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= psy2386
(311 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3B0P|A Chain A, Trna-Dihydrouridine Synthase From Thermus Thermophilus
pdb|3B0P|B Chain B, Trna-Dihydrouridine Synthase From Thermus Thermophilus
pdb|3B0U|X Chain X, Trna-Dihydrouridine Synthase From Thermus Thermophilus In
Complex With Trna Fragment
pdb|3B0U|Y Chain Y, Trna-Dihydrouridine Synthase From Thermus Thermophilus In
Complex With Trna Fragment
Length = 350
Score = 236 bits (602), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 116/290 (40%), Positives = 183/290 (63%), Gaps = 7/290 (2%)
Query: 4 TDRHCRMFHRQITRYSWLYTEMFTTQAIL-GNKKHCLDFNAEEHPIAFQVGDNEPKKLAK 62
TDRH R RQ++ LYTEM QA+L GN++ L F EEHPIA Q+ ++PK LA+
Sbjct: 15 TDRHFRFLVRQVSLGVRLYTEMTVDQAVLRGNRERLLAFRPEEHPIALQLAGSDPKSLAE 74
Query: 63 SAKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDITVKHR 122
+A+I + +GYDEINLN GCPS + Q G +GA L+ V + +KAM ++V + +TVK R
Sbjct: 75 AARIGEAFGYDEINLNLGCPSEKAQEGGYGACLLLDLARVREILKAMGEAVRVPVTVKMR 134
Query: 123 IGIDDINSYDFVRDFVGTVSSAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVYNLKK 182
+G++ +Y + V ++ AG + F+VHAR+A L L+ K NR+IP L++++V+ LK
Sbjct: 135 LGLEGKETYRGLAQSVEAMAEAGVKVFVVHARSALL-ALSTKANREIPPLRHDWVHRLKG 193
Query: 183 DFPELEIIINGGIKTKKEIDLHLNYIDGVMLGREAYKNPFLMSNFDLNYYSNLPQYKIPT 242
DFP+L + NGGI++ +E HL +DGVMLGR Y++PF++ D + LP+ P+
Sbjct: 194 DFPQLTFVTNGGIRSLEEALFHLKRVDGVMLGRAVYEDPFVLEEADRRVF-GLPRR--PS 250
Query: 243 RIDIINRMILYIRQQLXXXXXXXXXSITRHMLGLMKNIKGSNKFKQILSK 292
R+++ RM Y+ +++ ++ RHML L + ++++LS+
Sbjct: 251 RLEVARRMRAYLEEEV--LKGTPPWAVLRHMLNLFRGRPKGRLWRRLLSE 298
>pdb|3B0V|C Chain C, Trna-Dihydrouridine Synthase From Thermus Thermophilus In
Complex With Trna
pdb|3B0V|D Chain D, Trna-Dihydrouridine Synthase From Thermus Thermophilus In
Complex With Trna
Length = 363
Score = 223 bits (568), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 111/293 (37%), Positives = 179/293 (61%), Gaps = 7/293 (2%)
Query: 1 MNLTDRHCRMFHRQITRYSWLYTEMFTTQAIL-GNKKHCLDFNAEEHPIAFQVGDNEPKK 59
++ TDRH R RQ++ LYTE QA+L GN++ L F EEHPIA Q+ ++PK
Sbjct: 33 VDRTDRHFRFLVRQVSLGVRLYTEXTVDQAVLRGNRERLLAFRPEEHPIALQLAGSDPKS 92
Query: 60 LAKSAKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDITV 119
LA++A+I + +GYDEINLN GCPS + Q G +GA L+ V + +KA ++V + +TV
Sbjct: 93 LAEAARIGEAFGYDEINLNLGCPSEKAQEGGYGACLLLDLARVREILKAXGEAVRVPVTV 152
Query: 120 KHRIGIDDINSYDFVRDFVGTVSSAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVYN 179
K R+G++ +Y + V + AG + F+VHAR+A L L+ K NR+IP L++++V+
Sbjct: 153 KXRLGLEGKETYRGLAQSVEAXAEAGVKVFVVHARSALL-ALSTKANREIPPLRHDWVHR 211
Query: 180 LKKDFPELEIIINGGIKTKKEIDLHLNYIDGVMLGREAYKNPFLMSNFDLNYYSNLPQYK 239
LK DFP+L + NGGI++ +E HL +DGV LGR Y++PF++ D + LP+
Sbjct: 212 LKGDFPQLTFVTNGGIRSLEEALFHLKRVDGVXLGRAVYEDPFVLEEADRRVF-GLPRR- 269
Query: 240 IPTRIDIINRMILYIRQQLXXXXXXXXXSITRHMLGLMKNIKGSNKFKQILSK 292
P+R+++ R Y+ +++ ++ RH L L + ++++LS+
