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= 028660
(206 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 83.6 bits (205), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 60/185 (32%), Positives = 97/185 (52%), Gaps = 17/185 (9%)
Query: 2 VTAPGDSPNTDGIHVTNTQNIRITSSTIGTGDDCISIVSGSQNVQAQDITC-----GPGH 56
+ P + NTDGI +++NI I S I TGDD ++I + + ++I+ G GH
Sbjct: 192 IKTPSTARNTDGIDPMSSKNITIAYSNIATGDDNVAIKAYKGRAETRNISILHNDFGTGH 251
Query: 57 GISIGSLGKGNSNAYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIFQNIDMVNVKN 116
G+SIGS G V VTVD K++ T NG+RIK+ + +G + + + N+ M NV
Sbjct: 252 GMSIGSETMG-----VYNVTVDDLKMNGTTNGLRIKSDKSAAGVVNGVRYSNVVMKNVAK 306
Query: 117 PIIIDQNYCDQDDPCKEQSSAVHIKNVVFKNIRGTSASDEAVKLDCSKSYPCEAIVLENI 176
PI+ID Y KE S+ ++ FK++ TS + V L+ + + ++N+
Sbjct: 307 PIVIDTVY-----EKKEGSNVPDWSDITFKDV--TSETKGVVVLNGENAKKPIEVTMKNV 359
Query: 177 NLQSE 181
L S+
Sbjct: 360 KLTSD 364
>pdb|2IQ7|A Chain A, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|B Chain B, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|C Chain C, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|D Chain D, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|E Chain E, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|F Chain F, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|G Chain G, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
Length = 339
Score = 78.6 bits (192), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 62/194 (31%), Positives = 101/194 (52%), Gaps = 11/194 (5%)
Query: 4 APGDSP---NTDGIHVTNTQNIRITSSTIGTGDDCISIVSGSQNVQAQDITCGPGHGISI 60
+ GDS NTD V ++ + I+ + + DDC++I SG+ N+ TC GHG+SI
Sbjct: 144 SAGDSAGGHNTDAFDVGSSTGVYISGANVKNQDDCLAINSGT-NITFTGGTCSGGHGLSI 202
Query: 61 GSLGKGNSNAYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIFQNIDMVNV-KNPII 119
GS+G G S+ V VT+ +K+ + NGVRIKT G +G S + + I + N+ K I+
Sbjct: 203 GSVG-GRSDNTVKTVTISNSKIVNSDNGVRIKTVSGATGSVSGVTYSGITLSNIAKYGIV 261
Query: 120 IDQNYCDQDDPCKEQSSAVHIKNVVFKNIRGTSASDEA-VKLDCSKSYPCEAIVLENINL 178
I+Q+Y + P ++ V I + I G+ AS V + C+ S C +++
Sbjct: 262 IEQDY-ENGSPTGTPTNGVPITGLTLSKITGSVASSGTNVYILCA-SGACSNWKWSGVSV 319
Query: 179 QSEEDEPKALCNNV 192
+ K C+N+
Sbjct: 320 TGGKKSTK--CSNI 331
>pdb|1NHC|A Chain A, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|B Chain B, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|C Chain C, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|D Chain D, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|E Chain E, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|F Chain F, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
Length = 336
Score = 78.6 bits (192), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 60/185 (32%), Positives = 95/185 (51%), Gaps = 8/185 (4%)
