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= 044681
(184 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 = 186 bits (471), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 101/189 (53%), Positives = 130/189 (68%), Gaps = 29/189 (15%)
Query: 8 KSRFKRVCVFCGSSPDYKYCYRKAAIDLGNELVSKGLDLVYGGGNVGLMGLISEEVHRGR 67
KS+F+R+CVFCGSS K Y+ AA+DLGNELVS+ +DLVYGGG++GL GL+S+ VH G
Sbjct: 10 KSKFRRICVFCGSSQGKKSSYQDAAVDLGNELVSRNIDLVYGGGSIGLXGLVSQAVHDGG 69
Query: 68 RHVLGIIPRALMKKELTGVTLGEVKPVDHMHQRKAEMARYADCFIVLPGGFGTLEKLFEV 127
RHV+GIIP+ L +ELTG T+GEV+ V HQRKAE A+++D FI LPGG+GTLE+L EV
Sbjct: 70 RHVIGIIPKTLXPRELTGETVGEVRAVADXHQRKAEXAKHSDAFIALPGGYGTLEELLEV 129
Query: 128 TTWSQLGVHNKPVAI-----------------------------IMVSASNAKELVQKLE 158
TW+QLG+H+KPV + I+VSA AKELV+KLE
Sbjct: 130 ITWAQLGIHDKPVGLLNVDGYYNSLLSFIDKAVEEGFISPTAREIIVSAPTAKELVKKLE 189
Query: 159 DYEPSHDGV 167
+Y P H+ V
Sbjct: 190 EYAPCHERV 198
>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 = 131 bits (329), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 90/189 (47%), Positives = 118/189 (62%), Gaps = 29/189 (15%)
Query: 8 KSRFKRVCVFCGSSPDYKYCYRKAAIDLGNELVSKGLDLVYGGGNVGLMGLISEEVHRGR 67
+SRF+++CVFCGS ++ + AAI+LGNELV + +DLVYGGG+VGL GLIS V+ G
Sbjct: 6 RSRFRKICVFCGSHSGHREVFSDAAIELGNELVKRKIDLVYGGGSVGLXGLISRRVYEGG 65
Query: 68 RHVLGIIPRALMKKELTGVTLGEVKPVDHMHQRKAEMARYADCFIVLPGGFGTLEKLFEV 127
HVLGIIP+AL E++G T+G+V+ V H+RKA A+ A+ FI LPGG+GT E+L E
Sbjct: 66 LHVLGIIPKALXPIEISGETVGDVRVVADXHERKAAXAQEAEAFIALPGGYGTXEELLEX 125
Query: 128 TTWSQLGVHNKPVAI-----------------------------IMVSASNAKELVQKLE 158
TWSQLG+H K V + I+VSA AKEL +K E
Sbjct: 126 ITWSQLGIHKKTVGLLNVDGYYNNLLALFDTGVEEGFIKPGARNIVVSAPTAKELXEKXE 185
Query: 159 DYEPSHDGV 167
+Y PSH V
Sbjct: 186 EYTPSHXHV 194
>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 = 117 bits (292), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 55/136 (40%), Positives = 80/136 (58%)
Query: 12 KRVCVFCGSSPDYKYCYRKAAIDLGNELVSKGLDLVYGGGNVGLMGLISEEVHRGRRHVL 71
K +CVF GS+P Y++ A +LG +G+ LVYGG VGL G I++ + +
Sbjct: 2 KTICVFAGSNPGGNEAYKRKAAELGVYXAEQGIGLVYGGSRVGLXGTIADAIXENGGTAI 61
Query: 72 GIIPRALMKKELTGVTLGEVKPVDHMHQRKAEMARYADCFIVLPGGFGTLEKLFEVTTWS 131
G+ P L E+ L E+ V+ H+RKA+ + AD FI PGGFGT E+LFEV W+
Sbjct: 62 GVXPSGLFSGEVVHQNLTELIEVNGXHERKAKXSELADGFISXPGGFGTYEELFEVLCWA 121
Query: 132 QLGVHNKPVAIIMVSA 147
Q+G+H KP+ + V+
Sbjct: 122 QIGIHQKPIGLYNVNG 137
>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 = 114 bits (286), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 57/139 (41%), Positives = 83/139 (59%), Gaps = 1/139 (0%)
Query: 5 KEAKSRFKRVCVFCGSSPDYKYCYRKAAIDLGNELVSKGLDLVYGGGNVGLMGLISEEVH 64
KE + R VCV+C S P + AA ++G+ + ++G LV GGGNV MG +++
Sbjct: 16 KEGQDRQWAVCVYCASGPTHPELLELAA-EVGSSIAARGWTLVSGGGNVSAMGAVAQAAR 74
Query: 65 RGRRHVLGIIPRALMKKELTGVTLGEVKPVDHMHQRKAEMARYADCFIVLPGGFGTLEKL 124
H +G+IP+AL+ +EL V E+ D M +RK EM +D FI LPGG GTLE+
Sbjct: 75 AKGGHTVGVIPKALVHRELADVDAAELIVTDTMRERKREMEHRSDAFIALPGGIGTLEEF 134
Query: 125 FEVTTWSQLGVHNKPVAII 143
FE T LG+H+KP+ ++
Sbjct: 135 FEAWTAGYLGMHDKPLILL 153
>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 = 73.2 bits (178), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 46/140 (32%), Positives = 77/140 (55%), Gaps = 2/140 (1%)
Query: 4 KKEAKSRFKRVCVFCGSSPDYKYCYRKAAIDLGNELVSKGLDLVYGGGNVGLMGLISEEV 63
K + R+ V V+C ++P + + A +G + ++G LV+GGG+V MG +S
