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= psy1678
(297 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3K40|A Chain A, Crystal Structure Of Drosophila 3,4-Dihydroxyphenylalanine
Decarboxylase
pdb|3K40|B Chain B, Crystal Structure Of Drosophila 3,4-Dihydroxyphenylalanine
Decarboxylase
Length = 475
Score = 372 bits (955), Expect = e-103, Method: Compositional matrix adjust.
Identities = 178/234 (76%), Positives = 208/234 (88%), Gaps = 1/234 (0%)
Query: 63 EFKDFAKAMVDYVGNYLENIRDRRVLPTVEPGYLRPLIPETAPDTPDTWQEVMSDIERVI 122
EFKDFAK MVD++ YLENIR+RRVLP V+PGYL+PLIP+ AP+ P+ WQ+VM DIERVI
Sbjct: 5 EFKDFAKTMVDFIAEYLENIRERRVLPEVKPGYLKPLIPDAAPEKPEKWQDVMQDIERVI 64
Query: 123 MPGVTHWHSPKFHAYFPTANSYPAIVADILSDSIACIGFTWIASPACTELEVVMLDWLGK 182
MPGVTHWHSPKFHAYFPTANSYPAIVAD+LS +IACIGFTWIASPACTELEVVM+DWLGK
Sbjct: 65 MPGVTHWHSPKFHAYFPTANSYPAIVADMLSGAIACIGFTWIASPACTELEVVMMDWLGK 124
Query: 183 MLDLPKEFLACSGGKGGGVIQGTASEATLVALLGAKAKTMQRVKEAHPDWKDSDIIANLV 242
ML+LP EFLACSGGKGGGVIQGTASE+TLVALLGAKAK ++ VKE HP+W + I+ LV
Sbjct: 125 MLELPAEFLACSGGKGGGVIQGTASESTLVALLGAKAKKLKEVKELHPEWDEHTILGKLV 184
Query: 243 GYCSDQAHSSVERAGLLGGVTIRGLPADDSYKLRGDALEAAIEEDLKKGKIPFY 296
GYCSDQAHSSVERAGLLGGV +R + +++ +++RG ALE AIE+D+ +G IPFY
Sbjct: 185 GYCSDQAHSSVERAGLLGGVKLRSVQSEN-HRMRGAALEKAIEQDVAEGLIPFY 237
>pdb|3RBF|A Chain A, Crystal Structure Of Human Aromatic L-Amino Acid
Decarboxylase (Aadc) In The Apo Form
pdb|3RBF|B Chain B, Crystal Structure Of Human Aromatic L-Amino Acid
Decarboxylase (Aadc) In The Apo Form
pdb|3RBL|A Chain A, Crystal Structure Of Human Aromatic L-Amino Acid
Decarboxylase (Aadc) In The Apo Form
pdb|3RBL|B Chain B, Crystal Structure Of Human Aromatic L-Amino Acid
Decarboxylase (Aadc) In The Apo Form
pdb|3RCH|B Chain B, Crystal Structure Of Human Aromatic L-Amino Acid
Decarboxylase (Aadc) In The Open Conformation With Llp
And Plp Bound To Chain-A And Chain- B Respectively
Length = 480
Score = 316 bits (810), Expect = 8e-87, Method: Compositional matrix adjust.
Identities = 142/238 (59%), Positives = 185/238 (77%)
Query: 60 DVNEFKDFAKAMVDYVGNYLENIRDRRVLPTVEPGYLRPLIPETAPDTPDTWQEVMSDIE 119
+ +EF+ K MVDYV NY+E I R+V P VEPGYLRPLIP AP PDT++++++D+E
Sbjct: 2 NASEFRRRGKEMVDYVANYMEGIEGRQVYPDVEPGYLRPLIPAAAPQEPDTFEDIINDVE 61
Query: 120 RVIMPGVTHWHSPKFHAYFPTANSYPAIVADILSDSIACIGFTWIASPACTELEVVMLDW 179
++IMPGVTHWHSP F AYFPTA+SYPA++AD+L +I CIGF+W ASPACTELE VM+DW
Sbjct: 62 KIIMPGVTHWHSPYFFAYFPTASSYPAMLADMLCGAIGCIGFSWAASPACTELETVMMDW 121
Query: 180 LGKMLDLPKEFLACSGGKGGGVIQGTASEATLVALLGAKAKTMQRVKEAHPDWKDSDIIA 239
LGKML+LPK FL G+GGGVIQG+ASEATLVALL A+ K + R++ A P+ + I+
Sbjct: 122 LGKMLELPKAFLNEKAGEGGGVIQGSASEATLVALLAARTKVIHRLQAASPELTQAAIME 181
Query: 240 NLVGYCSDQAHSSVERAGLLGGVTIRGLPADDSYKLRGDALEAAIEEDLKKGKIPFYI 297
LV Y SDQAHSSVERAGL+GGV ++ +P+D ++ +R AL+ A+E D G IPF++
Sbjct: 182 KLVAYSSDQAHSSVERAGLIGGVKLKAIPSDGNFAMRASALQEALERDKAAGLIPFFM 239
>pdb|3RCH|A Chain A, Crystal Structure Of Human Aromatic L-Amino Acid
Decarboxylase (Aadc) In The Open Conformation With Llp
And Plp Bound To Chain-A And Chain- B Respectively
Length = 480
Score = 316 bits (810), Expect = 8e-87, Method: Compositional matrix adjust.