Query: 10 NTDGIHVTNTQNIRITSSTIGTGDDCISIVSGSQNVQAQDITCGPGHGISIGSLGKGNSN 69
NTDG ++ + + I+ +T+ DDCI+I SG +++ TC GHG+SIGS+G G +
Sbjct: 152 NTDGFDISESTGVYISGATVKNQDDCIAINSG-ESISFTGGTCSGGHGLSIGSVG-GRDD 209
Query: 70 AYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIFQNIDMVNVKN-PIIIDQNYCDQD 128
V VT+ + +S +ANGVRIKT +G S I + NI + + + I+I+Q+Y +
Sbjct: 210 NTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDY-ENG 268
Query: 129 DPCKEQSSAVHIKNVVFKNIRGTSASDEA-VKLDCSKSYPCEAIVLENINLQSEEDEPKA 187
P S+ + I +V + GT D V + C C ++L + K
Sbjct: 269 SPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDG-SCSDWTWSGVDLSGGKTSDK- 326
Query: 188 LCNNV 192
C NV
Sbjct: 327 -CENV 330
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 73.9 bits (180), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 46/146 (31%), Positives = 86/146 (58%), Gaps = 4/146 (2%)
Query: 10 NTDGIHVTNTQNIRITSSTIGTGDDCISIVSGSQNVQAQDITCGPGHGISIGSLGKGNSN 69
NTDG ++++ ++ + ++ + DDC+++ SG+ N+ ++ C GHG+SIGS+G G S+
Sbjct: 165 NTDGFDISSSDHVTLDNNHVYNQDDCVAVTSGT-NIVVSNMYCSGGHGLSIGSVG-GKSD 222
Query: 70 AYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIFQNIDMVNVKN-PIIIDQNYCDQD 128
V V +++ + NG RIK+ G +G +N+ +QNI + N+ + + Q+Y +
Sbjct: 223 NVVDGVQFLSSQVVNSQNGCRIKSNSGATGTINNVTYQNIALTNISTYGVDVQQDYLN-G 281
Query: 129 DPCKEQSSAVHIKNVVFKNIRGTSAS 154
P + ++ V I N+ F + GT AS
Sbjct: 282 GPTGKPTNGVKISNIKFIKVTGTVAS 307
>pdb|1CZF|A Chain A, Endo-Polygalacturonase Ii From Aspergillus Niger
pdb|1CZF|B Chain B, Endo-Polygalacturonase Ii From Aspergillus Niger
Length = 362
Score = 73.2 bits (178), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 50/143 (34%), Positives = 81/143 (56%), Gaps = 4/143 (2%)
Query: 10 NTDGIHVTNTQNIRITSSTIGTGDDCISIVSGSQNVQAQDITCGPGHGISIGSLGKGNSN 69
NTD V N+ + I + DDC+++ SG +N+ TC GHG+SIGS+G SN
Sbjct: 178 NTDAFDVGNSVGVNIIKPWVHNQDDCLAVNSG-ENIWFTGGTCIGGHGLSIGSVGD-RSN 235
Query: 70 AYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIFQNIDMVNVKN-PIIIDQNYCDQD 128
V VT++ + +S + N VRIKT G +G S I + NI M + + ++I Q+Y D
Sbjct: 236 NVVKNVTIEHSTVSNSENAVRIKTISGATGSVSEITYSNIVMSGISDYGVVIQQDYED-G 294
Query: 129 DPCKEQSSAVHIKNVVFKNIRGT 151
P + ++ V I++V +++ G+
Sbjct: 295 KPTGKPTNGVTIQDVKLESVTGS 317
>pdb|1IA5|A Chain A, Polygalacturonase From Aspergillus Aculeatus
pdb|1IB4|A Chain A, Crystal Structure Of Polygalacturonase From Aspergillus
Aculeatus At Ph4.5
pdb|1IB4|B Chain B, Crystal Structure Of Polygalacturonase From Aspergillus
Aculeatus At Ph4.5
Length = 339
Score = 68.6 bits (166), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 54/184 (29%), Positives = 92/184 (50%), Gaps = 8/184 (4%)
Query: 10 NTDGIHVTNTQNIRITSSTIGTGDDCISIVSGSQNVQAQDITCGPGHGISIGSLGKGNSN 69
NTD + + + I+ +T+ DDC+++ SG +N+ C GHG+SIGS+G G S+