Sbjct: 270 -PSRLEVARRXRAYLEEEV--LKGTPPWAVLRHXLNLFRGRPKGRLWRRLLSE 319
>pdb|1VHN|A Chain A, Crystal Structure Of A Putative Flavin Oxidoreductase With
Flavin
Length = 318
Score = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 59/288 (20%), Positives = 120/288 (41%), Gaps = 23/288 (7%)
Query: 22 YTEMFTTQAILGNKKHCLDFNAEEHP--IAFQVGDNEPKKLAKSAKIIQKWGYDEINLNC 79
++E + + L N + + + H +A Q+ +EP +L+++A+I+ + Y I+LN
Sbjct: 33 FSEXVSAKGFLXNSQKTEELLPQPHERNVAVQIFGSEPNELSEAARILSE-KYKWIDLNA 91
Query: 80 GCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDITVKHRIGIDDINSYDFVRDFVG 139
GCP +V G L+ ++ +R SV +VK R+G + + R V
Sbjct: 92 GCPVRKVVKEGAGGALLKDLRHFRYIVRELRKSVSGKFSVKTRLGWEKNEVEEIYRILV- 150
Query: 140 TVSSAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDFPELEIIINGGIKTKK 199
G +H R + + + + L+K P ++G I T +
Sbjct: 151 ---EEGVDEVFIHTRTVVQSFTGRAEWKALSV--------LEKRIP---TFVSGDIFTPE 196
Query: 200 EID--LHLNYIDGVMLGREAYKNPFLMSNFDLNYYSNLPQYKIPTRIDIINRMILYIRQQ 257
+ L + DG+++ R A P++ + + +Y P+R +I+ ++
Sbjct: 197 DAKRALEESGCDGLLVARGAIGRPWIFKQ--IKDFLRSGKYSEPSREEILRTFERHLELL 254
Query: 258 LXXXXXXXXXSITRHML-GLMKNIKGSNKFKQILSKPNLLTIDNFQFF 304
+ R L G K++KG+ +F++ + K + I F+
Sbjct: 255 IKTKGERKAVVEXRKFLAGYTKDLKGARRFREKVXKIEEVQILKEXFY 302
>pdb|1EP1|A Chain A, Crystal Structure Of Lactococcus Lactis Dihydroorotate
Dehydrogenase B
pdb|1EP2|A Chain A, Crystal Structure Of Lactococcus Lactis Dihydroorotate
Dehydrogenase B Complexed With Orotate
pdb|1EP3|A Chain A, Crystal Structure Of Lactococcus Lactis Dihydroorotate
Dehydrogenase B. Data Collected Under Cryogenic
Conditions
Length = 311
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 49/236 (20%), Positives = 92/236 (38%), Gaps = 17/236 (7%)
Query: 29 QAILGNKKHCLDFNAEEHPIAFQV-GDNEPKKLAKSAKIIQKWGYDEINLNCGCPSNRVQ 87
+ I+ K L+ N E PI V G E +A AKI I LN CP+ +
Sbjct: 82 EVIMTEKLPWLNENFPELPIIANVAGSEEADYVAVCAKIGDAANVKAIELNISCPNVKHG 141
Query: 88 NGFFGAILMTKPLLVSDCIKAMRDSVEIDITVKHRIGIDDINSYDFVRDFVGTVSSAGCR 147
FG T P + + +KA + ++ + VK + DI + G
Sbjct: 142 GQAFG----TDPEVAAALVKACKAVSKVPLYVKLSPNVTDIVPIAKAVEAAGADGLTMIN 197
Query: 148 T-----FIVHARNAFLKKLNPK-QNRKIPILKYNFVYNLKKDFPELEIIINGGIKTKKEI 201
T F + R L + I + ++ + +D ++ II GG+ +++
Sbjct: 198 TLMGVRFDLKTRQPILANITGGLSGPAIKPVALKLIHQVAQDV-DIPIIGMGGVANAQDV 256
Query: 202 -DLHLNYIDGVMLGREAYKNPFLMSNFDLNYYSNLPQYKIPTRIDIINRMILYIRQ 256
++++ V +G + +PF+ LP+ RI+ + +I +++
Sbjct: 257 LEMYMAGASAVAVGTANFADPFVCPKI----IDKLPELMDQYRIESLESLIQEVKE 308
>pdb|4B1J|A Chain A, Structure Of Human Parg Catalytic Domain In Complex With
Adp-hpd
Length = 531
Score = 31.2 bits (69), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 143 SAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDFPEL 187
+AG R ++ + A L K QN K ILKYN Y+ K DF L
Sbjct: 86 TAGSRWELI--QTALLNKFTRPQNLKDAILKYNVAYSKKWDFTAL 128
>pdb|4B1H|A Chain A, Structure Of Human Parg Catalytic Domain In Complex With
Adp-ribose
