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= 024671
(264 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F3Y|A Chain A, X-Ray Crystal Structure Of Dihydrodipicolinate Reductase
From Burkholderia Thailandensis
pdb|4F3Y|B Chain B, X-Ray Crystal Structure Of Dihydrodipicolinate Reductase
From Burkholderia Thailandensis
Length = 272
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 51/220 (23%), Positives = 88/220 (40%), Gaps = 50/220 (22%)
Query: 62 VVDYTVPAAVNGNAELYSKVGVPFVMGTTG-GDRVRLHETIENSNVYAVISPQMGKQVVA 120
++D+T+P + + + V V+GTTG + + + V S M V
Sbjct: 77 LIDFTLPEGTLVHLDAALRHDVKLVIGTTGFSEPQKAQLRAAGEKIALVFSANMSVGVNV 136
Query: 121 FLAAMEIMAEQFPGAFSGYSLQVLESHQAGKLDT-SGTA------------KAVISC--F 165
+ +E A+QF GY ++++E+H K+D SGTA +++ C +
Sbjct: 137 TMKLLEFAAKQFA---QGYDIEIIEAHHRHKVDAPSGTALMMGETIAAATGRSLDDCAVY 193
Query: 166 QKLGVSFDMDQIQMIRDPKQQLEMVGVPEEHLPGHAFHMYHLTSPDQTVSF-------EF 218
+ GV+ + D + + ++VG D TV F E
Sbjct: 194 GRHGVTGERDPSTIGFSAIRGGDIVG-------------------DHTVLFAGIGERIEI 234
Query: 219 QHNVCGRSIYAEGTVDAVLFLSKKVQLKADKRIYNMIDVL 258
H R YA+G + A FL+ + D ++M DVL
Sbjct: 235 THKSASRVSYAQGALRAARFLAGR-----DAGFFDMQDVL 269
>pdb|1VM6|A Chain A, Crystal Structure Of Dihydrodipicolinate Reductase
(Tm1520) From Thermotoga Maritima At 2.27 A Resolution
pdb|1VM6|B Chain B, Crystal Structure Of Dihydrodipicolinate Reductase
(Tm1520) From Thermotoga Maritima At 2.27 A Resolution
pdb|1VM6|C Chain C, Crystal Structure Of Dihydrodipicolinate Reductase
(Tm1520) From Thermotoga Maritima At 2.27 A Resolution
pdb|1VM6|D Chain D, Crystal Structure Of Dihydrodipicolinate Reductase
(Tm1520) From Thermotoga Maritima At 2.27 A Resolution
Length = 228
Score = 35.8 bits (81), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 43/186 (23%), Positives = 73/186 (39%), Gaps = 32/186 (17%)
Query: 61 IVVDYTVPAAVNGNAELYSKVGVPFVMGTTGGDRVRLHETIENSNVYAVISPQMGKQVVA 120
+V+D++ P A+ +L K V+GTT L E S V+ Q
Sbjct: 56 VVIDFSSPEALPKTVDLCKKYRAGLVLGTTALKEEHLQMLRELSKEVPVV------QAYN 109
Query: 121 FLAAMEIMAE---QFPGAFSGYSLQVLESHQAGKLDT-SGTAKAVISCFQKLGVSFDMDQ 176
F + ++ + + ++++E+H K D SGTA + S LG S
Sbjct: 110 FSIGINVLKRFLSELVKVLEDWDVEIVETHHRFKKDAPSGTAILLESA---LGKSV---- 162
Query: 177 IQMIRDPKQQLEMVGVPEEHLPGHAFHMYHLTSPDQTVSFEFQHNVCGRSIYAEGTVDAV 236
P L + GVP +H+ + + + E +H R+++A G + A
Sbjct: 163 ------PIHSLRVGGVPGDHV---------VVFGNIGETIEIKHRAISRTVFAIGALKAA 207
Query: 237 LFLSKK 242
FL K
Sbjct: 208 EFLVGK 213
>pdb|1YL6|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis
Dihydrodipicolinate Reductase (Rv2773c) (Crystal Form B)
pdb|1YL6|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis
Dihydrodipicolinate Reductase (Rv2773c) (Crystal Form B)
pdb|1YL7|A Chain A, The Crystal Structure Of Mycobacterium Tuberculosis
Dihydrodipicolinate Reductase (Rv2773c) In Complex With
Nadh (Crystal Form C)
pdb|1YL7|B Chain B, The Crystal Structure Of Mycobacterium Tuberculosis