Sbjct: 157 NTDAFDIGTSTYVTISGATVYNQDDCVAVNSG-ENIYFSGGYCSGGHGLSIGSVG-GRSD 214
Query: 70 AYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIFQNIDMVNV-KNPIIIDQNYCDQD 128
V VT + + + NGVRIKT +G S++ +++I + ++ K I++ QNY
Sbjct: 215 NTVKNVTFVDSTIINSDNGVRIKTNIDTTGSVSDVTYKDITLTSIAKYGIVVQQNY---G 271
Query: 129 DPCKEQSSAVHIKNVVFKNIRGTSASDEAVKLDCSKSYPCEAIVLENINLQSEEDEPKAL 188
D ++ V I + V N+ G+ S L S C ++++ + K
Sbjct: 272 DTSSTPTTGVPITDFVLDNVHGSVVSSGTNILISCGSGSCSDWTWTDVSVSGGKTSSK-- 329
Query: 189 CNNV 192
C NV
Sbjct: 330 CTNV 333
>pdb|1RMG|A Chain A, Rhamnogalacturonase A From Aspergillus Aculeatus
Length = 422
Score = 54.7 bits (130), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 46/185 (24%), Positives = 84/185 (45%), Gaps = 11/185 (5%)
Query: 1 MVTAPGDSPNTDGIHVTNTQNIRITSSTIGTGDDCISIVSGSQNVQAQDITCGPGHGISI 60
M G+ DGI V + NI + + D+C+++ S + N+ + I C G ++
Sbjct: 166 MAIRGGNEGGLDGIDVWGS-NIWVHDVEVTNKDECVTVKSPANNILVESIYCNWSGGCAM 224
Query: 61 GSLGKGNSNAYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIFQNIDMVNVKNPIII 120
GSLG ++ V+++ + IK+ GGSG SN++ +N + I
Sbjct: 225 GSLG---ADTDVTDIVYRNVYTWSSNQMYMIKS-NGGSGTVSNVLLENFIGHGNAYSLDI 280
Query: 121 DQNYCDQDDPCKEQSSAVHIKNVVFKNIRGTSASDEA---VKLDCSKSYPCEAIVLENIN 177
D + + V + N+ KN +GT A+ +++ CS + PC + LE+I
Sbjct: 281 DGYWSSMTAVAGD---GVQLNNITVKNWKGTEANGATRPPIRVVCSDTAPCTDLTLEDIA 337
Query: 178 LQSEE 182
+ +E
Sbjct: 338 IWTES 342
>pdb|2UVE|A Chain A, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase
pdb|2UVE|B Chain B, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase
pdb|2UVF|A Chain A, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase In Complex With Digalaturonic Acid
pdb|2UVF|B Chain B, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase In Complex With Digalaturonic Acid
Length = 608
Score = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 52/191 (27%), Positives = 89/191 (46%), Gaps = 24/191 (12%)
Query: 7 DSPNTDGIHVTNTQNIRITSSTIGTGDDCISIVSGS-QNVQAQDITCGP---------GH 56
D+ N DGI N+QN+ + ++ TGDDCI+ +G+ + Q Q+ G GH
Sbjct: 376 DANNGDGIEFGNSQNVMVFNNFFDTGDDCINFAAGTGEKAQEQEPMKGAWLFNNYFRMGH 435
Query: 57 G-ISIGSLGKGNSNAYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIFQNIDMVNV- 114
G I GS ++ A++ ++ + + T G+R K+ G A N+ F+N M ++
Sbjct: 436 GAIVTGS----HTGAWIEDILAENNVMYLTDIGLRAKSTSTIGGGARNVTFRNNAMRDLA 491
Query: 115 KNPIIIDQNYCDQD-----DPCK--EQSSAVHIKNVVFKNIRGTSASDEAVKLDCSKSYP 167
K +++ +Y D + P K Q +KNV N G + S E +K D +
Sbjct: 492 KQVMVMTLDYADSNANIDYPPAKIPAQFYDFTLKNVTVDNSTGKNPSIE-IKGDTANKAW 550
Query: 168 CEAIVLENINL 178
+ + N+ L
Sbjct: 551 HRLVHVNNVQL 561
>pdb|1K5C|A Chain A, Endopolygalacturonase I From Stereum Purpureum At 0.96 A
Resolution
pdb|1KCC|A Chain A, Endopolygalacturonase I From Stereum Purpureum Complexed
With A Galacturonate At 1.00 A Resolution.