Length = 531
Score = 31.2 bits (69), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 143 SAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDFPEL 187
+AG R ++ + A L K QN K ILKYN Y+ K DF L
Sbjct: 86 TAGSRWELI--QTALLNKFTRPQNLKDAILKYNVAYSKKWDFTAL 128
>pdb|4A0D|A Chain A, Structure Of Unliganded Human Parg Catalytic Domain
pdb|4B1I|A Chain A, Structure Of Human Parg Catalytic Domain In Complex With
Oa-adp-hpd
Length = 531
Score = 31.2 bits (69), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 143 SAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDFPEL 187
+AG R ++ + A L K QN K ILKYN Y+ K DF L
Sbjct: 86 TAGSRWELI--QTALLNKFTRPQNLKDAILKYNVAYSKKWDFTAL 128
>pdb|4B1G|A Chain A, Structure Of Unliganded Human Parg Catalytic Domain
Length = 531
Score = 31.2 bits (69), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 143 SAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDFPEL 187
+AG R ++ + A L K QN K ILKYN Y+ K DF L
Sbjct: 86 TAGSRWELI--QTALLNKFTRPQNLKDAILKYNVAYSKKWDFTAL 128
>pdb|4FC2|A Chain A, Crystal Structure Of Mouse Poly(Adp-Ribose) Glycohydrolase
(Parg) Catalytic Domain
pdb|4FC2|B Chain B, Crystal Structure Of Mouse Poly(Adp-Ribose) Glycohydrolase
(Parg) Catalytic Domain
pdb|4FC2|C Chain C, Crystal Structure Of Mouse Poly(Adp-Ribose) Glycohydrolase
(Parg) Catalytic Domain
pdb|4FC2|D Chain D, Crystal Structure Of Mouse Poly(Adp-Ribose) Glycohydrolase
(Parg) Catalytic Domain
Length = 521
Score = 30.8 bits (68), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 143 SAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDFPEL 187
+AG R ++ + A L K QN K ILKYN Y+ K DF L
Sbjct: 86 TAGSRWELI--QTALLNKFTRPQNLKDAILKYNVAYSKKWDFTAL 128
>pdb|3UEK|A Chain A, Crystal Structure Of The Catalytic Domain Of Rat Poly
(Adp-Ribose) Glycohydrolase
pdb|3UEL|A Chain A, Crystal Structure Of The Catalytic Domain Of Rat Poly
(Adp-Ribose) Glycohydrolase Bound To Adp-Hpd
pdb|3UEL|B Chain B, Crystal Structure Of The Catalytic Domain Of Rat Poly
(Adp-Ribose) Glycohydrolase Bound To Adp-Hpd
pdb|3UEL|C Chain C, Crystal Structure Of The Catalytic Domain Of Rat Poly
(Adp-Ribose) Glycohydrolase Bound To Adp-Hpd
Length = 588
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 143 SAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDFPEL 187
+AG R ++ A L K QN K ILKYN Y+ K DF L
Sbjct: 143 TAGSRWELIQ--TALLNKFTRPQNLKDAILKYNVAYSKKWDFTAL 185
>pdb|1DOR|A Chain A, Dihydroorotate Dehydrogenase A From Lactococcus Lactis
pdb|1DOR|B Chain B, Dihydroorotate Dehydrogenase A From Lactococcus Lactis
pdb|2DOR|A Chain A, Dihydroorotate Dehydrogenase A From Lactococcus Lactis
Complexed With Orotate
pdb|2DOR|B Chain B, Dihydroorotate Dehydrogenase A From Lactococcus Lactis
Complexed With Orotate
pdb|1JUE|A Chain A, 1.8 A Resolution Structure Of Native Lactococcus Lactis
Dihydroorotate Dehydrogenase A
pdb|1JUE|B Chain B, 1.8 A Resolution Structure Of Native Lactococcus Lactis
