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= 005048
(716 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XML|A Chain A, Crystal Structure Of Human Jmjd2c Catalytic Domain
pdb|2XML|B Chain B, Crystal Structure Of Human Jmjd2c Catalytic Domain
Length = 348
Score = 84.0 bits (206), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 35/67 (52%), Positives = 48/67 (71%)
Query: 2 FLVEQVTQLSPSVLKAEGVPVYHVVQHSGEFVLTFPRAYHSGFNCGFNCAEAVNVAPVDW 61
FL ++T +SPSVLK G+P + Q +GEF++TFP YH+GFN GFNCAE+ N A V W
Sbjct: 240 FLRHKMTLISPSVLKKYGIPFDKITQEAGEFMITFPYGYHAGFNHGFNCAESTNFATVRW 299
Query: 62 LAHGQQA 68
+ +G+ A
Sbjct: 300 IDYGKVA 306
>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 = 83.2 bits (204), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 35/68 (51%), Positives = 48/68 (70%)
Query: 2 FLVEQVTQLSPSVLKAEGVPVYHVVQHSGEFVLTFPRAYHSGFNCGFNCAEAVNVAPVDW 61
FL ++T +SP +LK G+P V Q +GEF++TFP YH+GFN GFNCAE+ N A W
Sbjct: 259 FLRHKMTLISPLMLKKYGIPFDKVTQEAGEFMITFPYGYHAGFNHGFNCAESTNFATRRW 318
Query: 62 LAHGQQAV 69
+ +G+QAV
Sbjct: 319 IEYGKQAV 326
>pdb|4HON|A Chain A, Crystal Structure Of Human Jmjd2d/kdm4d In Complex With An
H3k9me3 Peptide And 2-oxoglutarate
pdb|4HON|B Chain B, Crystal Structure Of Human Jmjd2d/kdm4d In Complex With An
H3k9me3 Peptide And 2-oxoglutarate
Length = 330
Score = 83.2 bits (204), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 34/67 (50%), Positives = 47/67 (70%)
Query: 2 FLVEQVTQLSPSVLKAEGVPVYHVVQHSGEFVLTFPRAYHSGFNCGFNCAEAVNVAPVDW 61
FL +V +SP+VLK G+P + Q +GEF++TFP YH+GFN GFNCAEA+N A W
Sbjct: 230 FLRHKVALISPTVLKENGIPFNRITQEAGEFMVTFPYGYHAGFNHGFNCAEAINFATPRW 289
Query: 62 LAHGQQA 68
+ +G+ A
Sbjct: 290 IDYGKMA 296
>pdb|3DXU|A Chain A, The Crystal Structure Of Core Jmjd2d Complexed With Fe And
N- Oxalylglycine
Length = 337
Score = 83.2 bits (204), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 34/67 (50%), Positives = 47/67 (70%)
Query: 2 FLVEQVTQLSPSVLKAEGVPVYHVVQHSGEFVLTFPRAYHSGFNCGFNCAEAVNVAPVDW 61
FL +V +SP+VLK G+P + Q +GEF++TFP YH+GFN GFNCAEA+N A W
Sbjct: 234 FLRHKVALISPTVLKENGIPFNRITQEAGEFMVTFPYGYHAGFNHGFNCAEAINFATPRW 293
Query: 62 LAHGQQA 68
+ +G+ A
Sbjct: 294 IDYGKMA 300
>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 = 83.2 bits (204), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 35/68 (51%), Positives = 48/68 (70%)
Query: 2 FLVEQVTQLSPSVLKAEGVPVYHVVQHSGEFVLTFPRAYHSGFNCGFNCAEAVNVAPVDW 61
FL ++T +SP +LK G+P V Q +GEF++TFP YH+GFN GFNCAE+ N A W
Sbjct: 239 FLRHKMTLISPLMLKKYGIPFDKVTQEAGEFMITFPYGYHAGFNHGFNCAESTNFATRRW 298
Query: 62 LAHGQQAV 69
+ +G+QAV
Sbjct: 299 IEYGKQAV 306
>pdb|3DXT|A Chain A, Crystal Structure Of The Catalytic Core Domain Of Jmjd2d
Length = 354
Score = 83.2 bits (204), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 34/67 (50%), Positives = 47/67 (70%)
Query: 2 FLVEQVTQLSPSVLKAEGVPVYHVVQHSGEFVLTFPRAYHSGFNCGFNCAEAVNVAPVDW 61
FL +V +SP+VLK G+P + Q +GEF++TFP YH+GFN GFNCAEA+N A W
Sbjct: 241 FLRHKVALISPTVLKENGIPFNRITQEAGEFMVTFPYGYHAGFNHGFNCAEAINFATPRW 300
Query: 62 LAHGQQA 68
+ +G+ A
Sbjct: 301 IDYGKMA 307