pdb|1KCD|A Chain A, Endopolygalacturonase I From Stereum Purpureum Complexed
With Two Galacturonate At 1.15 A Resolution
Length = 335
Score = 50.4 bits (119), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 38/119 (31%), Positives = 65/119 (54%), Gaps = 7/119 (5%)
Query: 10 NTDGIHVTNTQNIRITSSTIGTGDDCISIVSGSQNVQAQDITCGPGHGISIGSLGKGNSN 69
NTDG V+ N+ I + + DDCI+I G N++ ++ C GHGISIGS+ G
Sbjct: 151 NTDGFDVS-ANNVTIQNCIVKNQDDCIAINDG-NNIRFENNQCSGGHGISIGSIATGK-- 206
Query: 70 AYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIFQNIDMVN--VKNPIIIDQNYCD 126
+VS V + G ++ + GVRIK + + + + + + + ++ K ++I Q+Y D
Sbjct: 207 -HVSNVVIKGNTVTRSMYGVRIKAQRTATSASVSGVTYDANTISGIAKYGVLISQSYPD 264
>pdb|3JUR|A Chain A, The Crystal Structure Of A Hyperthermoactive
Exopolygalacturonase From Thermotoga Maritima
pdb|3JUR|B Chain B, The Crystal Structure Of A Hyperthermoactive
Exopolygalacturonase From Thermotoga Maritima
pdb|3JUR|C Chain C, The Crystal Structure Of A Hyperthermoactive
Exopolygalacturonase From Thermotoga Maritima
pdb|3JUR|D Chain D, The Crystal Structure Of A Hyperthermoactive
Exopolygalacturonase From Thermotoga Maritima
Length = 448
Score = 36.2 bits (82), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 40/150 (26%), Positives = 61/150 (40%), Gaps = 19/150 (12%)
Query: 9 PNTDGIHVTNTQNIRITSSTIGTGDDCISIVSG-----------SQNVQAQD---ITCGP 54
PN DGI + + + I TGDD + I SG S+ + +D I+
Sbjct: 236 PNNDGIDPESCKYMLIEKCRFDTGDDSVVIKSGRDADGRRIGVPSEYILVRDNLVISQAS 295
Query: 55 GHGISIGSLGKGNSNAYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIFQNIDMVNV 114
G+ IGS G V+ V +R+KT GY NI F + VNV
Sbjct: 296 HGGLVIGSEMSGGVRNVVARNNV----YMNVERALRLKTNSRRGGYMENIFFIDNVAVNV 351
Query: 115 KNPII-IDQNYCDQDDPCKEQSSAVHIKNV 143
+I I+ Y +++ +V +KN+
Sbjct: 352 SEEVIRINLRYDNEEGEYLPVVRSVFVKNL 381
>pdb|2UV8|A Chain A, Crystal Structure Of Yeast Fatty Acid Synthase With Stalled
Acyl Carrier Protein At 3.1 Angstrom Resolution
pdb|2UV8|B Chain B, Crystal Structure Of Yeast Fatty Acid Synthase With Stalled
Acyl Carrier Protein At 3.1 Angstrom Resolution
pdb|2UV8|C Chain C, Crystal Structure Of Yeast Fatty Acid Synthase With Stalled
Acyl Carrier Protein At 3.1 Angstrom Resolution
Length = 1887
Score = 30.4 bits (67), Expect = 0.75, Method: Composition-based stats.
Identities = 26/93 (27%), Positives = 46/93 (49%), Gaps = 14/93 (15%)
Query: 67 NSNAYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIFQNIDMVNVKNPIIIDQNYCD 126
+ ++Y++ T++ AK+ E N + K GG G +I +NV+N I++N+
Sbjct: 1740 SKDSYINANTIETAKMIE--NMTKEKVSNGGVGVDVELITS----INVENDTFIERNFTP 1793
Query: 127 QD-DPCKEQSSAVHIKNVVFKNIRGTSASDEAV 158
Q+ + C Q S V + GT ++ EAV
Sbjct: 1794 QEIEYCSAQPS-------VQSSFAGTWSAKEAV 1819
>pdb|2VKZ|A Chain A, Structure Of The Cerulenin-Inhibited Fungal Fatty Acid
Synthase Type I Multienzyme Complex
pdb|2VKZ|B Chain B, Structure Of The Cerulenin-Inhibited Fungal Fatty Acid
Synthase Type I Multienzyme Complex
pdb|2VKZ|C Chain C, Structure Of The Cerulenin-Inhibited Fungal Fatty Acid
Synthase Type I Multienzyme Complex
pdb|3HMJ|A Chain A, Saccharomyces Cerevisiae Fas Type I
pdb|3HMJ|B Chain B, Saccharomyces Cerevisiae Fas Type I
pdb|3HMJ|C Chain C, Saccharomyces Cerevisiae Fas Type I
Length = 1887
Score = 30.4 bits (67), Expect = 0.75, Method: Composition-based stats.