Dihydroorotate Dehydrogenase A
pdb|2BSL|A Chain A, Crystal Structure Of L. Lactis Dihydroorotate Dehydrogense
A In Complex With 3,4-Dihydroxybenzoate
pdb|2BSL|B Chain B, Crystal Structure Of L. Lactis Dihydroorotate Dehydrogense
A In Complex With 3,4-Dihydroxybenzoate
pdb|2BX7|A Chain A, Crystal Structure Of L. Lactis Dihydroorotate Dehydrogense
A In Complex With 3,5-Dihydroxybenzoate
pdb|2BX7|B Chain B, Crystal Structure Of L. Lactis Dihydroorotate Dehydrogense
A In Complex With 3,5-Dihydroxybenzoate
Length = 311
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 51/193 (26%), Positives = 83/193 (43%), Gaps = 32/193 (16%)
Query: 31 ILGNKKHCLDFNAEEHPIAFQV-GDNEPKKLAKSAKIIQK--WGYDEINLNCGCPSNRVQ 87
+L N+K NA+E PI F + G + + +A KI + G E+NL+C + Q
Sbjct: 83 VLKNQKE----NAQEGPIFFSIAGMSAAENIAMLKKIQESDFSGITELNLSCPNVPGKPQ 138
Query: 88 NGF-FGAI---------LMTKPLLVSDCIKAMRDSVEIDITVKHRIGIDDINSYDFVRDF 137
+ F A TKPL V + D V DI + +N + +
Sbjct: 139 LAYDFEATEKLLKEVFTFFTKPLGVK--LPPYFDLVHFDIMA------EILNQFPLT--Y 188
Query: 138 VGTVSSAGCRTFI-VHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDF----PELEIIIN 192
V +V+S G FI A + +K + +K + N++ + PE++II
Sbjct: 189 VNSVNSIGNGLFIDPEAESVVIKPKDGFGGIGGAYIKPTALANVRAFYTRLKPEIQIIGT 248
Query: 193 GGIKTKKEIDLHL 205
GGI+T ++ HL
Sbjct: 249 GGIETGQDAFEHL 261
>pdb|1JQV|A Chain A, The K213e Mutant Of Lactococcus Lactis Dihydroorotate
Dehydrogenase A
pdb|1JQV|B Chain B, The K213e Mutant Of Lactococcus Lactis Dihydroorotate
Dehydrogenase A
Length = 311
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 51/193 (26%), Positives = 83/193 (43%), Gaps = 32/193 (16%)
Query: 31 ILGNKKHCLDFNAEEHPIAFQV-GDNEPKKLAKSAKIIQK--WGYDEINLNCGCPSNRVQ 87
+L N+K NA+E PI F + G + + +A KI + G E+NL+C + Q
Sbjct: 83 VLKNQKE----NAQEGPIFFSIAGMSAAENIAMLKKIQESDFSGITELNLSCPNVPGKPQ 138
Query: 88 NGF-FGAI---------LMTKPLLVSDCIKAMRDSVEIDITVKHRIGIDDINSYDFVRDF 137
+ F A TKPL V + D V DI + +N + +
Sbjct: 139 LAYDFEATEKLLKEVFTFFTKPLGVK--LPPYFDLVHFDIMA------EILNQFPLT--Y 188
Query: 138 VGTVSSAGCRTFI-VHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDF----PELEIIIN 192
V +V+S G FI A + +K + +K + N++ + PE++II
Sbjct: 189 VNSVNSIGNGLFIDPEAESVVIKPEDGFGGIGGAYIKPTALANVRAFYTRLKPEIQIIGT 248
Query: 193 GGIKTKKEIDLHL 205
GGI+T ++ HL
Sbjct: 249 GGIETGQDAFEHL 261
>pdb|1JQX|A Chain A, The R57a Mutant Of Lactococcus Lactis Dihydroorotate
Dehydrogenase A
pdb|1JQX|B Chain B, The R57a Mutant Of Lactococcus Lactis Dihydroorotate
Dehydrogenase A
Length = 311
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 51/193 (26%), Positives = 83/193 (43%), Gaps = 32/193 (16%)
Query: 31 ILGNKKHCLDFNAEEHPIAFQV-GDNEPKKLAKSAKIIQK--WGYDEINLNCGCPSNRVQ 87
+L N+K NA+E PI F + G + + +A KI + G E+NL+C + Q
Sbjct: 83 VLKNQKE----NAQEGPIFFSIAGMSAAENIAMLKKIQESDFSGITELNLSCPNVPGKPQ 138
Query: 88 NGF-FGAI---------LMTKPLLVSDCIKAMRDSVEIDITVKHRIGIDDINSYDFVRDF 137
+ F A TKPL V + D V DI + +N + +
