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= 023499
(281 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XFI|A Chain A, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At2g17340
pdb|2Q40|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At2g17340
Length = 367
Score = 478 bits (1229), Expect = e-135, Method: Compositional matrix adjust.
Identities = 235/281 (83%), Positives = 254/281 (90%)
Query: 1 MKKDPETHGGPPDCILLCRLREQVLRELGFRDIFKKVKDEENAKAISLFGDVVRLNDVIE 60
+KKDPE+HGGPPD ILLCRLREQVLRELGFRDIFKKVKDEENAKAISLF VV L+D IE
Sbjct: 87 LKKDPESHGGPPDGILLCRLREQVLRELGFRDIFKKVKDEENAKAISLFPQVVSLSDAIE 146
Query: 61 DEGKRVESLIRGIFAGNIFDLGSAQLAEVFSKDGMSFLASCQNLVPRPWVIDDLETFXXX 120
D+GKR+E+L+RGIFAGNIFDLGSAQLAEVFS+DGMSFLASCQNLVPRPWVIDDLE F
Sbjct: 147 DDGKRLENLVRGIFAGNIFDLGSAQLAEVFSRDGMSFLASCQNLVPRPWVIDDLENFQAK 206
Query: 121 XXXXXXXXXXIFVDNSGADIILGILPFARELLRRGTQVILAANDLPSINDVTYPELIEIM 180
IFVDNSGADIILGILPFARELLRRG QV+LAAN+LPSIND+T EL EI+
Sbjct: 207 WINKSWKKAVIFVDNSGADIILGILPFARELLRRGAQVVLAANELPSINDITCTELTEIL 266
Query: 181 SKLKDEKGQLMGVDTSKLLIANSGNDLPVIDLTAVSQELAYLASDADLVILEGMGRGIET 240
S+LKDE GQL+GVDTSKLLIANSGNDLPVIDL+ VSQELAYL+SDADLVI+EGMGRGIET
Sbjct: 267 SQLKDENGQLLGVDTSKLLIANSGNDLPVIDLSRVSQELAYLSSDADLVIVEGMGRGIET 326
Query: 241 NLYAQFKCDSLKIGMVKHPEVAQFLGGRLYDCVFKYNEVSS 281
NLYAQFKCDSLKIGMVKH EVA+FLGGRLYDCVFK+NEV S
Sbjct: 327 NLYAQFKCDSLKIGMVKHLEVAEFLGGRLYDCVFKFNEVQS 367
>pdb|2WWJ|A Chain A, Structure Of Jmjd2a Complexed With Inhibitor 10a
pdb|2WWJ|B Chain B, Structure Of Jmjd2a Complexed With Inhibitor 10a
Length = 348
Score = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 6/51 (11%)
Query: 49 FGDVVRLNDVIEDEGKRVESLIRGIFAGNIFDLGSAQLAEVFSKDGMSFLA 99
FG+ V + GKR+E L +G F GSAQ E F + M+ ++
Sbjct: 196 FGEPKSWYSVPPEHGKRLERLAKGFFP------GSAQSCEAFLRHKMTLIS 240
>pdb|2PXJ|A Chain A, The Complex Structure Of Jmjd2a And Monomethylated H3k36
Peptide
pdb|2PXJ|B Chain B, The Complex Structure Of Jmjd2a And Monomethylated H3k36
Peptide
Length = 347
Score = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 6/51 (11%)
Query: 49 FGDVVRLNDVIEDEGKRVESLIRGIFAGNIFDLGSAQLAEVFSKDGMSFLA 99
FG+ V + GKR+E L +G F GSAQ E F + M+ ++
Sbjct: 201 FGEPKSWYSVPPEHGKRLERLAKGFFP------GSAQSCEAFLRHKMTLIS 245
>pdb|2GP3|A Chain A, Crystal Structure Of The Catalytic Core Domain Of Jmjd2a
pdb|2GP3|B Chain B, Crystal Structure Of The Catalytic Core Domain Of Jmjd2a
pdb|2GP5|A Chain A, Crystal Structure Of Catalytic Core Domain Of Jmjd2a
Complexed With Alpha-Ketoglutarate
pdb|2GP5|B Chain B, Crystal Structure Of Catalytic Core Domain Of Jmjd2a
Complexed With Alpha-Ketoglutarate
Length = 349
Score = 32.3 bits (72), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 6/51 (11%)
Query: 49 FGDVVRLNDVIEDEGKRVESLIRGIFAGNIFDLGSAQLAEVFSKDGMSFLA 99
FG+ V + GKR+E L +G F GSAQ E F + M+ ++
Sbjct: 201 FGEPKSWYSVPPEHGKRLERLAKGFFP------GSAQSCEAFLRHKMTLIS 245
>pdb|2P5B|A Chain A, The Complex Structure Of Jmjd2a And Trimethylated H3k36
Peptide
pdb|2P5B|B Chain B, The Complex Structure Of Jmjd2a And Trimethylated H3k36