Identities = 26/93 (27%), Positives = 46/93 (49%), Gaps = 14/93 (15%)
Query: 67 NSNAYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIFQNIDMVNVKNPIIIDQNYCD 126
+ ++Y++ T++ AK+ E N + K GG G +I +NV+N I++N+
Sbjct: 1740 SKDSYINANTIETAKMIE--NMTKEKVSNGGVGVDVELITS----INVENDTFIERNFTP 1793
Query: 127 QD-DPCKEQSSAVHIKNVVFKNIRGTSASDEAV 158
Q+ + C Q S V + GT ++ EAV
Sbjct: 1794 QEIEYCSAQPS-------VQSSFAGTWSAKEAV 1819
>pdb|3DMT|C Chain C, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Cruzi In Complex With The
Irreversible Iodoacetate Inhibitor
Length = 359
Score = 27.3 bits (59), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 84 ETANGVRIKTWQGGSGYASNII 105
+T +GV +K W+GG A NII
Sbjct: 201 KTVDGVSVKDWRGGRAAAVNII 222
>pdb|1K3T|A Chain A, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Cruzi Complexed With
Chalepin, A Coumarin Derivative Inhibitor
pdb|1K3T|B Chain B, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Cruzi Complexed With
Chalepin, A Coumarin Derivative Inhibitor
pdb|1K3T|C Chain C, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Cruzi Complexed With
Chalepin, A Coumarin Derivative Inhibitor
pdb|1K3T|D Chain D, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Cruzi Complexed With
Chalepin, A Coumarin Derivative Inhibitor
pdb|1ML3|A Chain A, Evidences For A Flip-Flop Catalytic Mechanism Of
Trypanosoma Cruzi Glyceraldehyde-3-Phosphate
Dehydrogenase, From Its Crystal Structure In Complex
With Reacted Irreversible Inhibitor
2-(2-Phosphono-Ethyl)-Acrylic Acid 4-Nitro-Phenyl Ester
pdb|1ML3|B Chain B, Evidences For A Flip-Flop Catalytic Mechanism Of
Trypanosoma Cruzi Glyceraldehyde-3-Phosphate
Dehydrogenase, From Its Crystal Structure In Complex
With Reacted Irreversible Inhibitor
2-(2-Phosphono-Ethyl)-Acrylic Acid 4-Nitro-Phenyl Ester
pdb|1ML3|C Chain C, Evidences For A Flip-Flop Catalytic Mechanism Of
Trypanosoma Cruzi Glyceraldehyde-3-Phosphate
Dehydrogenase, From Its Crystal Structure In Complex
With Reacted Irreversible Inhibitor
2-(2-Phosphono-Ethyl)-Acrylic Acid 4-Nitro-Phenyl Ester
pdb|1ML3|D Chain D, Evidences For A Flip-Flop Catalytic Mechanism Of
Trypanosoma Cruzi Glyceraldehyde-3-Phosphate
Dehydrogenase, From Its Crystal Structure In Complex
With Reacted Irreversible Inhibitor
2-(2-Phosphono-Ethyl)-Acrylic Acid 4-Nitro-Phenyl Ester
pdb|1QXS|C Chain C, Crystal Structure Of Trypanosoma Cruzi Glyceraldehyde-3-
Phosphate Dehydrogenase Complexed With An Analogue Of
1,3- Bisphospho-D-Glyceric Acid
pdb|1QXS|D Chain D, Crystal Structure Of Trypanosoma Cruzi Glyceraldehyde-3-
Phosphate Dehydrogenase Complexed With An Analogue Of
1,3- Bisphospho-D-Glyceric Acid
pdb|1QXS|A Chain A, Crystal Structure Of Trypanosoma Cruzi Glyceraldehyde-3-
Phosphate Dehydrogenase Complexed With An Analogue Of
1,3- Bisphospho-D-Glyceric Acid
pdb|1QXS|B Chain B, Crystal Structure Of Trypanosoma Cruzi Glyceraldehyde-3-
Phosphate Dehydrogenase Complexed With An Analogue Of
1,3- Bisphospho-D-Glyceric Acid