Dihydrodipicolinate Reductase (Rv2773c) In Complex With
Nadh (Crystal Form C)
pdb|1YL7|C Chain C, The Crystal Structure Of Mycobacterium Tuberculosis
Dihydrodipicolinate Reductase (Rv2773c) In Complex With
Nadh (Crystal Form C)
pdb|1YL7|D Chain D, The Crystal Structure Of Mycobacterium Tuberculosis
Dihydrodipicolinate Reductase (Rv2773c) In Complex With
Nadh (Crystal Form C)
pdb|1YL7|E Chain E, The Crystal Structure Of Mycobacterium Tuberculosis
Dihydrodipicolinate Reductase (Rv2773c) In Complex With
Nadh (Crystal Form C)
pdb|1YL7|F Chain F, The Crystal Structure Of Mycobacterium Tuberculosis
Dihydrodipicolinate Reductase (Rv2773c) In Complex With
Nadh (Crystal Form C)
pdb|1YL7|G Chain G, The Crystal Structure Of Mycobacterium Tuberculosis
Dihydrodipicolinate Reductase (Rv2773c) In Complex With
Nadh (Crystal Form C)
pdb|1YL7|H Chain H, The Crystal Structure Of Mycobacterium Tuberculosis
Dihydrodipicolinate Reductase (Rv2773c) In Complex With
Nadh (Crystal Form C)
Length = 245
Score = 33.9 bits (76), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 45/198 (22%), Positives = 80/198 (40%), Gaps = 24/198 (12%)
Query: 61 IVVDYTVPAAVNGNAELYSKVGVPFVMGTTGGDRVRLHET----IENSNVYAVISPQMGK 116
+V+D+T P V GN E G+ V+GTTG R + + N +I+P
Sbjct: 48 VVIDFTHPDVVMGNLEFLIDNGIHAVVGTTGFTAERFQQVESWLVAKPNTSVLIAPNFAI 107
Query: 117 QVVAFLAAMEIMAEQFPGAFSGYSLQVLESHQAGKLDT-SGTA--KAVISCFQKLGVSFD 173
V + + A F A +V+E H K D SGTA A + + G+ +
Sbjct: 108 GAVLSMHFAKQAARFFDSA------EVIELHHPHKADAPSGTAARTAKLIAEARKGLPPN 161
Query: 174 MDQIQMIRDPKQQLEMVGVPEEHLPGHAFHMYHLTSPDQTV------SFEFQHNVCGRSI 227
D + ++ G+P HA + L + + + + +H+ R+
Sbjct: 162 PDATSTSLPGARGADVDGIPV-----HAVRLAGLVAHQEVLFGTEGETLTIRHDSLDRTS 216
Query: 228 YAEGTVDAVLFLSKKVQL 245
+ G + AV ++++ L
Sbjct: 217 FVPGVLLAVRRIAERPGL 234
>pdb|1C3V|A Chain A, Dihydrodipicolinate Reductase From Mycobacterium
Tuberculosis Complexed With Nadph And Pdc
pdb|1C3V|B Chain B, Dihydrodipicolinate Reductase From Mycobacterium
Tuberculosis Complexed With Nadph And Pdc
pdb|1P9L|A Chain A, Structure Of M. Tuberculosis Dihydrodipicolinate Reductase
In Complex With Nadh And 2,6 Pdc
pdb|1P9L|B Chain B, Structure Of M. Tuberculosis Dihydrodipicolinate Reductase
In Complex With Nadh And 2,6 Pdc
Length = 245
Score = 33.9 bits (76), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 45/198 (22%), Positives = 80/198 (40%), Gaps = 24/198 (12%)
Query: 61 IVVDYTVPAAVNGNAELYSKVGVPFVMGTTGGDRVRLHET----IENSNVYAVISPQMGK 116
+V+D+T P V GN E G+ V+GTTG R + + N +I+P
Sbjct: 48 VVIDFTHPDVVMGNLEFLIDNGIHAVVGTTGFTAERFQQVESWLVAKPNTSVLIAPNFAI 107
Query: 117 QVVAFLAAMEIMAEQFPGAFSGYSLQVLESHQAGKLDT-SGTA--KAVISCFQKLGVSFD 173
V + + A F A +V+E H K D SGTA A + + G+ +
Sbjct: 108 GAVLSMHFAKQAARFFDSA------EVIELHHPHKADAPSGTAARTAKLIAEARKGLPPN 161
Query: 174 MDQIQMIRDPKQQLEMVGVPEEHLPGHAFHMYHLTSPDQTV------SFEFQHNVCGRSI 227
D + ++ G+P HA + L + + + + +H+ R+