>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 = 83.2 bits (204), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 35/68 (51%), Positives = 48/68 (70%)
Query: 2 FLVEQVTQLSPSVLKAEGVPVYHVVQHSGEFVLTFPRAYHSGFNCGFNCAEAVNVAPVDW 61
FL ++T +SP +LK G+P V Q +GEF++TFP YH+GFN GFNCAE+ N A W
Sbjct: 236 FLRHKMTLISPLMLKKYGIPFDKVTQEAGEFMITFPYGYHAGFNHGFNCAESTNFATRRW 295
Query: 62 LAHGQQAV 69
+ +G+QAV
Sbjct: 296 IEYGKQAV 303
>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 = 83.2 bits (204), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 35/68 (51%), Positives = 48/68 (70%)
Query: 2 FLVEQVTQLSPSVLKAEGVPVYHVVQHSGEFVLTFPRAYHSGFNCGFNCAEAVNVAPVDW 61
FL ++T +SP +LK G+P V Q +GEF++TFP YH+GFN GFNCAE+ N A W
Sbjct: 236 FLRHKMTLISPLMLKKYGIPFDKVTQEAGEFMITFPYGYHAGFNHGFNCAESTNFATRRW 295
Query: 62 LAHGQQAV 69
+ +G+QAV
Sbjct: 296 IEYGKQAV 303
>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 = 83.2 bits (204), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 35/68 (51%), Positives = 48/68 (70%)
Query: 2 FLVEQVTQLSPSVLKAEGVPVYHVVQHSGEFVLTFPRAYHSGFNCGFNCAEAVNVAPVDW 61
FL ++T +SP +LK G+P V Q +GEF++TFP YH+GFN GFNCAE+ N A W
Sbjct: 231 FLRHKMTLISPLMLKKYGIPFDKVTQEAGEFMITFPYGYHAGFNHGFNCAESTNFATRRW 290
Query: 62 LAHGQQAV 69
+ +G+QAV
Sbjct: 291 IEYGKQAV 298
>pdb|4HOO|A Chain A, Crystal Structure Of Human Jmjd2d/kdm4d Apoenzyme
pdb|4HOO|B Chain B, Crystal Structure Of Human Jmjd2d/kdm4d Apoenzyme
Length = 330
Score = 82.8 bits (203), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 34/67 (50%), Positives = 47/67 (70%)
Query: 2 FLVEQVTQLSPSVLKAEGVPVYHVVQHSGEFVLTFPRAYHSGFNCGFNCAEAVNVAPVDW 61
FL +V +SP+VLK G+P + Q +GEF++TFP YH+GFN GFNCAEA+N A W
Sbjct: 230 FLRHKVALISPTVLKENGIPFNRITQEAGEFMVTFPYGYHAGFNHGFNCAEAINFATPRW 289
Query: 62 LAHGQQA 68
+ +G+ A
Sbjct: 290 IDYGKMA 296
>pdb|2W2I|A Chain A, Crystal Structure Of The Human 2-Oxoglutarate Oxygenase
Loc390245
pdb|2W2I|B Chain B, Crystal Structure Of The Human 2-Oxoglutarate Oxygenase
Loc390245
pdb|2W2I|C Chain C, Crystal Structure Of The Human 2-Oxoglutarate Oxygenase
Loc390245
Length = 358
Score = 80.1 bits (196), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 34/67 (50%), Positives = 47/67 (70%)
Query: 2 FLVEQVTQLSPSVLKAEGVPVYHVVQHSGEFVLTFPRAYHSGFNCGFNCAEAVNVAPVDW 61
FL +V +SP+VLK G+P + Q +GEF++TFP YH+GFN GFNCAEA+N A W
Sbjct: 260 FLRHKVALISPTVLKENGIPFNCMTQEAGEFMVTFPYGYHAGFNHGFNCAEAINFATPRW 319
Query: 62 LAHGQQA 68
+ +G+ A
Sbjct: 320 IDYGKMA 326
>pdb|3OPT|A Chain A, Crystal Structure Of The Rph1 Catalytic Core With
A-Ketoglutarate
pdb|3OPW|A Chain A, Crystal Structure Of The Rph1 Catalytic Core
Length = 373
Score = 68.9 bits (167), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 29/67 (43%), Positives = 44/67 (65%)
Query: 2 FLVEQVTQLSPSVLKAEGVPVYHVVQHSGEFVLTFPRAYHSGFNCGFNCAEAVNVAPVDW 61
FL ++ SP +L+ G+ +V H GEF++T+P YH+GFN G+N AE+VN A +W
Sbjct: 284 FLRHKMFLASPKLLQENGIRCNEIVHHEGEFMITYPYGYHAGFNYGYNLAESVNFALEEW 343
Query: 62 LAHGQQA 68
L G++A
Sbjct: 344 LPIGKKA 350
>pdb|2WZO|A Chain A, The Structure Of The Fyr Domain
Length = 146
Score = 42.4 bits (98), Expect = 9e-04, Method: Composition-based stats.