Peptide
pdb|2Q8C|A Chain A, Crystal Structure Of Jmjd2a In Ternary Complex With An
Histone H3k9me3 Peptide And 2-Oxoglutarate
pdb|2Q8C|B Chain B, Crystal Structure Of Jmjd2a In Ternary Complex With An
Histone H3k9me3 Peptide And 2-Oxoglutarate
pdb|2Q8D|A Chain A, Crystal Structure Of Jmj2d2a In Ternary Complex With
Histone H3-K36me2 And Succinate
pdb|2Q8D|B Chain B, Crystal Structure Of Jmj2d2a In Ternary Complex With
Histone H3-K36me2 And Succinate
pdb|2Q8E|A Chain A, Specificity And Mechanism Of Jmjd2a, A Trimethyllysine-
Specific Histone Demethylase
pdb|2Q8E|B Chain B, Specificity And Mechanism Of Jmjd2a, A Trimethyllysine-
Specific Histone Demethylase
Length = 352
Score = 32.3 bits (72), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 6/51 (11%)
Query: 49 FGDVVRLNDVIEDEGKRVESLIRGIFAGNIFDLGSAQLAEVFSKDGMSFLA 99
FG+ V + GKR+E L +G F GSAQ E F + M+ ++
Sbjct: 204 FGEPKSWYSVPPEHGKRLERLAKGFFP------GSAQSCEAFLRHKMTLIS 248
>pdb|2OQ6|A Chain A, Crystal Structure Of Jmjd2a Complexed With Histone H3
Peptide Trimethylated At Lys9
pdb|2OQ6|B Chain B, Crystal Structure Of Jmjd2a Complexed With Histone H3
Peptide Trimethylated At Lys9
pdb|2OQ7|A Chain A, The Crystal Structure Of Jmjd2a Complexed With Ni And
N-Oxalylglycine
pdb|2OQ7|B Chain B, The Crystal Structure Of Jmjd2a Complexed With Ni And
N-Oxalylglycine
pdb|2OS2|A Chain A, Crystal Structure Of Jmjd2a Complexed With Histone H3
Peptide Trimethylated At Lys36
pdb|2OS2|B Chain B, Crystal Structure Of Jmjd2a Complexed With Histone H3
Peptide Trimethylated At Lys36
pdb|2OT7|A Chain A, Crystal Structure Of Jmjd2a Complexed With Histone H3
Peptide Monomethylated At Lys9
pdb|2OT7|B Chain B, Crystal Structure Of Jmjd2a Complexed With Histone H3
Peptide Monomethylated At Lys9
pdb|2OX0|A Chain A, Crystal Structure Of Jmjd2a Complexed With Histone H3
Peptide Dimethylated At Lys9
pdb|2OX0|B Chain B, Crystal Structure Of Jmjd2a Complexed With Histone H3
Peptide Dimethylated At Lys9
pdb|2VD7|A Chain A, Crystal Structure Of Jmjd2a Complexed With Inhibitor
Pyridine-2,4-Dicarboxylic Acid
pdb|2VD7|B Chain B, Crystal Structure Of Jmjd2a Complexed With Inhibitor
Pyridine-2,4-Dicarboxylic Acid
pdb|3NJY|A Chain A, Crystal Structure Of Jmjd2a Complexed With 5-Carboxy-8-
Hydroxyquinoline
pdb|3NJY|B Chain B, Crystal Structure Of Jmjd2a Complexed With 5-Carboxy-8-
Hydroxyquinoline
pdb|2YBP|A Chain A, Jmjd2a Complexed With R-2-Hydroxyglutarate And Histone
H3k36me3 Peptide (30-41)
pdb|2YBP|B Chain B, Jmjd2a Complexed With R-2-Hydroxyglutarate And Histone
H3k36me3 Peptide (30-41)
pdb|2YBS|A Chain A, Jmjd2a Complexed With S-2-Hydroxyglutarate And Histone
H3k36me3 Peptide (30-41)
pdb|2YBS|B Chain B, Jmjd2a Complexed With S-2-Hydroxyglutarate And Histone
H3k36me3 Peptide (30-41)
pdb|3PDQ|A Chain A, Crystal Structure Of Jmjd2a Complexed With Bipyridyl
Inhibitor
pdb|3PDQ|B Chain B, Crystal Structure Of Jmjd2a Complexed With Bipyridyl
Inhibitor
pdb|2YBK|A Chain A, Jmjd2a Complexed With R-2-Hydroxyglutarate