Sbjct: 162 PDATSTSLPGARGADVDGIPV-----HAVRLAGLVAHQEVLFGTEGETLTIRHDSLDRTS 216
Query: 228 YAEGTVDAVLFLSKKVQL 245
+ G + AV ++++ L
Sbjct: 217 FVPGVLLAVRRIAERPGL 234
>pdb|1YL5|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis
Dihydrodipicolinate Reductase (Rv2773c) (Crystal Form A)
pdb|1YL5|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis
Dihydrodipicolinate Reductase (Rv2773c) (Crystal Form A)
Length = 247
Score = 33.9 bits (76), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 45/198 (22%), Positives = 80/198 (40%), Gaps = 24/198 (12%)
Query: 61 IVVDYTVPAAVNGNAELYSKVGVPFVMGTTGGDRVRLHET----IENSNVYAVISPQMGK 116
+V+D+T P V GN E G+ V+GTTG R + + N +I+P
Sbjct: 50 VVIDFTHPDVVMGNLEFLIDNGIHAVVGTTGFTAERFQQVESWLVAKPNTSVLIAPNFAI 109
Query: 117 QVVAFLAAMEIMAEQFPGAFSGYSLQVLESHQAGKLDT-SGTA--KAVISCFQKLGVSFD 173
V + + A F A +V+E H K D SGTA A + + G+ +
Sbjct: 110 GAVLSMHFAKQAARFFDSA------EVIELHHPHKADAPSGTAARTAKLIAEARKGLPPN 163
Query: 174 MDQIQMIRDPKQQLEMVGVPEEHLPGHAFHMYHLTSPDQTV------SFEFQHNVCGRSI 227
D + ++ G+P HA + L + + + + +H+ R+
Sbjct: 164 PDATSTSLPGARGADVDGIPV-----HAVRLAGLVAHQEVLFGTEGETLTIRHDSLDRTS 218
Query: 228 YAEGTVDAVLFLSKKVQL 245
+ G + AV ++++ L
Sbjct: 219 FVPGVLLAVRRIAERPGL 236
>pdb|1ARZ|A Chain A, Escherichia Coli Dihydrodipicolinate Reductase In Complex
With Nadh And 2,6 Pyridine Dicarboxylate
pdb|1ARZ|B Chain B, Escherichia Coli Dihydrodipicolinate Reductase In Complex
With Nadh And 2,6 Pyridine Dicarboxylate
pdb|1ARZ|C Chain C, Escherichia Coli Dihydrodipicolinate Reductase In Complex
With Nadh And 2,6 Pyridine Dicarboxylate
pdb|1ARZ|D Chain D, Escherichia Coli Dihydrodipicolinate Reductase In Complex
With Nadh And 2,6 Pyridine Dicarboxylate
pdb|1DIH|A Chain A, Three-Dimensional Structure Of E. Coli Dihydrodipicolinate
Reductase
pdb|1DRU|A Chain A, Escherichia Coli DhprNADH COMPLEX
pdb|1DRV|A Chain A, Escherichia Coli DhprACNADH COMPLEX
pdb|1DRW|A Chain A, Escherichia Coli DhprNHDH COMPLEX
Length = 273
Score = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 65/278 (23%), Positives = 114/278 (41%), Gaps = 36/278 (12%)
Query: 1 MGKAVIKAADAAGLELVPVSFGTEEESGQKVEVCGKEIQVHGLS--DRESVLASVFDKYP 58
MG+ +I+AA A LE V + E E + E+ G + +S L +V D +
Sbjct: 17 MGRQLIQAALA--LEGVQLGAALEREGSSLLGSDAGELAGAGKTGVTVQSSLDAVKDDFD 74
Query: 59 NMIVVDYTVPAAVNGNAELYSKVGVPFVMGTTGGDRV-RLHETIENSNVYAVISPQMGKQ 117
+ +D+T P + + G V+GTTG D + +++ V +
Sbjct: 75 --VFIDFTRPEGTLNHLAFCRQHGKGMVIGTTGFDEAGKQAIRDAAADIAIVFAANFSVG 132
Query: 118 VVAFLAAMEIMAEQFPGAFSGYSLQVLESHQAGKLDT-SGTAKAVISCFQKLGVSFDMDQ 176
V L +E A + G ++ ++++E+H K+D SGTA ++ + + + D D
Sbjct: 133 VNVMLKLLE-KAAKVMGDYT--DIEIIEAHHRHKVDAPSGTA---LAMGEAIAHALDKDL 186
Query: 177 IQMIRDPKQQLEMVGVPEEHLPGHAFHMYHLTSPD----QTVSF-------EFQHNVCGR 225
++ G E +PG + + D T F E H R
Sbjct: 187 KDCAVYSRE-----GHTGERVPG-TIGFATVRAGDIVGEHTAMFADIGERLEITHKASSR 240
Query: 226 SIYAEGTVDAVLFLSKKVQLKADKRIYNMIDVLREGNM 263