pdb|3DMT|A Chain A, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Cruzi In Complex With The
Irreversible Iodoacetate Inhibitor
pdb|3DMT|B Chain B, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Cruzi In Complex With The
Irreversible Iodoacetate Inhibitor
pdb|3DMT|D Chain D, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Cruzi In Complex With The
Irreversible Iodoacetate Inhibitor
pdb|3IDS|C Chain C, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Cruzi In Complex With The
Irreversible Iodoacetamide Inhibitor
pdb|3IDS|D Chain D, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Cruzi In Complex With The
Irreversible Iodoacetamide Inhibitor
pdb|3IDS|A Chain A, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Cruzi In Complex With The
Irreversible Iodoacetamide Inhibitor
pdb|3IDS|B Chain B, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Cruzi In Complex With The
Irreversible Iodoacetamide Inhibitor
Length = 359
Score = 27.3 bits (59), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 84 ETANGVRIKTWQGGSGYASNII 105
+T +GV +K W+GG A NII
Sbjct: 201 KTVDGVSVKDWRGGRAAAVNII 222
>pdb|2X0N|A Chain A, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Brucei Determined From
Laue Data
pdb|2X0N|B Chain B, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Brucei Determined From
Laue Data
pdb|2X0N|O Chain O, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Brucei Determined From
Laue Data
pdb|2X0N|P Chain P, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Brucei Determined From
Laue Data
pdb|2X0N|Q Chain Q, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Brucei Determined From
Laue Data
pdb|2X0N|R Chain R, Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Trypanosoma Brucei Determined From
Laue Data
Length = 359
Score = 27.3 bits (59), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 84 ETANGVRIKTWQGGSGYASNII 105
+T +GV +K W+GG A NII
Sbjct: 201 KTVDGVSVKDWRGGRAAALNII 222
>pdb|1A7K|A Chain A, Glycosomal Glyceraldehyde-3-Phosphate Dehydrogenase In A
Monoclinic Crystal Form
pdb|1A7K|B Chain B, Glycosomal Glyceraldehyde-3-Phosphate Dehydrogenase In A
Monoclinic Crystal Form
pdb|1A7K|C Chain C, Glycosomal Glyceraldehyde-3-Phosphate Dehydrogenase In A
Monoclinic Crystal Form
pdb|1A7K|D Chain D, Glycosomal Glyceraldehyde-3-Phosphate Dehydrogenase In A
Monoclinic Crystal Form
pdb|1I32|A Chain A, Leishmania Mexicana Glyceraldehyde-3-Phosphate
Dehydrogenase In Complex With Inhibitors
pdb|1I32|B Chain B, Leishmania Mexicana Glyceraldehyde-3-Phosphate
Dehydrogenase In Complex With Inhibitors
pdb|1I32|C Chain C, Leishmania Mexicana Glyceraldehyde-3-Phosphate
Dehydrogenase In Complex With Inhibitors
pdb|1I32|D Chain D, Leishmania Mexicana Glyceraldehyde-3-Phosphate
Dehydrogenase In Complex With Inhibitors
pdb|1I32|E Chain E, Leishmania Mexicana Glyceraldehyde-3-Phosphate
Dehydrogenase In Complex With Inhibitors
pdb|1I32|F Chain F, Leishmania Mexicana Glyceraldehyde-3-Phosphate
Dehydrogenase In Complex With Inhibitors
pdb|1I33|A Chain A, Leishmania Mexicana Glyceraldehyde-3-Phosphate
