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= 015028
(414 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1O7D|A Chain A, The Structure Of The Bovine Lysosomal A-Mannosidase
Suggests A Novel Mechanism For Low Ph Activation
Length = 298
Score = 300 bits (768), Expect = 9e-82, Method: Compositional matrix adjust.
Identities = 146/298 (48%), Positives = 196/298 (65%), Gaps = 4/298 (1%)
Query: 26 AYNTTAGIVPDKINVHLVPHSHDDVGWLKTVDQYYVGANNSIRGACVQNVLDSVISALFE 85
Y T + PD +NVHLVPH+HDDVGWLKTVDQY+ G N+I+ A VQ +LDSVIS+L
Sbjct: 2 GYKTCPKVKPDMLNVHLVPHTHDDVGWLKTVDQYFYGIYNNIQPAGVQYILDSVISSLLA 61
Query: 86 DKNRKFIYVEMAFFQRWWRQQSKAMKVKVKGLVDSGQLEFINGGMCMHDEASPHYIDMID 145
+ R+FIYVE+AFF RWWRQQ+ A + V+ LV G+LEF NGG M+DEA+ HY +ID
Sbjct: 62 NPTRRFIYVEIAFFSRWWRQQTNATQKIVRELVRQGRLEFANGGWVMNDEATTHYGAIID 121
Query: 146 QTTLGHWFIKDSFGK--LPRVGWQIDPFGHSAVQAYLLGAELGFDSLYFARIDYQDRAKR 203
Q TLG F++++FG PRV W IDPFGHS QA L A++GFD +F R+DYQD+ R
Sbjct: 122 QMTLGLRFLEETFGSDGRPRVAWHIDPFGHSREQASLF-AQMGFDGFFFGRLDYQDKKVR 180
Query: 204 LKEKNLEVVWRGSKSLG-SSSQIFTGIFPRHYDPPDGFTFEINDVSPPIQDDVLLFDYNV 262
K +E VWR S SL ++ +FT + P Y+PP+G +++ P+ +D +YN
Sbjct: 181 KKTLQMEQVWRASTSLKPPTADLFTSVLPNMYNPPEGLCWDMLCADKPVVEDTRSPEYNA 240
Query: 263 EERVNDFVAAALAQANVTRTNHIMWLMGTDFRYQYANSWFRQMDKFIHYVNKDGRVNA 320
+E V F+ A Q + RT H + MG+DF+Y+ AN+WF+ +DK I VN R N
Sbjct: 241 KELVRYFLKLATDQGKLYRTKHTVMTMGSDFQYENANTWFKNLDKLIQLVNAQQRANG 298
>pdb|1QWN|A Chain A, Golgi Alpha-Mannosidase Ii Covalent Intermediate Complex
With 5- Fluoro-Gulosyl-Fluoride
pdb|1R33|A Chain A, Golgi Alpha-Mannosidase Ii Complex With
5-Thio-D-Mannopyranosylamine
pdb|1R34|A Chain A, Golgi Alpha-Mannosidase Ii Complex With 5-Thio-D-
Mannopyranosylamidinium Salt
pdb|1TQS|A Chain A, Golgi Alpha-Mannosidase Ii In Complex With Salacinol
pdb|1TQT|A Chain A, Golgi Alpha-mannosidase Ii In Complex With A Diastereomer
Of Salacinol
pdb|1TQU|A Chain A, Golgi Alpha-mannosidase Ii In Complex With The Salacinol
Analog Ghavamiol
pdb|1TQV|A Chain A, Golgi Alpha-Mannosidase Ii In Complex With
Seleno-Salacinol (Blintol)
pdb|1TQW|A Chain A, Golgi Alpha-Mannosidase Ii In Complex With A Diastereomer
Of Seleno- Salacinol
pdb|2ALW|A Chain A, Golgi Alpha-Mannosidase Ii Complex With Noeuromycin
pdb|2F7O|A Chain A, Golgi Alpha-mannosidase Ii Complex With Mannostatin A
pdb|2F7P|A Chain A, Golgi Alpha-Mannosidase Ii Complex With Benzyl-Mannostatin
A
pdb|2F18|A Chain A, Golgi Alpha-Mannosidase Ii Complex With
(2r,3r,4s)-2-({[(1r)-2-
Hydroxy-1-Phenylethyl]amino}methyl)pyrrolidine-3,4-Diol
pdb|2F1A|A Chain A, Golgi Alpha-Mannosidase Ii Complex With
(2r,3r,4s)-2-({[(1s)-2-
Hydroxy-1-Phenylethyl]amino}methyl)pyrrolidine-3,4-Diol
pdb|2F1B|A Chain A, Golgi Alpha-Mannosidase Ii Complex With
(2r,3r,4s,5r)-2-({[(1r)-2-
Hydroxy-1-Phenylethyl]amino}methyl)-5-Methylpyrrolidine-
3,4-Diol
pdb|2F7Q|A Chain A, Golgi Alpha-Mannosidase Ii Complex With
