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= 028080
(214 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 50.1 bits (118), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 46/149 (30%), Positives = 71/149 (47%), Gaps = 21/149 (14%)
Query: 41 DAVTKGAMQAGKPVGGFKVGKEAGEWTASNFHPYLPLETY-LTCRFFSARKHGLIDCAVR 99
+AV +GA +AG G VG +PY +T+ L+ R+F RK + AV
Sbjct: 82 EAVNRGAYEAG----GVSVGLNIELPHEQKPNPY---QTHALSLRYFFVRKVLFVRYAV- 133
Query: 100 NDSCDRTAVVALPGGVGTLDEMFEILALIQLERIGSELPVPFLVMNYDSFYKKLLDFLGD 159
V LPGG GTLDE+ E+L L+Q E++ PV L Y ++ L+ +L
Sbjct: 134 -------GFVFLPGGFGTLDELSEVLVLLQTEKV-HRFPVFLLDRGY---WEGLVRWLAF 182
Query: 160 CEDWGTVAKDEVASLWKICDSNSEALSYL 188
D V +++ L+++ D E + L
Sbjct: 183 LRDQKAVGPEDL-QLFRLTDEPEEVVQAL 210
>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 = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 107 AVVALPGGVGTLDEMFEILALIQLERIGSELPVPFLVMNYDSFYKKLLDFLGDCEDWGTV 166
A +ALPGG GTL+E+ E++ QL P ++N D +Y LL F+ + G +
Sbjct: 112 AFIALPGGYGTLEELLEVITWAQL----GIHDKPVGLLNVDGYYNSLLSFIDKAVEEGFI 167
Query: 167 A 167
+
Sbjct: 168 S 168
>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 = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 47/172 (27%), Positives = 66/172 (38%), Gaps = 23/172 (13%)
Query: 20 HLQIARLLDCTTWSGAGPGLMDAVTKGAM--QAGKPV-GGFKVG-KEAGEWTASNFHPYL 75
H+ + L CT G GPG M KGA A + V GG +G E G A +P +
Sbjct: 170 HIGLRGLNICT---GCGPGAMKGPMKGATIGHAKQRVEGGRYLGLTEPGIIAAEPPNPIV 226
Query: 76 PLETYLTCRFFSARKHGLIDCAVRNDSCDRTAVVALPGGVGTLDEMFEILA-LIQLERIG 134
+ R + CA +V PGG GT +E+ +L L+ +
Sbjct: 227 --NELVILPDIEKRLEAFVRCA--------HGIVIFPGGAGTAEELLYLLGILMHPDNQR 276
Query: 135 SELPVPFLVMNYDSFYKKLLDFLGDCEDWGTVAKDEVASLWKICDSNSEALS 186
LPV Y + LD E G DE L+KI + A++
Sbjct: 277 QSLPVILTGPASSRDYFEALD-----EFIGATIGDEARQLYKIIIDDPAAVA 323
>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 = 30.0 bits (66), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 107 AVVALPGGVGTLDEMFE 123
A +ALPGG+GTL+E FE
Sbjct: 120 AFIALPGGIGTLEEFFE 136
>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 = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 12/50 (24%)
Query: 109 VALPGGVGTLDEMFEILALIQL----ERIGSELPVPFLVMNYDSFYKKLL 154
+ALPGG GT +E+ E + QL + +G ++N D +Y LL
Sbjct: 110 IALPGGYGTXEELLEXITWSQLGIHKKTVG--------LLNVDGYYNNLL 151
>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 = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 106 TAVVALPGGVGTLDEMFEI 124
A + LPGGVGTLDE+ ++
Sbjct: 110 NAFITLPGGVGTLDELLDV 128
>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 = 2.6, Method: Compositional matrix adjust.