Identities = 32/122 (26%), Positives = 55/122 (45%), Gaps = 12/122 (9%)
Query: 491 KQAIFPKGFRSRVNFYSVLNPEKVCNYISEVLDAGLLGPLFKVTLEECPSETFVNVSAQK 550
+ AI+P G+ S + S+ P++ C Y ++ D G + P F++ E+ P V+ SA
Sbjct: 30 ESAIYPVGYCSTRIYASMKCPDQKCLYTCQIKDGG-VQPQFEIVPEDDPQNAIVSSSADA 88
Query: 551 CWEMVLQRLNQEIERQGGLHERGLPHPQSLQSIDGLEMFGFLSSPIIQAIEALDPNHLCM 610
C +L+ ++ + G L LP G + FGF I I++ C+
Sbjct: 89 CHAELLRTISTTM---GKLMPNLLPA--------GADFFGFSHPAIHNLIQSCPGARKCI 137
Query: 611 EY 612
Y
Sbjct: 138 NY 139
>pdb|1LLF|A Chain A, Cholesterol Esterase (Candida Cylindracea) Crystal
Structure At 1.4a Resolution
pdb|1LLF|B Chain B, Cholesterol Esterase (Candida Cylindracea) Crystal
Structure At 1.4a Resolution
Length = 534
Score = 32.3 bits (72), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 168 YDLHLSAAGCKCSPDRFACLKHA 190
YDL +S+AGC + D+ ACL+ A
Sbjct: 259 YDLFVSSAGCGSASDKLACLRSA 281
>pdb|1CLE|A Chain A, Structure Of Uncomplexed And Linoleate-Bound Candida
Cylindracea Cholesterol Esterase
pdb|1CLE|B Chain B, Structure Of Uncomplexed And Linoleate-Bound Candida
Cylindracea Cholesterol Esterase
Length = 534
Score = 32.3 bits (72), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 168 YDLHLSAAGCKCSPDRFACLKHA 190
YDL +S+AGC + D+ ACL+ A
Sbjct: 259 YDLFVSSAGCGSASDKLACLRSA 281
>pdb|3QF4|A Chain A, Crystal Structure Of A Heterodimeric Abc Transporter In
Its Inward- Facing Conformation
Length = 587
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 363 IENLKAHLSACYQEKVLCSGTVKEQ 387
+++L+ H+SA QE VL SGT+KE
Sbjct: 412 LKDLRGHISAVPQETVLFSGTIKEN 436
>pdb|1LSH|A Chain A, Lipid-Protein Interactions In Lipovitellin
Length = 1056
Score = 29.6 bits (65), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 654 DQNSPSGQNSVEEEAQLVLRGLFQKASPKELKVMQRILYSEGRS-DEW 700
D S S + EEE L L+ L P +K +QR L +G+S DE+
Sbjct: 443 DLLSQSSDRAKEEEIVLALKALGNAGQPNSIKKIQRFLPGQGKSLDEY 490
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
0.317 0.132 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,622,956
Number of Sequences: 62578
Number of extensions: 839652
Number of successful extensions: 1629
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1613
Number of HSP's gapped (non-prelim): 17
length of query: 716
length of database: 14,973,337
effective HSP length: 106
effective length of query: 610
effective length of database: 8,340,069
effective search space: 5087442090
effective search space used: 5087442090
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)