pdb|2YBK|B Chain B, Jmjd2a Complexed With R-2-Hydroxyglutarate
pdb|3U4S|A Chain A, Histone Lysine Demethylase Jmjd2a In Complex With T11c
Peptide Substrate Crosslinked To N-Oxalyl-D-Cysteine
pdb|3U4S|B Chain B, Histone Lysine Demethylase Jmjd2a In Complex With T11c
Peptide Substrate Crosslinked To N-Oxalyl-D-Cysteine
pdb|3RVH|A Chain A, Crystal Structure Of Jmjd2a Complexed With Inhibitor
pdb|3RVH|B Chain B, Crystal Structure Of Jmjd2a Complexed With Inhibitor
pdb|4GD4|A Chain A, Crystal Structure Of Jmjd2a Complexed With Inhibitor
pdb|4GD4|B Chain B, Crystal Structure Of Jmjd2a Complexed With Inhibitor
pdb|4AI9|A Chain A, Jmjd2a Complexed With Daminozide
pdb|4AI9|B Chain B, Jmjd2a Complexed With Daminozide
Length = 381
Score = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 6/51 (11%)
Query: 49 FGDVVRLNDVIEDEGKRVESLIRGIFAGNIFDLGSAQLAEVFSKDGMSFLA 99
FG+ V + GKR+E L +G F GSAQ E F + M+ ++
Sbjct: 224 FGEPKSWYSVPPEHGKRLERLAKGFFP------GSAQSCEAFLRHKMTLIS 268
>pdb|4GHK|A Chain A, X-Ray Crystal Structure Of Gamma-Glutamyl Phosphate
Reductase From Burkholderia Thailandensis
pdb|4GHK|B Chain B, X-Ray Crystal Structure Of Gamma-Glutamyl Phosphate
Reductase From Burkholderia Thailandensis
pdb|4GHK|C Chain C, X-Ray Crystal Structure Of Gamma-Glutamyl Phosphate
Reductase From Burkholderia Thailandensis
pdb|4GHK|D Chain D, X-Ray Crystal Structure Of Gamma-Glutamyl Phosphate
Reductase From Burkholderia Thailandensis
Length = 444
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 35/79 (44%), Gaps = 1/79 (1%)
Query: 174 PELIEIMSKLKDEKGQLMGVDTSKLLIANSGNDLPVIDLTAVSQELAYLASDADLVILEG 233
P ++ + +L EKG + VD + + P++D T YLA + I++G
Sbjct: 293 PAVLSPLGRLYREKGVELRVDADARAVLEAAGVGPLVDATDEDWRTEYLAPVLAIKIVDG 352
Query: 234 MGRGIET-NLYAQFKCDSL 251
+ IE N Y D++
Sbjct: 353 IDAAIEHINEYGSHHTDAI 371
>pdb|2PJX|A Chain A, Crystal Structure Of The Munc18cSYNTAXIN4 N-Peptide
Complex
pdb|2PJX|B Chain B, Crystal Structure Of The Munc18cSYNTAXIN4 N-Peptide
Complex
pdb|3PUK|A Chain A, Re-Refinement Of The Crystal Structure Of Munc18-3 And
Syntaxin4 N- Peptide Complex
pdb|3PUK|B Chain B, Re-Refinement Of The Crystal Structure Of Munc18-3 And
Syntaxin4 N- Peptide Complex
Length = 592
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 185 DEKGQLMGVDTSKLLIANSGNDLPVIDLTAVSQELAYLASDADLVILEG 233
DEKG + G S+LLI + G D PV + V EL + A DL+ +E
Sbjct: 222 DEKGLIKGKTQSQLLIIDRGFD-PV---STVLHELTFQAMAYDLLPIEN 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
0.321 0.141 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,809,428
Number of Sequences: 62578
Number of extensions: 302486
Number of successful extensions: 692
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 689
Number of HSP's gapped (non-prelim): 10
length of query: 281
length of database: 14,973,337
effective HSP length: 98
effective length of query: 183
effective length of database: 8,840,693
effective search space: 1617846819
effective search space used: 1617846819
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: 51 (24.3 bits)