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= psy1704
(90 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1AN9|A Chain A, D-Amino Acid Oxidase Complex With O-Aminobenzoate
pdb|1AN9|B Chain B, D-Amino Acid Oxidase Complex With O-Aminobenzoate
pdb|1EVI|A Chain A, Three-Dimensional Structure Of The Purple Intermediate
Of Porcine Kidney D-Amino Acid Oxidase
pdb|1EVI|B Chain B, Three-Dimensional Structure Of The Purple Intermediate
Of Porcine Kidney D-Amino Acid Oxidase
Length = 340
Score = 51.2 bits (121), Expect = 1e-07, Method: Composition-based stats.
Identities = 26/53 (49%), Positives = 37/53 (69%), Gaps = 4/53 (7%)
Query: 29 KVAILGAGIIGLSTALELQRRFPNC----DVTVIADKFNMDTTSDGAAGLFEP 77
+V ++GAG+IGLSTAL + R+ + DV V AD+F TT+D AAGL++P
Sbjct: 2 RVVVIGAGVIGLSTALCIHERYHSVLQPLDVKVYADRFTPFTTTDVAAGLWQP 54
>pdb|1KIF|A Chain A, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|B Chain B, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|C Chain C, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|D Chain D, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|E Chain E, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|F Chain F, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|G Chain G, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|H Chain H, D-Amino Acid Oxidase From Pig Kidney
pdb|1DAO|A Chain A, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|B Chain B, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|C Chain C, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|D Chain D, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|E Chain E, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|F Chain F, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|G Chain G, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|H Chain H, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DDO|A Chain A, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|B Chain B, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|C Chain C, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|D Chain D, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|E Chain E, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|F Chain F, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|G Chain G, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|H Chain H, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1VE9|A Chain A, Porcine Kidney D-amino Acid Oxidase
pdb|1VE9|B Chain B, Porcine Kidney D-amino Acid Oxidase
Length = 347
Score = 51.2 bits (121), Expect = 1e-07, Method: Composition-based stats.
Identities = 26/53 (49%), Positives = 37/53 (69%), Gaps = 4/53 (7%)
Query: 29 KVAILGAGIIGLSTALELQRRFPNC----DVTVIADKFNMDTTSDGAAGLFEP 77
+V ++GAG+IGLSTAL + R+ + DV V AD+F TT+D AAGL++P
Sbjct: 2 RVVVIGAGVIGLSTALCIHERYHSVLQPLDVKVYADRFTPFTTTDVAAGLWQP 54
>pdb|2DU8|A Chain A, Crystal Structure Of Human D-Amino Acid Oxidase
pdb|2DU8|B Chain B, Crystal Structure Of Human D-Amino Acid Oxidase
pdb|2DU8|G Chain G, Crystal Structure Of Human D-Amino Acid Oxidase
pdb|2DU8|J Chain J, Crystal Structure Of Human D-Amino Acid Oxidase
pdb|2E48|A Chain A, Crystal Structure Of Human D-Amino Acid Oxidase:
Substrate- Free Holoenzyme
pdb|2E48|B Chain B, Crystal Structure Of Human D-Amino Acid Oxidase:
Substrate- Free Holoenzyme
pdb|2E48|C Chain C, Crystal Structure Of Human D-Amino Acid Oxidase:
Substrate- Free Holoenzyme
pdb|2E48|D Chain D, Crystal Structure Of Human D-Amino Acid Oxidase:
Substrate- Free Holoenzyme
pdb|2E49|A Chain A, Crystal Structure Of Human D-Amino Acid Oxidase In
Complex With Imino- Serine
pdb|2E49|B Chain B, Crystal Structure Of Human D-Amino Acid Oxidase In
Complex With Imino- Serine
pdb|2E49|C Chain C, Crystal Structure Of Human D-Amino Acid Oxidase In
Complex With Imino- Serine
pdb|2E49|D Chain D, Crystal Structure Of Human D-Amino Acid Oxidase In
Complex With Imino- Serine
pdb|2E4A|A Chain A, Crystal Structure Of Human D-amino Acid Oxidase In
Complex With O-aminobenzoate
pdb|2E4A|B Chain B, Crystal Structure Of Human D-amino Acid Oxidase In
Complex With O-aminobenzoate
pdb|2E4A|C Chain C, Crystal Structure Of Human D-amino Acid Oxidase In
Complex With O-aminobenzoate
pdb|2E4A|D Chain D, Crystal Structure Of Human D-amino Acid Oxidase In
Complex With O-aminobenzoate
pdb|2E82|A Chain A, Crystal Structure Of Human D-Amino Acid Oxidase
Complexed With Imino-Dopa
pdb|2E82|B Chain B, Crystal Structure Of Human D-Amino Acid Oxidase
Complexed With Imino-Dopa
pdb|2E82|C Chain C, Crystal Structure Of Human D-Amino Acid Oxidase
Complexed With Imino-Dopa
pdb|2E82|D Chain D, Crystal Structure Of Human D-Amino Acid Oxidase
Complexed With Imino-Dopa
pdb|3CUK|A Chain A, Crystal Structure Of Human D-Amino Acid Oxidase: Bound
To An Inhibitor
pdb|3CUK|B Chain B, Crystal Structure Of Human D-Amino Acid Oxidase: Bound
To An Inhibitor
pdb|3CUK|C Chain C, Crystal Structure Of Human D-Amino Acid Oxidase: Bound
To An Inhibitor
pdb|3CUK|D Chain D, Crystal Structure Of Human D-Amino Acid Oxidase: Bound
To An Inhibitor
Length = 347
Score = 50.8 bits (120), Expect = 2e-07, Method: Composition-based stats.