Sbjct: 139 LAYDFEATEKLLKEVFTFFTKPLGVK--LPPYFDLVHFDIMA------EILNQFPLT--Y 188
Query: 138 VGTVSSAGCRTFI-VHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDF----PELEIIIN 192
V +V+S G FI A + +K + +K + N++ + PE++II
Sbjct: 189 VNSVNSIGNGLFIDPEAESVVIKPKDGFGGIGGAYIKPTALANVRAFYTRLKPEIQIIGT 248
Query: 193 GGIKTKKEIDLHL 205
GGI+T ++ HL
Sbjct: 249 GGIETGQDAFEHL 261
>pdb|1JRC|A Chain A, The N67a Mutant Of Lactococcus Lactis Dihydroorotate
Dehydrogenase A
pdb|1JRC|B Chain B, The N67a Mutant Of Lactococcus Lactis Dihydroorotate
Dehydrogenase A
Length = 311
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 51/193 (26%), Positives = 83/193 (43%), Gaps = 32/193 (16%)
Query: 31 ILGNKKHCLDFNAEEHPIAFQV-GDNEPKKLAKSAKIIQK--WGYDEINLNCGCPSNRVQ 87
+L N+K NA+E PI F + G + + +A KI + G E+NL+C + Q
Sbjct: 83 VLKNQKE----NAQEGPIFFSIAGMSAAENIAMLKKIQESDFSGITELNLSCPNVPGKPQ 138
Query: 88 NGF-FGAI---------LMTKPLLVSDCIKAMRDSVEIDITVKHRIGIDDINSYDFVRDF 137
+ F A TKPL V + D V DI + +N + +
Sbjct: 139 LAYDFEATEKLLKEVFTFFTKPLGVK--LPPYFDLVHFDIMA------EILNQFPLT--Y 188
Query: 138 VGTVSSAGCRTFI-VHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDF----PELEIIIN 192
V +V+S G FI A + +K + +K + N++ + PE++II
Sbjct: 189 VNSVNSIGNGLFIDPEAESVVIKPKDGFGGIGGAYIKPTALANVRAFYTRLKPEIQIIGT 248
Query: 193 GGIKTKKEIDLHL 205
GGI+T ++ HL
Sbjct: 249 GGIETGQDAFEHL 261
>pdb|1JRB|A Chain A, The P56a Mutant Of Lactococcus Lactis Dihydroorotate
Dehydrogenase A
pdb|1JRB|B Chain B, The P56a Mutant Of Lactococcus Lactis Dihydroorotate
Dehydrogenase A
Length = 311
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 51/193 (26%), Positives = 83/193 (43%), Gaps = 32/193 (16%)
Query: 31 ILGNKKHCLDFNAEEHPIAFQV-GDNEPKKLAKSAKIIQK--WGYDEINLNCGCPSNRVQ 87
+L N+K NA+E PI F + G + + +A KI + G E+NL+C + Q
Sbjct: 83 VLKNQKE----NAQEGPIFFSIAGMSAAENIAMLKKIQESDFSGITELNLSCPNVPGKPQ 138
Query: 88 NGF-FGAI---------LMTKPLLVSDCIKAMRDSVEIDITVKHRIGIDDINSYDFVRDF 137
+ F A TKPL V + D V DI + +N + +
Sbjct: 139 LAYDFEATEKLLKEVFTFFTKPLGVK--LPPYFDLVHFDIMA------EILNQFPLT--Y 188
Query: 138 VGTVSSAGCRTFI-VHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDF----PELEIIIN 192
V +V+S G FI A + +K + +K + N++ + PE++II
Sbjct: 189 VNSVNSIGNGLFIDPEAESVVIKPKDGFGGIGGAYIKPTALANVRAFYTRLKPEIQIIGT 248
Query: 193 GGIKTKKEIDLHL 205
GGI+T ++ HL
Sbjct: 249 GGIETGQDAFEHL 261
>pdb|1OGB|A Chain A, Chitinase B From Serratia Marcescens Mutant D142n
pdb|1OGB|B Chain B, Chitinase B From Serratia Marcescens Mutant D142n
pdb|1OGG|A Chain A, Chitinase B From Serratia Marcescens Mutant D142n In
Complex With Inhibitor Allosamidin
pdb|1OGG|B Chain B, Chitinase B From Serratia Marcescens Mutant D142n In
Complex With Inhibitor Allosamidin
Length = 499
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 59 KLAKS-AKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDI 117
K A+S +I++ +G+D +++N P +GF A+ + LL I R ++ +
Sbjct: 122 KFAQSCVRIMKDYGFDGVDINWEYPQAAEVDGFIAALQEIRTLLNQQTITDGRQALPYQL 181
Query: 118 TVKHRIG 124