Sbjct: 7 KSDEPGRWT-VAVYCAAAPTHPELL-ELAGAVGAAIAARGWTLVWGGGHVSAMGAVSSAA 64
Query: 64 HRGRRHVLGIIPRALMKKELTGVTLGEVKPVDHMHQRKAEMARYADCFIVLPGGFGTLEK 123
+G+IP+ L+ +EL E+ + M +RK M A+ FI LPGG GTL++
Sbjct: 65 RAHGGWTVGVIPKMLVHRELADHDADELVVTETMWERKQVMEDRANAFITLPGGVGTLDE 124
Query: 124 LFEVTTWSQLGVHNKPVAII 143
L +V T LG+H+K + ++
Sbjct: 125 LLDVWTEGYLGMHDKSIVVL 144
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 100 RKAEMARYADCFIVLPGGFGTLEKLFEVTTWSQL-GVHNKPVAII 143
RK RYA F+ LPGGFGTL++L EV Q VH PV ++
Sbjct: 124 RKVLFVRYAVGFVFLPGGFGTLDELSEVLVLLQTEKVHRFPVFLL 168
>pdb|1RCU|A Chain A, X-Ray Structure Of Tm1055 Northeast Structural Genomics
Consortium Target Vt76
pdb|1RCU|B Chain B, X-Ray Structure Of Tm1055 Northeast Structural Genomics
Consortium Target Vt76
pdb|1RCU|C Chain C, X-Ray Structure Of Tm1055 Northeast Structural Genomics
Consortium Target Vt76
pdb|1RCU|D Chain D, X-Ray Structure Of Tm1055 Northeast Structural Genomics
Consortium Target Vt76
Length = 195
Score = 33.9 bits (76), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 43/151 (28%), Positives = 60/151 (39%), Gaps = 13/151 (8%)
Query: 12 KRVCVFCGSSPDYKYC---YRKAAIDLGNELVSKGLDLVYGGGNVGLMGLISEEVHRGRR 68
K+V V S P K R ++LG L KG LV+ GG G+ L+S+ V
Sbjct: 24 KKVVVVGYSGPVNKSPVSELRDICLELGRTLAKKGY-LVFNGGRDGVXELVSQGVREAGG 82
Query: 69 HVLGIIPRALMKKELTGVTLGEVKPVDHMHQRKAEMARYADCFIVLPGGFGTLEKLFEVT 128
V+GI+P V VK R + R AD + + G GT E+
Sbjct: 83 TVVGILPDEEAGNPYLSVA---VKTGLDFQXRSFVLLRNADVVVSIGGEIGT---AIEIL 136
Query: 129 TWSQLGVHNKPVAIIMVSASNAKELVQKLED 159
LG KPV ++ + + Q L D
Sbjct: 137 GAYALG---KPVILLRGTGGWTDRISQVLID 164
>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 = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 93 PVDHMHQRKAEMARYADCFIVLPGGFGTLEKLFEVTTWSQLGVH---NKPVAI 142
P + QR + ++ LPGG GTL +L V W+ L + +P+A+
Sbjct: 83 PAATLPQRIGRLLDLGAGYLALPGGVGTLAEL--VLAWNLLYLRRGVGRPLAV 133
>pdb|3OB6|A Chain A, Structure Of Adic(N101a) In The Open-To-Out Arg+ Bound
Conformation
pdb|3OB6|B Chain B, Structure Of Adic(N101a) In The Open-To-Out Arg+ Bound
Conformation
Length = 445
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 116 GGFGTLEKLFEVTTWSQLGVHNKPVA 141
G FG ++ VT WS +GV + VA
Sbjct: 188 GTFGAIQSTLNVTLWSFIGVESASVA 213
>pdb|3LRB|A Chain A, Structure Of E. Coli Adic
pdb|3LRB|B Chain B, Structure Of E. Coli Adic
pdb|3LRC|A Chain A, Structure Of E. Coli Adic (P1)
pdb|3LRC|B Chain B, Structure Of E. Coli Adic (P1)
pdb|3LRC|C Chain C, Structure Of E. Coli Adic (P1)
pdb|3LRC|D Chain D, Structure Of E. Coli Adic (P1)
Length = 445
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 116 GGFGTLEKLFEVTTWSQLGVHNKPVA 141
G FG ++ VT WS +GV + VA
Sbjct: 188 GTFGAIQSTLNVTLWSFIGVESASVA 213
>pdb|3L1L|A Chain A, Structure Of Arg-Bound Escherichia Coli Adic
Length = 445
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 116 GGFGTLEKLFEVTTWSQLGVHNKPVA 141
G FG ++ VT WS +GV + VA
Sbjct: 188 GTFGAIQSTLNVTLWSFIGVESASVA 213
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 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,280,923
Number of Sequences: 62578
Number of extensions: 212924
Number of successful extensions: 533
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 518
Number of HSP's gapped (non-prelim): 17
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
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: 48 (23.1 bits)