Identities = 25/53 (47%), Positives = 37/53 (69%), Gaps = 4/53 (7%)
Query: 29 KVAILGAGIIGLSTALELQRRFPNC----DVTVIADKFNMDTTSDGAAGLFEP 77
+V ++GAG+IGLSTAL + R+ + D+ V AD+F TT+D AAGL++P
Sbjct: 2 RVVVIGAGVIGLSTALCIHERYHSVLQPLDIKVYADRFTPLTTTDVAAGLWQP 54
>pdb|3G3E|A Chain A, Crystal Structure Of Human D-Amino Acid Oxidase In
Complex With Hydroxyquinolin-2(1h)
pdb|3G3E|B Chain B, Crystal Structure Of Human D-Amino Acid Oxidase In
Complex With Hydroxyquinolin-2(1h)
pdb|3G3E|C Chain C, Crystal Structure Of Human D-Amino Acid Oxidase In
Complex With Hydroxyquinolin-2(1h)
pdb|3G3E|D Chain D, Crystal Structure Of Human D-Amino Acid Oxidase In
Complex With Hydroxyquinolin-2(1h)
Length = 351
Score = 50.8 bits (120), Expect = 2e-07, Method: Composition-based stats.
Identities = 25/53 (47%), Positives = 37/53 (69%), Gaps = 4/53 (7%)
Query: 29 KVAILGAGIIGLSTALELQRRFPNC----DVTVIADKFNMDTTSDGAAGLFEP 77
+V ++GAG+IGLSTAL + R+ + D+ V AD+F TT+D AAGL++P
Sbjct: 2 RVVVIGAGVIGLSTALCIHERYHSVLQPLDIKVYADRFTPLTTTDVAAGLWQP 54
>pdb|1C0K|A Chain A, Crystal Structure Analysis Of D-Amino Acid Oxidase In
Complex With L-Lactate
pdb|1C0L|A Chain A, D-Amino Acid Oxidase: Structure Of Substrate Complexes
At Very High Resolution Reveal The Chemical Reacttion
Mechanism Of Flavin Dehydrogenation
pdb|1C0P|A Chain A, D-amino Acic Oxidase In Complex With D-alanine And A
Partially Occupied Biatomic Species
pdb|1C0I|A Chain A, Crystal Structure Of D-Amino Acid Oxidase In Complex
With Two Anthranylate Molecules
Length = 363
Score = 32.7 bits (73), Expect = 0.053, Method: Composition-based stats.
Identities = 14/27 (51%), Positives = 21/27 (77%)
Query: 23 VMGSNHKVAILGAGIIGLSTALELQRR 49
+M S +V +LG+G+IGLS+AL L R+
Sbjct: 2 MMHSQKRVVVLGSGVIGLSSALILARK 28
>pdb|3OC4|A Chain A, Crystal Structure Of A Pyridine Nucleotide-Disulfide
Family Oxidoreductase From The Enterococcus Faecalis
V583
pdb|3OC4|B Chain B, Crystal Structure Of A Pyridine Nucleotide-Disulfide
Family Oxidoreductase From The Enterococcus Faecalis
V583
Length = 452
Score = 32.3 bits (72), Expect = 0.061, Method: Composition-based stats.