Identities = 40/156 (25%), Positives = 59/156 (37%), Gaps = 30/156 (19%)
Query: 27 LDCTTWSGAGPGLMDAVTKGAMQAGKPVGGFKVGKEAGEWTASNFHPYLPLETYLTCRFF 86
L C + G +A+ +G K GG VG A + P ++ L
Sbjct: 36 LACGGYQGG----XEALARGV----KAKGGLVVGVTAPAFFPERRGPNPFVDLELPAATL 87
Query: 87 SARKHGLIDCAVRNDSCDRTAVVALPGGVGTLDEMFEILALIQLER-IGSELPVPFLVMN 145
R L+D +ALPGGVGTL E+ L+ L R +G L V
Sbjct: 88 PQRIGRLLDLG--------AGYLALPGGVGTLAELVLAWNLLYLRRGVGRPLAV------ 133
Query: 146 YDSFYKKLLDFLGDCEDWGTVAKDEVASLWKICDSN 181
D ++ LG + G +A ++V L + D
Sbjct: 134 -DPYW------LGLLKAHGEIAPEDVGLLRVVADEE 162
>pdb|1YWK|A Chain A, Crystal Structure Of 4-Deoxy-1-Threo-5-Hexosulose-Uronate
Ketol-Isomerase From Enterococcus Faecalis
pdb|1YWK|B Chain B, Crystal Structure Of 4-Deoxy-1-Threo-5-Hexosulose-Uronate
Ketol-Isomerase From Enterococcus Faecalis
pdb|1YWK|C Chain C, Crystal Structure Of 4-Deoxy-1-Threo-5-Hexosulose-Uronate
Ketol-Isomerase From Enterococcus Faecalis
pdb|1YWK|D Chain D, Crystal Structure Of 4-Deoxy-1-Threo-5-Hexosulose-Uronate
Ketol-Isomerase From Enterococcus Faecalis
pdb|1YWK|E Chain E, Crystal Structure Of 4-Deoxy-1-Threo-5-Hexosulose-Uronate
Ketol-Isomerase From Enterococcus Faecalis
pdb|1YWK|F Chain F, Crystal Structure Of 4-Deoxy-1-Threo-5-Hexosulose-Uronate
Ketol-Isomerase From Enterococcus Faecalis
Length = 289
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 35 AGPGLMDAVTKGAMQAGKPVGGFKVGKEAGEWTASNFHPYLPLETYLTC 83
GPG ++ GA + K G+ +GKE S+ +P P + Y++C
Sbjct: 87 GGPGFIEI--DGAKETMKKQDGYYIGKETKHVRFSSENPDNPAKFYISC 133
>pdb|3IRU|A Chain A, Crystal Structure Of Phoshonoacetaldehyde Hydrolase Like
Protein From Oleispira Antarctica
pdb|3IRU|B Chain B, Crystal Structure Of Phoshonoacetaldehyde Hydrolase Like
Protein From Oleispira Antarctica
Length = 277
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/79 (22%), Positives = 31/79 (39%)
Query: 18 ARHLQIARLLDCTTWSGAGPGLMDAVTKGAMQAGKPVGGFKVGKEAGEWTASNFHPYLPL 77
A L++ + C PG+ + + G G G +VG + +W A +
Sbjct: 178 ALELEVGHVNGCIKVDDTLPGIEEGLRAGXWTVGVSCSGNEVGLDREDWQALSSDEQQSY 237
Query: 78 ETYLTCRFFSARKHGLIDC 96
+ R F+A H +ID
Sbjct: 238 RQHAEQRLFNAGAHYVIDS 256
>pdb|3BV6|A Chain A, Crystal Structure Of Uncharacterized Metallo Protein From
Vibrio Cholerae With Beta-Lactamase Like Fold
pdb|3BV6|B Chain B, Crystal Structure Of Uncharacterized Metallo Protein From
Vibrio Cholerae With Beta-Lactamase Like Fold
pdb|3BV6|C Chain C, Crystal Structure Of Uncharacterized Metallo Protein From
Vibrio Cholerae With Beta-Lactamase Like Fold
pdb|3BV6|D Chain D, Crystal Structure Of Uncharacterized Metallo Protein From
Vibrio Cholerae With Beta-Lactamase Like Fold
pdb|3BV6|E Chain E, Crystal Structure Of Uncharacterized Metallo Protein From
Vibrio Cholerae With Beta-Lactamase Like Fold
pdb|3BV6|F Chain F, Crystal Structure Of Uncharacterized Metallo Protein From
Vibrio Cholerae With Beta-Lactamase Like Fold
Length = 379
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 101 DSCDRTAVVALPGGVGTLDE 120
DS DRTA+V LP GV + D+
Sbjct: 205 DSFDRTALVTLPKGVSSYDK 224
>pdb|1KOP|A Chain A, Neisseria Gonorrhoeae Carbonic Anhydrase
pdb|1KOP|B Chain B, Neisseria Gonorrhoeae Carbonic Anhydrase
pdb|1KOQ|A Chain A, Neisseria Gonorrhoeae Carbonic Anhydrase
pdb|1KOQ|B Chain B, Neisseria Gonorrhoeae Carbonic Anhydrase
Length = 223
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 1/56 (1%)
Query: 37 PGLMDAVTKG-AMQAGKPVGGFKVGKEAGEWTASNFHPYLPLETYLTCRFFSARKH 91
P ++D G +Q P GG + +T FH ++P E + R F H
Sbjct: 53 PSMVDVENNGHTIQVNYPEGGNTLTVNGRTYTLKQFHFHVPSENQIKGRTFPMEAH 108
>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 = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 109 VALPGGVGTLDEMFEILALIQL 130
++ PGG GT +E+FE+L Q+
Sbjct: 102 ISXPGGFGTYEELFEVLCWAQI 123
>pdb|3ZRH|A Chain A, Crystal Structure Of The Lys29, Lys33-Linkage-Specific
Trabid Otu Deubiquitinase Domain Reveals An
Ankyrin-Repeat Ubiquitin Binding Domain (Ankubd)
Length = 454
Score = 27.7 bits (60), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 5 HPHYLQSFELGGEARHLQIAR-LLDCTTWSGAGPGLMDAVTKGAMQAGKPVGGFKVGK 61
H H+L + ELG E + ++ R LDC G G++ A+ K + + P+ V K
Sbjct: 385 HVHFLSAQELGNEEQQEKLLREWLDCCVTEG---GVLVAMQKSSRRRNHPLVTQMVEK 439
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 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,783,741
Number of Sequences: 62578
Number of extensions: 275569
Number of successful extensions: 670
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 660
Number of HSP's gapped (non-prelim): 15
length of query: 214
length of database: 14,973,337
effective HSP length: 95
effective length of query: 119
effective length of database: 9,028,427
effective search space: 1074382813
effective search space used: 1074382813
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)