Identities = 142/238 (59%), Positives = 185/238 (77%)
Query: 60 DVNEFKDFAKAMVDYVGNYLENIRDRRVLPTVEPGYLRPLIPETAPDTPDTWQEVMSDIE 119
+ +EF+ K MVDYV NY+E I R+V P VEPGYLRPLIP AP PDT++++++D+E
Sbjct: 2 NASEFRRRGKEMVDYVANYMEGIEGRQVYPDVEPGYLRPLIPAAAPQEPDTFEDIINDVE 61
Query: 120 RVIMPGVTHWHSPKFHAYFPTANSYPAIVADILSDSIACIGFTWIASPACTELEVVMLDW 179
++IMPGVTHWHSP F AYFPTA+SYPA++AD+L +I CIGF+W ASPACTELE VM+DW
Sbjct: 62 KIIMPGVTHWHSPYFFAYFPTASSYPAMLADMLCGAIGCIGFSWAASPACTELETVMMDW 121
Query: 180 LGKMLDLPKEFLACSGGKGGGVIQGTASEATLVALLGAKAKTMQRVKEAHPDWKDSDIIA 239
LGKML+LPK FL G+GGGVIQG+ASEATLVALL A+ K + R++ A P+ + I+
Sbjct: 122 LGKMLELPKAFLNEKAGEGGGVIQGSASEATLVALLAARTKVIHRLQAASPELTQAAIME 181
Query: 240 NLVGYCSDQAHSSVERAGLLGGVTIRGLPADDSYKLRGDALEAAIEEDLKKGKIPFYI 297
LV Y SDQAHSSVERAGL+GGV ++ +P+D ++ +R AL+ A+E D G IPF++
Sbjct: 182 KLVAYSSDQAHSSVERAGLIGGVKLKAIPSDGNFAMRASALQEALERDKAAGLIPFFM 239
>pdb|1JS3|A Chain A, Crystal Structure Of Dopa Decarboxylase In Complex With
The Inhibitor Carbidopa
pdb|1JS3|B Chain B, Crystal Structure Of Dopa Decarboxylase In Complex With
The Inhibitor Carbidopa
pdb|1JS6|A Chain A, Crystal Structure Of Dopa Decarboxylase
pdb|1JS6|B Chain B, Crystal Structure Of Dopa Decarboxylase
Length = 486
Score = 298 bits (762), Expect = 3e-81, Method: Compositional matrix adjust.