Identities = 13/52 (25%), Positives = 29/52 (55%)
Query: 29 KVAILGAGIIGLSTALELQRRFPNCDVTVIADKFNMDTTSDGAAGLFEPSPN 80
K+ I+GA G+S A+ ++++P ++++I + + S G + F + N
Sbjct: 4 KIVIIGASFAGISAAIASRKKYPQAEISLIDKQATVGYLSGGLSAYFNHTIN 55
>pdb|3FAY|A Chain A, Crystal Structure Of The Gap-Related Domain Of Iqgap1
Length = 387
Score = 32.0 bits (71), Expect = 0.085, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 5/57 (8%)
Query: 15 QSCPANPKVMGSNHKVAILGAGIIGLSTALELQRRF--PNCDVTVIADKFNMDTTSD 69
Q +N +G N ++I+ LS + + RRF CDV + DKFN+D SD
Sbjct: 275 QHAASNKXFLGDNAHLSIINEY---LSQSYQKFRRFFQTACDVPELQDKFNVDEYSD 328
>pdb|3LOV|A Chain A, Crystal Structure Of Putative Protoporphyrinogen Oxidase
(Yp_001813199.1) From Exiguobacterium Sp. 255-15 At
2.06 A Resolution
Length = 475
Score = 32.0 bits (71), Expect = 0.098, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 23/33 (69%)
Query: 26 SNHKVAILGAGIIGLSTALELQRRFPNCDVTVI 58
S+ ++ I+G GI GL+ A +R FP+ ++T++
Sbjct: 3 SSKRLVIVGGGITGLAAAYYAERAFPDLNITLL 35
>pdb|4B63|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida) Bound To Nadp
And Ornithine
pdb|4B64|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida) Bound To Nadp
And Lysine
pdb|4B65|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida), Reduced State
Bound To Nadp(H)
pdb|4B66|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida), Reduced State
Bound To Nadp And Arg
pdb|4B67|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida), Re-Oxidised
State Bound To Nadp And Ornithine
pdb|4B68|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida), Re-Oxidised
State Bound To Nadp And Arg
pdb|4B69|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida) Bound To
Ornithine
Length = 501
Score = 30.8 bits (68), Expect = 0.21, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 10 VHSA--AQSCPANPKVMGSNHKVAILGAGIIGLSTALELQRRFPNCDVTVIADKFNMDTT 67
+HS+ + PA K + +A+LG+G +LQ+R+PN T+I M +
Sbjct: 227 IHSSKYCTTLPALLKDKSKPYNIAVLGSGQSAAEIFHDLQKRYPNSRTTLIMRDSAMRPS 286
Query: 68 SD 69
D
Sbjct: 287 DD 288
>pdb|2JAE|A Chain A, The Structure Of L-Amino Acid Oxidase From Rhodococcus
Opacus In The Unbound State
pdb|2JAE|B Chain B, The Structure Of L-Amino Acid Oxidase From Rhodococcus
Opacus In The Unbound State
pdb|2JB1|A Chain A, The L-Amino Acid Oxidase From Rhodococcus Opacus In
Complex With L-Alanine
pdb|2JB1|B Chain B, The L-Amino Acid Oxidase From Rhodococcus Opacus In
Complex With L-Alanine
pdb|2JB3|A Chain A, The Structure Of L-Amino Acid Oxidase From Rhodococcus
Opacus In Complex With O-Aminobenzoate
pdb|2JB3|B Chain B, The Structure Of L-Amino Acid Oxidase From Rhodococcus
Opacus In Complex With O-Aminobenzoate
pdb|2JB2|A Chain A, The Structure Of L-Amino Acid Oxidase From Rhodococcus
Opacus In Complex With L-Phenylalanine.
pdb|2JB2|B Chain B, The Structure Of L-Amino Acid Oxidase From Rhodococcus
Opacus In Complex With L-Phenylalanine
Length = 489
Score = 29.6 bits (65), Expect = 0.47, Method: Composition-based stats.