Dehydrogenase In Complex With Inhibitors
pdb|1I33|B Chain B, Leishmania Mexicana Glyceraldehyde-3-Phosphate
Dehydrogenase In Complex With Inhibitors
pdb|1I33|C Chain C, Leishmania Mexicana Glyceraldehyde-3-Phosphate
Dehydrogenase In Complex With Inhibitors
pdb|1I33|D Chain D, Leishmania Mexicana Glyceraldehyde-3-Phosphate
Dehydrogenase In Complex With Inhibitors
pdb|1I33|E Chain E, Leishmania Mexicana Glyceraldehyde-3-Phosphate
Dehydrogenase In Complex With Inhibitors
pdb|1I33|F Chain F, Leishmania Mexicana Glyceraldehyde-3-Phosphate
Dehydrogenase In Complex With Inhibitors
Length = 360
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 84 ETANGVRIKTWQGGSGYASNII 105
+T +GV +K W+GG A NII
Sbjct: 201 KTVDGVSLKDWRGGRAAAVNII 222
>pdb|1GYP|A Chain A, Crystal Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Leishmania Mexicana: Implications For
Structure-Based Drug Design And A New Position For The
Inorganic Phosphate Binding Site
pdb|1GYP|B Chain B, Crystal Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Leishmania Mexicana: Implications For
Structure-Based Drug Design And A New Position For The
Inorganic Phosphate Binding Site
pdb|1GYP|C Chain C, Crystal Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Leishmania Mexicana: Implications For
Structure-Based Drug Design And A New Position For The
Inorganic Phosphate Binding Site
pdb|1GYP|D Chain D, Crystal Structure Of Glycosomal Glyceraldehyde-3-Phosphate
Dehydrogenase From Leishmania Mexicana: Implications For
Structure-Based Drug Design And A New Position For The
Inorganic Phosphate Binding Site
pdb|1GYQ|A Chain A, Crystal Structure Of Glycosomal Glyceraldehyde From
Leishmania Mexicana In Complex With N6-Benzyl-Nad
pdb|1GYQ|B Chain B, Crystal Structure Of Glycosomal Glyceraldehyde From
Leishmania Mexicana In Complex With N6-Benzyl-Nad
pdb|1GYQ|C Chain C, Crystal Structure Of Glycosomal Glyceraldehyde From
Leishmania Mexicana In Complex With N6-Benzyl-Nad
pdb|1GYQ|D Chain D, Crystal Structure Of Glycosomal Glyceraldehyde From
Leishmania Mexicana In Complex With N6-Benzyl-Nad
Length = 358
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 84 ETANGVRIKTWQGGSGYASNII 105
+T +GV +K W+GG A NII
Sbjct: 201 KTVDGVSLKDWRGGRAAAVNII 222
>pdb|1AXK|A Chain A, Engineered Bacillus Bifunctional Enzyme Gluxyn-1
pdb|1AXK|B Chain B, Engineered Bacillus Bifunctional Enzyme Gluxyn-1
Length = 394
Score = 27.3 bits (59), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 48/107 (44%), Gaps = 14/107 (13%)
Query: 7 DSPNTDGIHVTNTQNIRITSSTIGTGDDCISIVSGSQNVQAQDITCGPGHGISIGS---- 62
++P+ DG T TQ + S TG + ++ S +V A HG+++GS
Sbjct: 270 NAPSIDGDRTTFTQYWSVRQSKRPTGSNAT--ITFSNHVNAWK-----SHGMNLGSNWAY 322
Query: 63 ---LGKGNSNAYVSEVTVDGAKLSETANGVRIKTWQGGSGYASNIIF 106
+G ++ S VTV G+ E + TW+ GY++ +F
Sbjct: 323 QVMATEGYQSSGSSNVTVWGSVFWEPKSYFNPSTWEKADGYSNGGVF 369
>pdb|2RAR|A Chain A, X-Ray Crystallographic Structures Show Conservation Of A
Trigonal- Bipyramidal Intermediate In A
Phosphoryl-Transfer Superfamily.
