS GK++ Y DAA+DL +ELV+R +DLVYGGGSIGL GLV
Sbjct: 2 EIKGESXQKSKFRRICVFCGSSQGKKSSYQDAAVDLGNELVSRNIDLVYGGGSIGLXGLV 61
Query: 62 SKAXXXXXXXXXXXXPRTLMNKEITGETVGEVRPVADMHQRKAEMARHSDCFIALPGGYG 121
S+A P+TL +E+TGETVGEVR VAD HQRKAE A+HSD FIALPGGYG
Sbjct: 62 SQAVHDGGRHVIGIIPKTLXPRELTGETVGEVRAVADXHQRKAEXAKHSDAFIALPGGYG 121
Query: 122 TLEELLEVITWAQLGIHDKPVCVAN 146
TLEELLEVITWAQLGIHDKPV + N
Sbjct: 122 TLEELLEVITWAQLGIHDKPVGLLN 146
>pdb|1YDH|A Chain A, X-Ray Structure Of A Lysine Decarboxylase-Like Protein
From Arabidopsis Thaliana Gene At5g11950
pdb|1YDH|B Chain B, X-Ray Structure Of A Lysine Decarboxylase-Like Protein
From Arabidopsis Thaliana Gene At5g11950
pdb|2Q4D|A Chain A, Ensemble Refinement Of The Crystal Structure Of A Lysine
Decarboxylase-Like Protein From Arabidopsis Thaliana
Gene At5g11950
pdb|2Q4D|B Chain B, Ensemble Refinement Of The Crystal Structure Of A Lysine
Decarboxylase-Like Protein From Arabidopsis Thaliana
Gene At5g11950
Length = 216
Score = 138 bits (348), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 79/139 (56%), Positives = 101/139 (72%)
Query: 8 QKNSRFKRVCVFCGSSTGKRNCYSDAAIDLAHELVARRLDLVYGGGSIGLMGLVSKAXXX 67
+ SRF+++CVFCGS +G R +SDAAI+L +ELV R++DLVYGGGS+GL GL+S+
Sbjct: 4 NQRSRFRKICVFCGSHSGHREVFSDAAIELGNELVKRKIDLVYGGGSVGLXGLISRRVYE 63
Query: 68 XXXXXXXXXPRTLMNKEITGETVGEVRPVADMHQRKAEMARHSDCFIALPGGYGTLEELL 127
P+ L EI+GETVG+VR VAD H+RKA A+ ++ FIALPGGYGT EELL
Sbjct: 64 GGLHVLGIIPKALXPIEISGETVGDVRVVADXHERKAAXAQEAEAFIALPGGYGTXEELL 123
Query: 128 EVITWAQLGIHDKPVCVAN 146
E ITW+QLGIH K V + N
Sbjct: 124 EXITWSQLGIHKKTVGLLN 142
>pdb|1T35|A Chain A, Crystal Structure Of A Hypothetical Protein Yvdd- A
Putative Lysine Decarboxylase
pdb|1T35|B Chain B, Crystal Structure Of A Hypothetical Protein Yvdd- A
Putative Lysine Decarboxylase
pdb|1T35|C Chain C, Crystal Structure Of A Hypothetical Protein Yvdd- A
Putative Lysine Decarboxylase
pdb|1T35|D Chain D, Crystal Structure Of A Hypothetical Protein Yvdd- A
Putative Lysine Decarboxylase
pdb|1T35|E Chain E, Crystal Structure Of A Hypothetical Protein Yvdd- A
Putative Lysine Decarboxylase
pdb|1T35|F Chain F, Crystal Structure Of A Hypothetical Protein Yvdd- A
Putative Lysine Decarboxylase
pdb|1T35|G Chain G, Crystal Structure Of A Hypothetical Protein Yvdd- A
Putative Lysine Decarboxylase
pdb|1T35|H Chain H, Crystal Structure Of A Hypothetical Protein Yvdd- A
Putative Lysine Decarboxylase
Length = 191
Score = 103 bits (258), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 52/133 (39%), Positives = 75/133 (56%)
Query: 14 KRVCVFCGSSTGKRNCYSDAAIDLAHELVARRLDLVYGGGSIGLMGLVSKAXXXXXXXXX 73
K +CVF GS+ G Y A +L + + LVYGG +GL G ++ A
Sbjct: 2 KTICVFAGSNPGGNEAYKRKAAELGVYXAEQGIGLVYGGSRVGLXGTIADAIXENGGTAI 61
Query: 74 XXXPRTLMNKEITGETVGEVRPVADMHQRKAEMARHSDCFIALPGGYGTLEELLEVITWA 133
P L + E+ + + E+ V H+RKA+ + +D FI+ PGG+GT EEL EV+ WA
Sbjct: 62 GVXPSGLFSGEVVHQNLTELIEVNGXHERKAKXSELADGFISXPGGFGTYEELFEVLCWA 121
Query: 134 QLGIHDKPVCVAN 146
Q+GIH KP+ + N
Sbjct: 122 QIGIHQKPIGLYN 134
>pdb|3QUA|A Chain A, Crystal Structure Of A Putative Uncharacterized Protein