Identities = 15/27 (55%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 22 KVMGSNHKVAILGAGIIGLSTALELQR 48
KV GS H V +LG G GL +A ELQ+
Sbjct: 7 KVKGS-HSVVVLGGGPAGLCSAFELQK 32
>pdb|1PJ5|A Chain A, Crystal Structure Of Dimethylglycine Oxidase Of
Arthrobacter Globiformis In Complex With Acetate
pdb|1PJ6|A Chain A, Crystal Structure Of Dimethylglycine Oxidase Of
Arthrobacter Globiformis In Complex With Folic Acid
pdb|1PJ7|A Chain A, Structure Of Dimethylglycine Oxidase Of Arthrobacter
Globiformis In Complex With Folinic Acid
Length = 830
Score = 29.3 bits (64), Expect = 0.64, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 24 MGSNHKVAILGAGIIGLSTALELQRRFPNCDVTVIADKFNM--DTTSDGAAGLFEPSPN 80
M S ++ I+GAGI+G + A EL R N + NM +TS +F+ +P+
Sbjct: 1 MASTPRIVIIGAGIVGTNLADELVTRGWNNITVLDQGPLNMPGGSTSHAPGLVFQTNPS 59
>pdb|3RP6|A Chain A, Crystal Structure Of Klebsiella Pneumoniae Hpxo
Complexed With Fad
pdb|3RP7|A Chain A, Crystal Structure Of Klebsiella Pneumoniae Hpxo
Complexed With Fad And Uric Acid
Length = 407
Score = 28.9 bits (63), Expect = 0.75, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 29 KVAILGAGIIGLSTALELQRRFPNCDV 55
K ++GAGI GLS A+ L++ +CDV
Sbjct: 25 KAIVIGAGIGGLSAAVALKQSGIDCDV 51
>pdb|3RP8|A Chain A, Crystal Structure Of Klebsiella Pneumoniae R204q Hpxo
Complexed With Fad
Length = 407
Score = 28.9 bits (63), Expect = 0.78, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 29 KVAILGAGIIGLSTALELQRRFPNCDV 55
K ++GAGI GLS A+ L++ +CDV
Sbjct: 25 KAIVIGAGIGGLSAAVALKQSGIDCDV 51
>pdb|2JFQ|A Chain A, Crystal Structure Of Staphylococcus Aureus Glutamate
Racemase In Complex With D-Glutamate
pdb|2JFQ|B Chain B, Crystal Structure Of Staphylococcus Aureus Glutamate
Racemase In Complex With D-Glutamate
Length = 286
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 11/40 (27%), Positives = 22/40 (55%)
Query: 21 PKVMGSNHKVAILGAGIIGLSTALELQRRFPNCDVTVIAD 60
P+ N + ++ +G+ GL+ A E+ R+ PN + + D
Sbjct: 16 PRGSHMNKPIGVIDSGVGGLTVAKEIMRQLPNETIYYLGD 55
>pdb|3PVC|A Chain A, Crystal Structure Of Apo Mnmc From Yersinia Pestis
pdb|3SGL|A Chain A, The Crystal Structure Of Mnmc From Yersinia Pestis Bound
With Fad And Sam
Length = 689
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 30 VAILGAGIIGLSTALELQRR 49
+AI+G GI+ TAL LQRR
Sbjct: 267 IAIIGGGIVSALTALALQRR 286
>pdb|3G17|A Chain A, Structure Of Putative 2-Dehydropantoate 2-Reductase From
Staphylococcus Aureus
pdb|3G17|B Chain B, Structure Of Putative 2-Dehydropantoate 2-Reductase From
Staphylococcus Aureus
pdb|3G17|C Chain C, Structure Of Putative 2-Dehydropantoate 2-Reductase From
Staphylococcus Aureus
pdb|3G17|D Chain D, Structure Of Putative 2-Dehydropantoate 2-Reductase From
Staphylococcus Aureus
pdb|3G17|E Chain E, Structure Of Putative 2-Dehydropantoate 2-Reductase From
Staphylococcus Aureus
pdb|3G17|F Chain F, Structure Of Putative 2-Dehydropantoate 2-Reductase From
Staphylococcus Aureus
pdb|3G17|G Chain G, Structure Of Putative 2-Dehydropantoate 2-Reductase From
Staphylococcus Aureus
pdb|3G17|H Chain H, Structure Of Putative 2-Dehydropantoate 2-Reductase From
Staphylococcus Aureus
Length = 294
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 30 VAILGAGIIGLSTALELQRRFPN 52
VAI+G G +G + A ELQ+ P+
Sbjct: 5 VAIIGPGAVGTTIAYELQQSLPH 27
>pdb|1Y6J|A Chain A, L-Lactate Dehydrogenase From Clostridium Thermocellum
Cth-1135
Length = 318
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 22 KVMGSNHKVAILGAGIIGLSTALELQRR 49
+++ S KVAI+GAG +G S A + R
Sbjct: 2 EMVKSRSKVAIIGAGFVGASAAFTMALR 29
>pdb|1GPE|A Chain A, Glucose Oxidase From Penicillium Amagasakiense
pdb|1GPE|B Chain B, Glucose Oxidase From Penicillium Amagasakiense
Length = 587
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 28/83 (33%), Positives = 38/83 (45%), Gaps = 8/83 (9%)
Query: 7 EFGVHSAAQSCPANPKVMGSNHKVAILGAGIIGLSTALELQRRFPNCDVTVIADKFNMDT 66
+ V S+ S P+ KV G + I G G+ GL+ A +L P V VI F
Sbjct: 6 QIDVQSSLLSDPS--KVAGKTYDYIIAGGGLTGLTVAAKLTEN-PKIKVLVIEKGFY--E 60
Query: 67 TSDGAAGLFEPSPNFMGPDLETT 89
++DGA + E PN G TT
Sbjct: 61 SNDGA--IIE-DPNAYGQIFGTT 80
>pdb|1DTY|A Chain A, Crystal Structure Of
Adenosylmethionine-8-Amino-7-Oxonanoate Aminotransferase
With Pyridoxal Phosphate Cofactor.