pdb|2RAV|A Chain A, X-Ray Crystallographic Structures Show Conservation Of A
Trigonal- Bipyramidal Intermediate In A
Phosphoryl-Transfer Superfamily
Length = 261
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%)
Query: 140 IKNVVFKNIRGTSASDEAVKLDCSKSYPCEAIVLENINLQSEEDEPKALCNNVDDLAQR 198
+ +F +I GT S E ++ S EA + + + PKA+ NN+ +L R
Sbjct: 1 MTKALFFDIAGTLVSFETHRIPSSTIEALEAAHAKGLKIFIATGRPKAIINNLSELQDR 59
>pdb|2O8B|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G T MISPAIR
pdb|2O8C|A Chain A, Human Mutsalpha (msh2/msh6) Bound To Adp And An
O6-methyl-guanine T Mispair
pdb|2O8D|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G DU MISPAIR
pdb|2O8F|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO DNA WITH A SINGLE BASE
T INSERT
pdb|3THW|A Chain A, Human Mutsbeta Complexed With An Idl Of 4 Bases (Loop4)
And Adp
pdb|3THX|A Chain A, Human Mutsbeta Complexed With An Idl Of 3 Bases (Loop3)
And Adp
pdb|3THY|A Chain A, Human Mutsbeta Complexed With An Idl Of 2 Bases (Loop2)
And Adp
pdb|3THZ|A Chain A, Human Mutsbeta Complexed With An Idl Of 6 Bases (Loop6)
And Adp
Length = 934
Score = 26.9 bits (58), Expect = 7.4, Method: Composition-based stats.
Identities = 26/81 (32%), Positives = 36/81 (44%), Gaps = 12/81 (14%)
Query: 131 CKEQSSAVHIKN----------VVFKNIRGTSASDEAVKLDCSKSYPCEAIVLENINLQS 180
CKE+ + KN V F N + TS ++E K +AIV E +N+ S
Sbjct: 527 CKEEKVLRNNKNFSTVDIQKNGVKFTNSKLTSLNEEYTKNKTEYEEAQDAIVKEIVNISS 586
Query: 181 EEDEPKALCNNVDDLAQRGSV 201
EP N+V LAQ +V
Sbjct: 587 GYVEPMQTLNDV--LAQLDAV 605
>pdb|2O8E|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO A G T MISPAIR, WITH
ADP BOUND TO Msh2 Only
Length = 934
Score = 26.9 bits (58), Expect = 7.7, Method: Composition-based stats.
Identities = 26/81 (32%), Positives = 36/81 (44%), Gaps = 12/81 (14%)
Query: 131 CKEQSSAVHIKN----------VVFKNIRGTSASDEAVKLDCSKSYPCEAIVLENINLQS 180
CKE+ + KN V F N + TS ++E K +AIV E +N+ S
Sbjct: 527 CKEEKVLRNNKNFSTVDIQKNGVKFTNSKLTSLNEEYTKNKTEYEEAQDAIVKEIVNISS 586
Query: 181 EEDEPKALCNNVDDLAQRGSV 201
EP N+V LAQ +V
Sbjct: 587 GYVEPMQTLNDV--LAQLDAV 605
>pdb|1YMQ|A Chain A, Had Superfamily Phosphotransferase Substrate
Diversification: Structure And Function Analysis Of The
Had Subclass Iib Sugar Phosphatase Bt4131
pdb|2RB5|A Chain A, X-ray Crystallographic Structures Show Conservation Of A
Trigonal- Bipyramidal Intermediate In A
Phosphoryl-transfer Superfamily.
pdb|2RBK|A Chain A, X-ray Crystallographic Structures Show Conservation Of A
Trigonal- Bipyramidal Intermediate In A
Phosphoryl-transfer Superfamily
Length = 261
Score = 26.6 bits (57), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%)
Query: 140 IKNVVFKNIRGTSASDEAVKLDCSKSYPCEAIVLENINLQSEEDEPKALCNNVDDLAQR 198
+ +F +I GT S E ++ S EA + + + PKA+ NN+ +L R
Sbjct: 1 MTKALFFDIDGTLVSFETHRIPSSTIEALEAAHAKGLKIFIATGRPKAIINNLSELQDR 59
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
0.312 0.131 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,315,290
Number of Sequences: 62578
Number of extensions: 251937
Number of successful extensions: 464
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 418
Number of HSP's gapped (non-prelim): 38
length of query: 206
length of database: 14,973,337
effective HSP length: 94
effective length of query: 112
effective length of database: 9,091,005
effective search space: 1018192560
effective search space used: 1018192560
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 49 (23.5 bits)