And Possible Molybdenum Cofactor Protein From
Mycobacterium Smegmatis
pdb|3QUA|B Chain B, Crystal Structure Of A Putative Uncharacterized Protein
And Possible Molybdenum Cofactor Protein From
Mycobacterium Smegmatis
Length = 199
Score = 87.8 bits (216), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 50/139 (35%), Positives = 70/139 (50%), Gaps = 1/139 (0%)
Query: 8 QKNSRFKRVCVFCGSSTGKRNCYSDAAIDLAHELVARRLDLVYGGGSIGLMGLVSKAXXX 67
+ R VCV+C S AA ++ + AR LV GGG++ MG V++A
Sbjct: 17 EGQDRQWAVCVYCASGPTHPELLELAA-EVGSSIAARGWTLVSGGGNVSAMGAVAQAARA 75
Query: 68 XXXXXXXXXPRTLMNKEITGETVGEVRPVADMHQRKAEMARHSDCFIALPGGYGTLEELL 127
P+ L+++E+ E+ M +RK EM SD FIALPGG GTLEE
Sbjct: 76 KGGHTVGVIPKALVHRELADVDAAELIVTDTMRERKREMEHRSDAFIALPGGIGTLEEFF 135
Query: 128 EVITWAQLGIHDKPVCVAN 146
E T LG+HDKP+ + +
Sbjct: 136 EAWTAGYLGMHDKPLILLD 154
>pdb|3SBX|A Chain A, Crystal Structure Of A Putative Uncharacterized Protein
From Mycobacterium Marinum Bound To Adenosine
5'-Monophosphate Amp
pdb|3SBX|B Chain B, Crystal Structure Of A Putative Uncharacterized Protein
From Mycobacterium Marinum Bound To Adenosine
5'-Monophosphate Amp
pdb|3SBX|C Chain C, Crystal Structure Of A Putative Uncharacterized Protein
From Mycobacterium Marinum Bound To Adenosine
5'-Monophosphate Amp
pdb|3SBX|D Chain D, Crystal Structure Of A Putative Uncharacterized Protein
From Mycobacterium Marinum Bound To Adenosine
5'-Monophosphate Amp
pdb|3SBX|E Chain E, Crystal Structure Of A Putative Uncharacterized Protein
From Mycobacterium Marinum Bound To Adenosine
5'-Monophosphate Amp
pdb|3SBX|F Chain F, Crystal Structure Of A Putative Uncharacterized Protein
From Mycobacterium Marinum Bound To Adenosine
5'-Monophosphate Amp
pdb|3SBX|G Chain G, Crystal Structure Of A Putative Uncharacterized Protein
From Mycobacterium Marinum Bound To Adenosine
5'-Monophosphate Amp
pdb|3SBX|H Chain H, Crystal Structure Of A Putative Uncharacterized Protein
From Mycobacterium Marinum Bound To Adenosine
5'-Monophosphate Amp
Length = 189
Score = 71.6 bits (174), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 38/99 (38%), Positives = 54/99 (54%)
Query: 48 LVYGGGSIGLMGLVSKAXXXXXXXXXXXXPRTLMNKEITGETVGEVRPVADMHQRKAEMA 107
LV+GGG + MG VS A P+ L+++E+ E+ M +RK M
Sbjct: 47 LVWGGGHVSAMGAVSSAARAHGGWTVGVIPKMLVHRELADHDADELVVTETMWERKQVME 106
Query: 108 RHSDCFIALPGGYGTLEELLEVITWAQLGIHDKPVCVAN 146
++ FI LPGG GTL+ELL+V T LG+HDK + V +
Sbjct: 107 DRANAFITLPGGVGTLDELLDVWTEGYLGMHDKSIVVLD 145
>pdb|1WEK|A Chain A, Crystal Structure Of The Conserved Hypothetical Protein
Tt1465 From Thermus Thermophilus Hb8
pdb|1WEK|B Chain B, Crystal Structure Of The Conserved Hypothetical Protein
Tt1465 From Thermus Thermophilus Hb8
pdb|1WEK|C Chain C, Crystal Structure Of The Conserved Hypothetical Protein
Tt1465 From Thermus Thermophilus Hb8
pdb|1WEK|D Chain D, Crystal Structure Of The Conserved Hypothetical Protein
Tt1465 From Thermus Thermophilus Hb8
pdb|1WEK|E Chain E, Crystal Structure Of The Conserved Hypothetical Protein