pdb|1DTY|B Chain B, Crystal Structure Of
Adenosylmethionine-8-Amino-7-Oxonanoate Aminotransferase
With Pyridoxal Phosphate Cofactor
Length = 429
Score = 26.9 bits (58), Expect = 2.8, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 65 DTTSDGAAGLFEPSPNFMGPDL 86
+T SDG AG F P FMG L
Sbjct: 294 ETISDGEAGCFMHGPTFMGNPL 315
>pdb|2YG6|A Chain A, Structure-Based Redesign Of Cofactor Binding In
Putrescine Oxidase: P15i-A394c Double Mutant
pdb|2YG6|B Chain B, Structure-Based Redesign Of Cofactor Binding In
Putrescine Oxidase: P15i-A394c Double Mutant
Length = 453
Score = 26.9 bits (58), Expect = 3.1, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 30 VAILGAGIIGLSTALELQRRFPNCDVTVIADKFNMDTTSDGAAG-LFEPSPNFMGPD 85
VAI+GAGI GL+ A L++ + V D+ T +D G + E ++ PD
Sbjct: 8 VAIVGAGISGLAAATALRKAGLSVAVIEARDRVGGRTWTDTIDGAVLEIGGQWVSPD 64
>pdb|1WP4|A Chain A, Structure Of Tt368 Protein From Thermus Thermophilus Hb8
pdb|1WP4|B Chain B, Structure Of Tt368 Protein From Thermus Thermophilus Hb8
pdb|1WP4|C Chain C, Structure Of Tt368 Protein From Thermus Thermophilus Hb8
pdb|1WP4|D Chain D, Structure Of Tt368 Protein From Thermus Thermophilus Hb8
Length = 289
Score = 26.9 bits (58), Expect = 3.3, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 29 KVAILGAGIIGLSTALELQRRFP 51
KVA +G G +G A L RRFP
Sbjct: 3 KVAFIGLGAMGYPMAGHLARRFP 25
>pdb|2O3J|A Chain A, Structure Of Caenorhabditis Elegans Udp-Glucose
Dehydrogenase
pdb|2O3J|B Chain B, Structure Of Caenorhabditis Elegans Udp-Glucose
Dehydrogenase
pdb|2O3J|C Chain C, Structure Of Caenorhabditis Elegans Udp-Glucose
Dehydrogenase
Length = 481
Score = 26.6 bits (57), Expect = 4.2, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 22 KVMGSNHKVAILGAGIIGLSTALELQRRFPNCDVTVI 58
+V G KV +GAG +G T + + P+ VTV+
Sbjct: 4 QVFGKVSKVVCVGAGYVGGPTCAMIAHKCPHITVTVV 40
>pdb|1RP0|A Chain A, Crystal Structure Of Thi1 Protein From Arabidopsis
Thaliana
pdb|1RP0|B Chain B, Crystal Structure Of Thi1 Protein From Arabidopsis
Thaliana
Length = 284
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 30 VAILGAGIIGLSTALELQRRFPNCDVTVI 58
V ++GAG GLS A E+ + PN V +I
Sbjct: 42 VVVVGAGSAGLSAAYEISKN-PNVQVAII 69
>pdb|3GSI|A Chain A, Crystal Structure Of D552a Dimethylglycine Oxidase
Mutant Of Arthrobacter Globiformis In Complex With
Tetrahydrofolate
Length = 827
Score = 26.2 bits (56), Expect = 4.9, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 29 KVAILGAGIIGLSTALELQRRFPNCDVTVIADKFNM--DTTSDGAAGLFEPSPN 80
++ I+GAGI+G + A EL R N + NM +TS +F+ +P+
Sbjct: 3 RIVIIGAGIVGTNLADELVTRGWNNITVLDQGPLNMPGGSTSHAPGLVFQTNPS 56
>pdb|3TE9|A Chain A, 1.8 Angstrom Resolution Crystal Structure Of K135m Mutant
Of Transaldolase B (Tala) From Francisella Tularensis In
Complex With Fructose 6-Phosphate
pdb|3TE9|B Chain B, 1.8 Angstrom Resolution Crystal Structure Of K135m Mutant
Of Transaldolase B (Tala) From Francisella Tularensis In
Complex With Fructose 6-Phosphate
pdb|3TKF|A Chain A, 1.5 Angstrom Resolution Crystal Structure Of K135m Mutant
Of Transaldolase B (Tala) From Francisella Tularensis In
Complex With Sedoheptulose 7-Phosphate.