T+ G
Sbjct: 182 TIAGAGG 188
>pdb|1GOI|A Chain A, Crystal Structure Of The D140n Mutant Of Chitinase B From
Serratia Marcescens At 1.45 A Resolution
pdb|1GOI|B Chain B, Crystal Structure Of The D140n Mutant Of Chitinase B From
Serratia Marcescens At 1.45 A Resolution
Length = 499
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 59 KLAKS-AKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDI 117
K A+S +I++ +G+D +N++ P +GF A+ + LL I R ++ +
Sbjct: 122 KFAQSCVRIMKDYGFDGVNIDWEYPQAAEVDGFIAALQEIRTLLNQQTITDGRQALPYQL 181
Query: 118 TVKHRIG 124
T+ G
Sbjct: 182 TIAGAGG 188
>pdb|1UR9|A Chain A, Interactions Of A Family 18 Chitinase With The Designed
Inhibitor Hm508, And Its Degradation Product,
Chitobiono-Delta-Lactone
pdb|1UR9|B Chain B, Interactions Of A Family 18 Chitinase With The Designed
Inhibitor Hm508, And Its Degradation Product,
Chitobiono-Delta-Lactone
Length = 499
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 59 KLAKS-AKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDI 117
K A+S +I++ +G+D +++N P +GF A+ + LL I R ++ +
Sbjct: 122 KFAQSCVRIMKDYGFDGVDINWEYPQAAEVDGFIAALQEIRTLLNQQTITDGRQALPYQL 181
Query: 118 TVKHRIG 124
T+ G
Sbjct: 182 TIAGAGG 188
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 135 RDFVGTVSSAGCRTFIVHARNAFLKKLNPKQNRKIPILKYN---FVYNLKKDFPELEI 189
R+ + G R ++H KK PK ++K IL +Y LK+D P +++
Sbjct: 116 RELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDL 173
>pdb|1JUB|A Chain A, The K136e Mutant Of Lactococcus Lactis Dihydroorotate
Dehydrogenase A
pdb|1JUB|B Chain B, The K136e Mutant Of Lactococcus Lactis Dihydroorotate
Dehydrogenase A
pdb|1OVD|A Chain A, The K136e Mutant Of Lactococcus Lactis Dihydroorotate
Dehydrogenase A In Complex With Orotate
pdb|1OVD|B Chain B, The K136e Mutant Of Lactococcus Lactis Dihydroorotate
Dehydrogenase A In Complex With Orotate
Length = 311
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 51/193 (26%), Positives = 82/193 (42%), Gaps = 32/193 (16%)
Query: 31 ILGNKKHCLDFNAEEHPIAFQV-GDNEPKKLAKSAKIIQK--WGYDEINLNCGCPSNRVQ 87
+L N+K NA+E PI F + G + + +A KI + G E+NL+C Q
Sbjct: 83 VLKNQKE----NAQEGPIFFSIAGMSAAENIAMLKKIQESDFSGITELNLSCPNVPGEPQ 138
Query: 88 NGF-FGAI---------LMTKPLLVSDCIKAMRDSVEIDITVKHRIGIDDINSYDFVRDF 137
+ F A TKPL V + D V DI + +N + +
Sbjct: 139 LAYDFEATEKLLKEVFTFFTKPLGVK--LPPYFDLVHFDIMA------EILNQFPLT--Y 188
Query: 138 VGTVSSAGCRTFI-VHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDF----PELEIIIN 192
V +V+S G FI A + +K + +K + N++ + PE++II
Sbjct: 189 VNSVNSIGNGLFIDPEAESVVIKPKDGFGGIGGAYIKPTALANVRAFYTRLKPEIQIIGT 248
Query: 193 GGIKTKKEIDLHL 205
GGI+T ++ HL
Sbjct: 249 GGIETGQDAFEHL 261
>pdb|2O4H|A Chain A, Human Brain Aspartoacylase Complex With Intermediate
Analog (N- Phosphonomethyl-L-Aspartate)
pdb|2O4H|B Chain B, Human Brain Aspartoacylase Complex With Intermediate
Analog (N- Phosphonomethyl-L-Aspartate)
pdb|2O53|A Chain A, Crystal Structure Of Apo-Aspartoacylase From Human Brain