Identities = 139/238 (58%), Positives = 183/238 (76%)
Query: 60 DVNEFKDFAKAMVDYVGNYLENIRDRRVLPTVEPGYLRPLIPETAPDTPDTWQEVMSDIE 119
+ ++F+ K MVDY+ +YLE I R+V P V+PGYLRPLIP TAP PDT+++++ D+E
Sbjct: 2 NASDFRRRGKEMVDYMADYLEGIEGRQVYPDVQPGYLRPLIPATAPQEPDTFEDILQDVE 61
Query: 120 RVIMPGVTHWHSPKFHAYFPTANSYPAIVADILSDSIACIGFTWIASPACTELEVVMLDW 179
++IMPGVTHWHSP F AYFPTA+SYPA++AD+L +I CIGF+W ASPACTELE VM+DW
Sbjct: 62 KIIMPGVTHWHSPYFFAYFPTASSYPAMLADMLCGAIGCIGFSWAASPACTELETVMMDW 121
Query: 180 LGKMLDLPKEFLACSGGKGGGVIQGTASEATLVALLGAKAKTMQRVKEAHPDWKDSDIIA 239
LGKML LP+ FLA G+GGGVIQG+ASEATLVALL A+ K ++R++ A P ++
Sbjct: 122 LGKMLQLPEAFLAGEAGEGGGVIQGSASEATLVALLAARTKVVRRLQAASPGLTQGAVLE 181
Query: 240 NLVGYCSDQAHSSVERAGLLGGVTIRGLPADDSYKLRGDALEAAIEEDLKKGKIPFYI 297
LV Y SDQAHSSVERAGL+GGV ++ +P+D + +R AL+ A+E D G IPF++
Sbjct: 182 KLVAYASDQAHSSVERAGLIGGVKLKAIPSDGKFAMRASALQEALERDKAAGLIPFFV 239
>pdb|4E1O|A Chain A, Human Histidine Decarboxylase Complex With Histidine
Methyl Ester (Hme)
pdb|4E1O|B Chain B, Human Histidine Decarboxylase Complex With Histidine
Methyl Ester (Hme)
pdb|4E1O|C Chain C, Human Histidine Decarboxylase Complex With Histidine
Methyl Ester (Hme)
pdb|4E1O|D Chain D, Human Histidine Decarboxylase Complex With Histidine
Methyl Ester (Hme)
pdb|4E1O|E Chain E, Human Histidine Decarboxylase Complex With Histidine
Methyl Ester (Hme)
pdb|4E1O|F Chain F, Human Histidine Decarboxylase Complex With Histidine
Methyl Ester (Hme)
Length = 481
Score = 278 bits (710), Expect = 3e-75, Method: Compositional matrix adjust.
Identities = 122/236 (51%), Positives = 173/236 (73%), Gaps = 1/236 (0%)
Query: 63 EFKDFAKAMVDYVGNYLENIRDRRVLPTVEPGYLRPLIPETAPDTPDTWQEVMSDIERVI 122
E+++ + MVDY+ YL +R+RRV P V+PGYLR +PE+AP+ PD+W + DIER+I
Sbjct: 10 EYRERGREMVDYICQYLSTVRERRVTPDVQPGYLRAQLPESAPEDPDSWDSIFGDIERII 69
Query: 123 MPGVTHWHSPKFHAYFPTANSYPAIVADILSDSIACIGFTWIASPACTELEVVMLDWLGK 182
MPGV HW SP HAY+P S+P+++ D+L+D+I C+GFTW +SPACTELE+ ++DWL K
Sbjct: 70 MPGVVHWQSPHMHAYYPALTSWPSLLGDMLADAINCLGFTWASSPACTELEMNVMDWLAK 129
Query: 183 MLDLPKEFLACS-GGKGGGVIQGTASEATLVALLGAKAKTMQRVKEAHPDWKDSDIIANL 241
ML LP+ FL +GGGV+Q T SE+TL+ALL A+ + +K + PD +S + A L
Sbjct: 130 MLGLPEHFLHHHPSSQGGGVLQSTVSESTLIALLAARKNKILEMKTSEPDADESSLNARL 189
Query: 242 VGYCSDQAHSSVERAGLLGGVTIRGLPADDSYKLRGDALEAAIEEDLKKGKIPFYI 297
V Y SDQAHSSVE+AGL+ V ++ LP DD++ LRG+AL+ AIEED ++G +P ++
Sbjct: 190 VAYASDQAHSSVEKAGLISLVKMKFLPVDDNFSLRGEALQKAIEEDKQRGLVPVFV 245
>pdb|3VP6|A Chain A, Structural Characterization Of Glutamic Acid
Decarboxylase; Insights Into The Mechanism Of
Autoinactivation
pdb|3VP6|B Chain B, Structural Characterization Of Glutamic Acid
Decarboxylase; Insights Into The Mechanism Of
Autoinactivation
Length = 511
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 56/239 (23%), Positives = 102/239 (42%), Gaps = 21/239 (8%)
Query: 67 FAKAMVDYVGNYLENIRDR--RVLPTVEPGYLRPLIPE---TAPDTPDTWQEVMSDIERV 121