pdb|3TKF|B Chain B, 1.5 Angstrom Resolution Crystal Structure Of K135m Mutant
Of Transaldolase B (Tala) From Francisella Tularensis In
Complex With Sedoheptulose 7-Phosphate
Length = 345
Score = 26.2 bits (56), Expect = 5.4, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 3/45 (6%)
Query: 39 GLSTALELQRRFPNCDVTVIADKFNMDTTSDGAAGLFEPSPNFMG 83
G+ A LQ+ NC++T+I DK ++ AG++ SP F+G
Sbjct: 166 GIKAAKLLQKEGINCNLTLIFDKAQAKACAE--AGVYLVSP-FVG 207
>pdb|3TK7|A Chain A, 2.0 Angstrom Resolution Crystal Structure Of Transaldolase
B (Tala) From Francisella Tularensis In Covalent Complex
With Fructose 6- Phosphate
pdb|3TK7|B Chain B, 2.0 Angstrom Resolution Crystal Structure Of Transaldolase
B (Tala) From Francisella Tularensis In Covalent Complex
With Fructose 6- Phosphate
pdb|3TNO|A Chain A, 1.65 Angstrom Resolution Crystal Structure Of
Transaldolase B (Tala) From Francisella Tularensis In
Covalent Complex With Sedoheptulose-7- Phosphate
pdb|3TNO|B Chain B, 1.65 Angstrom Resolution Crystal Structure Of
Transaldolase B (Tala) From Francisella Tularensis In
Covalent Complex With Sedoheptulose-7- Phosphate
pdb|3UPB|A Chain A, 1.5 Angstrom Resolution Crystal Structure Of Transaldolase
From Francisella Tularensis In Covalent Complex With
Arabinose-5-Phosphate
pdb|3UPB|B Chain B, 1.5 Angstrom Resolution Crystal Structure Of Transaldolase
From Francisella Tularensis In Covalent Complex With
Arabinose-5-Phosphate
pdb|4E0C|A Chain A, 1.8 Angstrom Resolution Crystal Structure Of Transaldolase
From Francisella Tularensis (Phosphate-Free)
pdb|4E0C|B Chain B, 1.8 Angstrom Resolution Crystal Structure Of Transaldolase
From Francisella Tularensis (Phosphate-Free)
Length = 345
Score = 26.2 bits (56), Expect = 5.4, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 3/45 (6%)
Query: 39 GLSTALELQRRFPNCDVTVIADKFNMDTTSDGAAGLFEPSPNFMG 83
G+ A LQ+ NC++T+I DK ++ AG++ SP F+G
Sbjct: 166 GIKAAKLLQKEGINCNLTLIFDKAQAKACAE--AGVYLVSP-FVG 207
>pdb|3IGX|A Chain A, 1.85 Angstrom Resolution Crystal Structure Of
Transaldolase B (Tala) From Francisella Tularensis.