pdb|2O53|B Chain B, Crystal Structure Of Apo-Aspartoacylase From Human Brain
Length = 313
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 126 DDINSYDFVRDFVGTVSSAGCRTFIVHARNAFLKKL 161
D +SYD + D T S+ GC + +RN FL ++
Sbjct: 104 DSEDSYDIIFDLHNTTSNMGCTLILEDSRNNFLIQM 139
>pdb|2I3C|A Chain A, Crystal Structure Of An Aspartoacylase From Homo Sapiens
pdb|2I3C|B Chain B, Crystal Structure Of An Aspartoacylase From Homo Sapiens
pdb|2Q51|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of An
Aspartoacylase From Homo Sapiens
pdb|2Q51|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of An
Aspartoacylase From Homo Sapiens
Length = 315
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 126 DDINSYDFVRDFVGTVSSAGCRTFIVHARNAFL 158
D +SYD + D T S+ GC + +RN FL
Sbjct: 106 DSEDSYDIIFDLHNTTSNXGCTLILEDSRNNFL 138
>pdb|3HGY|A Chain A, Crystal Structure Of Cmer Bound To Taurocholic Acid
pdb|3QPS|A Chain A, Crystal Structures Of Cmer-Bile Acid Complexes From
Campylobacter Jejuni
pdb|3QQA|A Chain A, Crystal Structures Of Cmer-Bile Acid Complexes From
Campylobacter Jejuni
Length = 216
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 7/65 (10%)
Query: 149 FIVHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDFPELEIIINGGIKTKKEIDLHLNYI 208
F N+++KK K+ +L F LK+ + L ++IN +K KKE H+ ++
Sbjct: 151 FFKQQNNSYMKK----NAEKLAVL---FCTMLKEPYHHLNVLINAPLKNKKEQKEHVEFV 203
Query: 209 DGVML 213
V L
Sbjct: 204 VNVFL 208
>pdb|2QCO|A Chain A, Crystal Structure Of The Transcriptional Regulator Cmer
From Campylobacter Jejuni
Length = 210
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 7/65 (10%)
Query: 149 FIVHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDFPELEIIINGGIKTKKEIDLHLNYI 208
F N+++KK K+ +L F LK+ + L ++IN +K KKE H+ ++
Sbjct: 145 FFKQQNNSYMKK----NAEKLAVL---FCTMLKEPYHHLNVLINAPLKNKKEQKEHVEFV 197
Query: 209 DGVML 213
V L
Sbjct: 198 VNVFL 202
>pdb|3HGG|A Chain A, Crystal Structure Of Cmer Bound To Cholic Acid
Length = 220
Score = 27.7 bits (60), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 7/65 (10%)
Query: 149 FIVHARNAFLKKLNPKQNRKIPILKYNFVYNLKKDFPELEIIINGGIKTKKEIDLHLNYI 208
F N+++KK K+ +L F LK+ + L ++IN +K KKE H+ ++
Sbjct: 155 FFKQQNNSYMKK----NAEKLAVL---FCTMLKEPYHHLNVLINAPLKNKKEQKEHVEFV 207
Query: 209 DGVML 213
V L
Sbjct: 208 VNVFL 212
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
0.325 0.141 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,771,392
Number of Sequences: 62578
Number of extensions: 354059
Number of successful extensions: 1288
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1266
Number of HSP's gapped (non-prelim): 27
length of query: 311
length of database: 14,973,337
effective HSP length: 99
effective length of query: 212
effective length of database: 8,778,115
effective search space: 1860960380
effective search space used: 1860960380
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)