F +VD + NY+ DR +VL P L + D P++ ++++ D
Sbjct: 27 FLLEVVDILLNYVRKTFDRSTKVLDFHHPHQLLEGMEGFNLELSDHPESLEQILVDCRDT 86
Query: 122 IMPGVTHWHSPKFHAYFPTANSYPAIVADILSDSIACIGFTWIASPACTELEVVMLDWLG 181
+ GV H P+F T + + L+ + FT+ +P +E + L
Sbjct: 87 LKYGVRTGH-PRFFNQLSTGLDIIGLAGEWLTSTANTNMFTYEIAPVFVLMEQITLK--- 142
Query: 182 KMLDLPKEFLACSGGKGGGVIQGTASEATLVALLGAKAKTMQRVKEAHPDWKDSDIIANL 241
KM +E + S G G+ + + + +++ A+ K VK K + L
Sbjct: 143 KM----REIVGWSSKDGDGIFSPGGAISNMYSIMAARYKYFPEVKT-----KGMAAVPKL 193
Query: 242 VGYCSDQAHSSVERAGL---LGGVTIRGLPADDSYKLRGDALEAAIEEDLKKGKIPFYI 297
V + S+Q+H S+++AG G + + ++ K+ EA I E +KG +PFY+
Sbjct: 194 VLFTSEQSHYSIKKAGAALGFGTDNVILIKCNERGKIIPADFEAKILEAKQKGYVPFYV 252
>pdb|2OKJ|A Chain A, The X-Ray Crystal Structure Of The 67kda Isoform Of
Glutamic Acid Decarboxylase (Gad67)
pdb|2OKJ|B Chain B, The X-Ray Crystal Structure Of The 67kda Isoform Of
Glutamic Acid Decarboxylase (Gad67)
Length = 504
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 56/239 (23%), Positives = 102/239 (42%), Gaps = 21/239 (8%)
Query: 67 FAKAMVDYVGNYLENIRDR--RVLPTVEPGYLRPLIPE---TAPDTPDTWQEVMSDIERV 121
F +VD + NY+ DR +VL P L + D P++ ++++ D
Sbjct: 24 FLLEVVDILLNYVRKTFDRSTKVLDFHHPHQLLEGMEGFNLELSDHPESLEQILVDCRDT 83
Query: 122 IMPGVTHWHSPKFHAYFPTANSYPAIVADILSDSIACIGFTWIASPACTELEVVMLDWLG 181
+ GV H P+F T + + L+ + FT+ +P +E + L
Sbjct: 84 LKYGVRTGH-PRFFNQLSTGLDIIGLAGEWLTSTANTNMFTYEIAPVFVLMEQITLK--- 139
Query: 182 KMLDLPKEFLACSGGKGGGVIQGTASEATLVALLGAKAKTMQRVKEAHPDWKDSDIIANL 241
KM +E + S G G+ + + + +++ A+ K VK K + L
Sbjct: 140 KM----REIVGWSSKDGDGIFSPGGAISNMYSIMAARYKYFPEVKT-----KGMAAVPKL 190
Query: 242 VGYCSDQAHSSVERAGL---LGGVTIRGLPADDSYKLRGDALEAAIEEDLKKGKIPFYI 297
V + S+Q+H S+++AG G + + ++ K+ EA I E +KG +PFY+
Sbjct: 191 VLFTSEQSHYSIKKAGAALGFGTDNVILIKCNERGKIIPADFEAKILEAKQKGYVPFYV 249
>pdb|2OKK|A Chain A, The X-Ray Crystal Structure Of The 65kda Isoform Of
Glutamic Acid Decarboxylase (Gad65)
Length = 497
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 52/237 (21%), Positives = 97/237 (40%), Gaps = 18/237 (7%)
Query: 64 FKDFAKAMVDYVGNYLENIRDRRVLPTVEPGYLRPLIPETAPDTPDTWQEVMSDIERVIM 123
+D ++ YV + R +V+ P L D P +E++ + +
Sbjct: 24 LQDVMNILLQYVVKSFD--RSTKVIDFHYPNELLQEYNWELADQPQNLEEILMHCQTTLK 81
Query: 124 PGVTHWHSPKFHAYFPTANSYPAIVADILSDSIACIGFTWIASPACTELEVVMLDWLGKM 183
+ H P++ T + AD L+ + FT+ +P LE V L KM
Sbjct: 82 YAIKTGH-PRYFNQLSTGLDMVGLAADWLTSTANTNMFTYEIAPVFVLLEYVTLK---KM 137
Query: 184 LDLPKEFLACSGGKGGGVIQGTASEATLVALLGAKAKTMQRVKEAHPDWKDSDIIANLVG 243
+E + GG G G+ + + + A++ A+ K VKE K + L+
Sbjct: 138 ----REIIGWPGGSGDGIFSPGGAISNMYAMMIARFKMFPEVKE-----KGMAALPRLIA 188
Query: 244 YCSDQAHSSVERAGLLGGV---TIRGLPADDSYKLRGDALEAAIEEDLKKGKIPFYI 297
+ S+ +H S+++ G+ ++ + D+ K+ LE I E +KG +PF +
Sbjct: 189 FTSEHSHFSLKKGAAALGIGTDSVILIKCDERGKMIPSDLERRILEAKQKGFVPFLV 245
>pdb|2JIS|A Chain A, Human Cysteine Sulfinic Acid Decarboxylase (Csad) In
Complex With Plp.