pdb|3IGX|B Chain B, 1.85 Angstrom Resolution Crystal Structure Of
Transaldolase B (Tala) From Francisella Tularensis
Length = 324
Score = 26.2 bits (56), Expect = 5.4, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 3/45 (6%)
Query: 39 GLSTALELQRRFPNCDVTVIADKFNMDTTSDGAAGLFEPSPNFMG 83
G+ A LQ+ NC++T+I DK ++ AG++ SP F+G
Sbjct: 145 GIKAAKLLQKEGINCNLTLIFDKAQAKACAE--AGVYLVSP-FVG 186
>pdb|4IIW|A Chain A, 2.6 Angstrom Crystal Structure Of Putative Yceg-like
Protein Lmo1499 From Listeria Monocytogenes
pdb|4IIW|B Chain B, 2.6 Angstrom Crystal Structure Of Putative Yceg-like
Protein Lmo1499 From Listeria Monocytogenes
Length = 349
Score = 25.8 bits (55), Expect = 6.2, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 5/62 (8%)
Query: 21 PKVMGSNHKVAI---LGAGIIGLSTALELQRRFPNCDVTVIADKFNMDTTSDGAAGLFEP 77
PK S K+ + G+ I +ST LE ++ N + K+N DT + AG +E
Sbjct: 30 PKDEASKEKITVEIPAGSSISDISTILEDKKVINNASIFSFYVKYNNDT--NLKAGNYEL 87
Query: 78 SP 79
SP
Sbjct: 88 SP 89
>pdb|1PS9|A Chain A, The Crystal Structure And Reaction Mechanism Of E. Coli
2,4- Dienoyl Coa Reductase
Length = 671
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 5/57 (8%)
Query: 28 HKVAILGAGIIGLSTALELQR--RFPNCDVTVIADKFNMDTTSDGAAGLFEPSPNFM 82
+KVAI+G G IG TA+ L + + ++ +++ +D++ A GL SP M
Sbjct: 495 NKVAIIGCGGIGFDTAMYLSQPGESTSQNIAGFCNEWGIDSSLQQAGGL---SPQGM 548
>pdb|3K96|A Chain A, 2.1 Angstrom Resolution Crystal Structure Of
Glycerol-3-Phosphate Dehydrogenase (Gpsa) From Coxiella
Burnetii
pdb|3K96|B Chain B, 2.1 Angstrom Resolution Crystal Structure Of
Glycerol-3-Phosphate Dehydrogenase (Gpsa) From Coxiella
Burnetii
Length = 356
Score = 25.8 bits (55), Expect = 6.7, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 28 HKVAILGAGIIGLSTALELQRR 49
H +AILGAG G + AL L R+
Sbjct: 30 HPIAILGAGSWGTALALVLARK 51
>pdb|2H94|A Chain A, Crystal Structure And Mechanism Of Human Lysine-Specific
Demethylase-1
Length = 664
Score = 25.4 bits (54), Expect = 7.8, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 8 FGVHSAAQSCPANPKVMGSNHKVAILGAGIIGLSTALELQ 47
FG++ + P KV I+G+G+ GL+ A +LQ
Sbjct: 93 FGIYKRIKPLPTK-----KTGKVIIIGSGVSGLAAARQLQ 127
>pdb|2DW4|A Chain A, Crystal Structure Of Human Lsd1 At 2.3 A Resolution
Length = 660
Score = 25.4 bits (54), Expect = 7.9, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 8 FGVHSAAQSCPANPKVMGSNHKVAILGAGIIGLSTALELQ 47
FG++ + P KV I+G+G+ GL+ A +LQ
Sbjct: 93 FGIYKRIKPLPTK-----KTGKVIIIGSGVSGLAAARQLQ 127
>pdb|2EJR|A Chain A, Lsd1-Tranylcypromine Complex
pdb|2Z3Y|A Chain A, Crystal Structure Of Lysine-Specific Demethylase1
pdb|2Z5U|A Chain A, Crystal Structure Of Lysine-Specific Histone Demethylase 1
pdb|3ABT|A Chain A, Crystal Structure Of Lsd1 In Complex With Trans-2-
Pentafluorophenylcyclopropylamine
pdb|3ABU|A Chain A, Crystal Structure Of Lsd1 In Complex With A 2-Pcpa
Derivative, S1201
Length = 662
Score = 25.4 bits (54), Expect = 8.0, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 8 FGVHSAAQSCPANPKVMGSNHKVAILGAGIIGLSTALELQ 47
FG++ + P KV I+G+G+ GL+ A +LQ
Sbjct: 93 FGIYKRIKPLPTK-----KTGKVIIIGSGVSGLAAARQLQ 127
>pdb|2HKO|A Chain A, Crystal Structure Of Lsd1
Length = 664
Score = 25.4 bits (54), Expect = 8.0, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 8 FGVHSAAQSCPANPKVMGSNHKVAILGAGIIGLSTALELQ 47
FG++ + P KV I+G+G+ GL+ A +LQ
Sbjct: 93 FGIYKRIKPLPTK-----KTGKVIIIGSGVSGLAAARQLQ 127
>pdb|2IW5|A Chain A, Structural Basis For Corest-dependent Demethylation Of
Nucleosomes By The Human Lsd1 Histone Demethylase
pdb|2UXN|A Chain A, Structural Basis Of Histone Demethylation By Lsd1 Revealed