+A G V + L+LS K + +++M DVL N+
Sbjct: 241 MTFANGAVRSALWLSGK-----ESGLFDMRDVLDLNNL 273
>pdb|1UF2|A Chain A, The Atomic Structure Of Rice Dwarf Virus (Rdv)
pdb|1UF2|B Chain B, The Atomic Structure Of Rice Dwarf Virus (Rdv)
Length = 1019
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 5/33 (15%)
Query: 215 SFEFQHNVCGRSIYAEGTVDAVLFLSKKVQLKA 247
S EF +V GRS++ EG +DA+ KV ++A
Sbjct: 849 SSEFVRSVNGRSVFTEGRIDAI-----KVNMRA 876
>pdb|2HKP|A Chain A, Sumo Protease Ulp1 With The Catalytic Cysteine Oxidized To
A Sulfenic Acid
pdb|2HL8|A Chain A, Sumo Protease Ulp1 With The Catalytic Cysteine Oxidized To
A Sulfinic Acid
pdb|2HL9|A Chain A, Sumo Protease Ulp1 With The Catalytic Cysteine Oxidized To
A Sulfonic Acid
Length = 221
Score = 27.7 bits (60), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 195 EHLPGHAFHMYHLTSPDQTVSFEFQHNVCGRSIYAEGTVDAVLFLSKKVQLKADKRIYNM 254
+H G F + HL P Q ++ VC ++Y G+ DA L K ++ + I ++
Sbjct: 157 KHTIGEDFDLIHLDCPQQPNGYDXGIYVCMNTLY--GSADAPLDFDYKDAIRMRRFIAHL 214
Query: 255 I 255
I
Sbjct: 215 I 215
>pdb|4A5B|A Chain A, Crystal Structure Of The C258sC268S VARIANT OF TOXOPLASMA
GONDII Nucleoside Triphosphate Diphosphohydrolase 1
(Ntpdase1)
pdb|4A5B|B Chain B, Crystal Structure Of The C258sC268S VARIANT OF TOXOPLASMA
GONDII Nucleoside Triphosphate Diphosphohydrolase 1
(Ntpdase1)
Length = 611
Score = 27.7 bits (60), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 37/118 (31%), Positives = 51/118 (43%), Gaps = 11/118 (9%)
Query: 140 SLQVLESHQAGKLDTSGTA--KAVISCFQKLGVSFDMDQIQMIRDPKQQLEMVGVPEEHL 197
SLQ L AG T SC K G S D D IQ+IR+ K+ + V EE L
Sbjct: 38 SLQALVVIDAGSSSTRTNVFLAKTRSCPNK-GRSIDPDSIQLIREGKRFTGLRVVLEEWL 96
Query: 198 PGHAFHMYHLTSPDQTVSFEF---QHNVCGR--SIYAEGTV---DAVLFLSKKVQLKA 247
+A + D + F++ H + + E TV D+ L +KVQ+KA
Sbjct: 97 DTYAGKDWESRPVDARLLFQYVPQMHEGAKKLMQLLEEDTVAILDSQLNEEQKVQVKA 154
>pdb|1EUV|A Chain A, X-Ray Structure Of The C-Terminal Ulp1 Protease Domain In
Complex With Smt3, The Yeast Ortholog Of Sumo
Length = 221
Score = 27.7 bits (60), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 195 EHLPGHAFHMYHLTSPDQTVSFEFQHNVCGRSIYAEGTVDAVLFLSKKVQLKADKRIYNM 254
+H G F + HL P Q ++ VC ++Y G+ DA L K ++ + I ++
Sbjct: 157 KHTIGEDFDLIHLDCPQQPNGYDCGIYVCMNTLY--GSADAPLDFDYKDAIRMRRFIAHL 214
Query: 255 I 255
I
Sbjct: 215 I 215
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 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,519,620
Number of Sequences: 62578
Number of extensions: 296800
Number of successful extensions: 769
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 763
Number of HSP's gapped (non-prelim): 11
length of query: 264
length of database: 14,973,337
effective HSP length: 97
effective length of query: 167
effective length of database: 8,903,271
effective search space: 1486846257
effective search space used: 1486846257
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: 50 (23.9 bits)