pdb|2JIS|B Chain B, Human Cysteine Sulfinic Acid Decarboxylase (Csad) In
Complex With Plp
Length = 515
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 47/218 (21%), Positives = 90/218 (41%), Gaps = 22/218 (10%)
Query: 85 RRVLPTVEPGYLRPLIPETAPDTPDTWQEVMSDIERVIMPGVTHWHSPKFHAYFPTANSY 144
++V EP L+ L+ ++ ++++ VI V H F+ F + +
Sbjct: 63 QKVCEWKEPEELKQLLDLELRSQGESQKQILERCRAVIRYSVKTGHPRFFNQLFSGLDPH 122
Query: 145 PAIVADILSDSIACIGFTWIASPACTELEVVMLDWLGKMLDLPKEFLACSGGKGGGVIQG 204
A+ I+++S+ +T+ +P +E +L L + + S G G G
Sbjct: 123 -ALAGRIITESLNTSQYTYEIAPVFVLMEEEVLRKL-------RALVGWSSGDGIFCPGG 174
Query: 205 TASEATLVALLGAKAKTMQRVKEAHPDWKDSDI--IANLVGYCSDQAHSSVERAGL---L 259
+ S V L QR +PD K + + L + S + H S+++ L
Sbjct: 175 SISNMYAVNL-----ARYQR----YPDCKQRGLRTLPPLALFTSKECHYSIQKGAAFLGL 225
Query: 260 GGVTIRGLPADDSYKLRGDALEAAIEEDLKKGKIPFYI 297
G ++R + AD+ K+ + LE I +G +PF +
Sbjct: 226 GTDSVRVVKADERGKMVPEDLERQIGMAEAEGAVPFLV 263
>pdb|3FX7|A Chain A, Crystal Structure Of Hypothetical Protein Of Hp0062 From
Helicobacter Pylori
pdb|3FX7|B Chain B, Crystal Structure Of Hypothetical Protein Of Hp0062 From
Helicobacter Pylori
Length = 94
Score = 30.4 bits (67), Expect = 1.4, Method: Composition-based stats.
Identities = 14/61 (22%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 16 MGDVNEFKDFAKAMVDYVGNYLENIRD-RYVQLQRFSQMGSNIMGDVNEFKDFAKAMVDY 74
+G + FK+ + V+ + N+ N+ R + +FS++ N+ NEF + A+ + +
Sbjct: 15 VGHLERFKELLREEVNSLSNHFHNLESWRDARRDKFSEVLDNLKSTFNEFDEAAQEQIAW 74
Query: 75 V 75
+
Sbjct: 75 L 75
>pdb|2GTS|A Chain A, Structure Of Protein Of Unknown Function Hp0062 From
Helicobacter Pylori
Length = 86
Score = 30.4 bits (67), Expect = 1.4, Method: Composition-based stats.
Identities = 14/61 (22%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 16 MGDVNEFKDFAKAMVDYVGNYLENIRD-RYVQLQRFSQMGSNIMGDVNEFKDFAKAMVDY 74
+G + FK+ + V+ + N+ N+ R + +FS++ N+ NEF + A+ + +
Sbjct: 15 VGHLERFKELLREEVNSLSNHFHNLESWRDARRDKFSEVLDNLKSTFNEFDEAAQEQIAW 74
Query: 75 V 75
+
Sbjct: 75 L 75
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
0.319 0.137 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,556,239
Number of Sequences: 62578
Number of extensions: 404558
Number of successful extensions: 1089
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1072
Number of HSP's gapped (non-prelim): 18
length of query: 297
length of database: 14,973,337
effective HSP length: 98
effective length of query: 199
effective length of database: 8,840,693
effective search space: 1759297907
effective search space used: 1759297907
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)