By Suicide Inactivation
pdb|2UXX|A Chain A, Human Lsd1 Histone Demethylase-Corest In Complex With An
Fad-Tranylcypromine Adduct
Length = 666
Score = 25.4 bits (54), Expect = 8.1, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 8 FGVHSAAQSCPANPKVMGSNHKVAILGAGIIGLSTALELQ 47
FG++ + P KV I+G+G+ GL+ A +LQ
Sbjct: 94 FGIYKRIKPLPTK-----KTGKVIIIGSGVSGLAAARQLQ 128
>pdb|2F1K|A Chain A, Crystal Structure Of Synechocystis Arogenate
Dehydrogenase
pdb|2F1K|B Chain B, Crystal Structure Of Synechocystis Arogenate
Dehydrogenase
pdb|2F1K|C Chain C, Crystal Structure Of Synechocystis Arogenate
Dehydrogenase
pdb|2F1K|D Chain D, Crystal Structure Of Synechocystis Arogenate
Dehydrogenase
Length = 279
Score = 25.4 bits (54), Expect = 8.1, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 29 KVAILGAGIIGLSTALELQRR 49
K+ ++G G+IG S A +L+RR
Sbjct: 2 KIGVVGLGLIGASLAGDLRRR 22
>pdb|3CWC|A Chain A, Crystal Structure Of Putative Glycerate Kinase 2 From
Salmonella Typhimurium Lt2
pdb|3CWC|B Chain B, Crystal Structure Of Putative Glycerate Kinase 2 From
Salmonella Typhimurium Lt2
Length = 383
Score = 25.4 bits (54), Expect = 8.6, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 5/50 (10%)
Query: 33 LGAGIIGLSTALE-----LQRRFPNCDVTVIADKFNMDTTSDGAAGLFEP 77
+ G IGL T L +R C + V D N T +GA+ +F P
Sbjct: 164 IAQGGIGLETLASIDISGLDKRLSACHIEVACDVTNPLTGKEGASAVFGP 213
>pdb|2X0L|A Chain A, Crystal Structure Of A Neuro-Specific Splicing Variant Of
Human Histone Lysine Demethylase Lsd1
Length = 734
Score = 25.4 bits (54), Expect = 8.7, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 8 FGVHSAAQSCPANPKVMGSNHKVAILGAGIIGLSTALELQ 47
FG++ + P KV I+G+G+ GL+ A +LQ
Sbjct: 142 FGIYKRIKPLPTK-----KTGKVIIIGSGVSGLAAARQLQ 176
>pdb|2V1D|A Chain A, Structural Basis Of Lsd1-Corest Selectivity In Histone H3
Recognition
pdb|2Y48|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With A N-
Terminal Snail Peptide
Length = 730
Score = 25.4 bits (54), Expect = 8.7, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 8 FGVHSAAQSCPANPKVMGSNHKVAILGAGIIGLSTALELQ 47
FG++ + P KV I+G+G+ GL+ A +LQ
Sbjct: 142 FGIYKRIKPLPTK-----KTGKVIIIGSGVSGLAAARQLQ 176
>pdb|2IVD|A Chain A, Structure Of Protoporphyrinogen Oxidase From Myxococcus
Xanthus With Acifluorfen
pdb|2IVD|B Chain B, Structure Of Protoporphyrinogen Oxidase From Myxococcus
Xanthus With Acifluorfen
pdb|2IVE|A Chain A, Structure Of Protoporphyrinogen Oxidase From Myxococcus
Xanthus
pdb|2IVE|B Chain B, Structure Of Protoporphyrinogen Oxidase From Myxococcus
Xanthus
Length = 478
Score = 25.4 bits (54), Expect = 9.3, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 3/61 (4%)
Query: 21 PKVMGSNHKVAILGAGIIGLSTALELQRRFPNCDVTVIADKFNMDTTSDGAAG-LFEPSP 79
P+ G N VA++G GI GL+ A L+ R + + + + + AG L E P
Sbjct: 12 PRTTGMN--VAVVGGGISGLAVAHHLRSRGTDAVLLESSARLGGAVGTHALAGYLVEQGP 69
Query: 80 N 80
N
Sbjct: 70 N 70
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
0.318 0.134 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,669,359
Number of Sequences: 62578
Number of extensions: 89366
Number of successful extensions: 538
Number of sequences better than 100.0: 57
Number of HSP's better than 100.0 without gapping: 35
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 495
Number of HSP's gapped (non-prelim): 61
length of query: 90
length of database: 14,973,337
effective HSP length: 57
effective length of query: 33
effective length of database: 11,406,391
effective search space: 376410903
effective search space used: 376410903
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: 45 (21.9 bits)