Tt1465 From Thermus Thermophilus Hb8
pdb|1WEK|F Chain F, Crystal Structure Of The Conserved Hypothetical Protein
Tt1465 From Thermus Thermophilus Hb8
Length = 217
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 102 RKAEMARHSDCFIALPGGYGTLEELLEVITWAQL-GIHDKPVCVANK 147
RK R++ F+ LPGG+GTL+EL EV+ Q +H PV + ++
Sbjct: 124 RKVLFVRYAVGFVFLPGGFGTLDELSEVLVLLQTEKVHRFPVFLLDR 170
>pdb|1WEH|A Chain A, Crystal Structure Of The Conserved Hypothetical Protein
Tt1887 From Thermus Thermophilus Hb8
pdb|1WEH|B Chain B, Crystal Structure Of The Conserved Hypothetical Protein
Tt1887 From Thermus Thermophilus Hb8
Length = 171
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 95 PVADMHQRKAEMARHSDCFIALPGGYGTLEELLEVITW 132
P A + QR + ++ALPGG GTL EL V+ W
Sbjct: 83 PAATLPQRIGRLLDLGAGYLALPGGVGTLAEL--VLAW 118
>pdb|2PMB|A Chain A, Crystal Structure Of Predicted Nucleotide-binding Protein
From Vibrio Cholerae
pdb|2PMB|B Chain B, Crystal Structure Of Predicted Nucleotide-binding Protein
From Vibrio Cholerae
pdb|2PMB|C Chain C, Crystal Structure Of Predicted Nucleotide-binding Protein
From Vibrio Cholerae
pdb|2PMB|D Chain D, Crystal Structure Of Predicted Nucleotide-binding Protein
From Vibrio Cholerae
pdb|3GH1|A Chain A, Crystal Structure Of Predicted Nucleotide-Binding Protein
From Vibrio Cholerae
pdb|3GH1|B Chain B, Crystal Structure Of Predicted Nucleotide-Binding Protein
From Vibrio Cholerae
pdb|3GH1|C Chain C, Crystal Structure Of Predicted Nucleotide-Binding Protein
From Vibrio Cholerae
pdb|3GH1|D Chain D, Crystal Structure Of Predicted Nucleotide-Binding Protein
From Vibrio Cholerae
Length = 462
Score = 30.8 bits (68), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 5/63 (7%)
Query: 79 TLMNKEITGETVGEVRPVADMHQRKAEMARHSDCFIALPGGYGTLEELLEVITWAQLGIH 138
+++ E V E+ D+ +R R + I PGG GT EELL + LGI
Sbjct: 217 SIIAAEPPNPIVNELVIXPDIEKRLEAFVRXAHGIIIFPGGPGTAEELLYI-----LGIX 271
Query: 139 DKP 141
P
Sbjct: 272 XHP 274
>pdb|3BQ9|A Chain A, Crystal Structure Of Predicted Nucleotide-Binding Protein
From Idiomarina Baltica Os145
pdb|3BQ9|B Chain B, Crystal Structure Of Predicted Nucleotide-Binding Protein
From Idiomarina Baltica Os145
Length = 460
Score = 27.7 bits (60), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 25/51 (49%)
Query: 80 LMNKEITGETVGEVRPVADMHQRKAEMARHSDCFIALPGGYGTLEELLEVI 130
++ E V E+ + D+ +R R + + PGG GT EELL ++
Sbjct: 216 IIAAEPPNPIVNELVILPDIEKRLEAFVRCAHGIVIFPGGAGTAEELLYLL 266
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
0.322 0.136 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,407,802
Number of Sequences: 62578
Number of extensions: 142784
Number of successful extensions: 249
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 240
Number of HSP's gapped (non-prelim): 9
length of query: 187
length of database: 14,973,337
effective HSP length: 93
effective length of query: 94
effective length of database: 9,153,583
effective search space: 860436802
effective search space used: 860436802
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: 48 (23.1 bits)