Aminocyclopentitetrol
pdb|2F7R|A Chain A, Golgi Alpha-Mannosidase Ii Complex With
Benzyl-Aminocyclopentitetrol
pdb|2FYV|A Chain A, Golgi Alpha-Mannosidase Ii Complex With An Amino-Salacinol
Carboxylate Analog
pdb|2OW6|A Chain A, Golgi Alpha-Mannosidase Ii Complex With
(1r,5s,6s,7r,8s)-1-
Thioniabicyclo[4.3.0]nonan-5,7,8-Triol Chloride
pdb|2OW7|A Chain A, Golgi Alpha-Mannosidase Ii Complex With (1r,6s,7r,8s)-1-
Thioniabicyclo[4.3.0]nonan-7,8-Diol Chloride
pdb|3BLB|A Chain A, Crystal Structure Of Golgi Mannosidase Ii In Complex With
Swainsonine At 1.3 Angstrom Resolution
pdb|3BUB|A Chain A, Golgi Alpha-mannosidase Ii With An Empty Active Site
pdb|3DDF|A Chain A, Golgi Mannosidase Ii Complex With
(3r,4r,5r)-3,4-Dihydroxy-5-({[(1r)- 2-Hydroxy-1
Phenylethyl]amino}methyl) Pyrrolidin-2-One
pdb|3DDG|A Chain A, Golgi Mannosidase Ii Complex With
(3r,4r,5r)-3,4-Dihydroxy-5-({[(1r)- 2-Hydroxy-1
Phenylethyl]amino}methyl) Methylpyrrolidin-2-One
pdb|3D4Y|A Chain A, Golgi Mannosidase Ii Complex With Mannoimidazole
pdb|3D4Z|A Chain A, Golgi Mannosidase Ii Complex With Gluco-Imidazole
pdb|3D50|A Chain A, Golgi Mannosidase Ii Complex With
N-Octyl-6-Epi-Valienamine
pdb|3D51|A Chain A, Golgi Mannosidase Ii Complex With Gluco-Hydroxyiminolactam
pdb|3D52|A Chain A, Golgi Mannosidase Ii Complex With An N-Aryl Carbamate
Derivative Of Gluco-Hydroxyiminolactam
pdb|3DX0|A Chain A, Golgi Alpha-Mannosidase Ii In Complex With Mannostatin A
At Ph 5.75
pdb|3DX1|A Chain A, Golgi Alpha-Mannosidase Ii In Complex With Mannostatin
Analog (1s,2s, 3r,4r)-4-Aminocyclopentane-1,2,3-Triol
pdb|3DX2|A Chain A, Golgi Mannosidase Ii Complex With Mannostatin B
pdb|3DX4|A Chain A, Golgi Alpha-mannosidase Ii In Complex With Mannostatin
Analog (1r,2r,
3r,4s,5r)-4-amino-5-methoxycyclopentane-1,2,3-triol
pdb|3EJP|A Chain A, Golgi Alpha-Mannosidase Ii In Complex With 5-Substituted
Swainsonine Analog:
(5r)-5-[2'-Oxo-2'-(Phenyl)ethyl]-Swainsonine
pdb|3EJQ|A Chain A, Golgi Alpha-Mannosidase Ii In Complex With 5-Substitued
Swainsonine Analog:
(5r)-5-[2'-Oxo-2'-(4-Methylphenyl)ethyl]-Swainsonine
pdb|3EJR|A Chain A, Golgi Alpha-mannosidase Ii In Complex With 5-substitued
Swainsonine Analog:
(5r)-5-[2'-oxo-2'-(4-tert-butylphenyl)ethyl]-swainsonine
pdb|3EJS|A Chain A, Golgi Alpha-mannosidase Ii In Complex With 5-substituted
Swainsonine Analog:
(5s)-5-[2'-(4-tert-butylphenyl)ethyl]-swainsonine
pdb|3EJT|A Chain A, Golgi Alpha-Mannosidase Ii In Complex With 5-Substituted
Swainsonine
Analog:(5r)-5-[2'-(4-Tert-Butylphenyl)ethyl]-Swainsonine
pdb|3EJU|A Chain A, Golgi Alpha-Mannosidase Ii In Complex With 5-Substituted
Swainsonine
Analog:(5s)-5-[2'-Oxo-2'-(4-Tert-Butylphenyl)ethyl]-
Swainsonine
Length = 1045
Score = 172 bits (436), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 113/394 (28%), Positives = 190/394 (48%), Gaps = 42/394 (10%)
Query: 37 KINVHLVPHSHDDVGWLKTVDQYYVGANNSIRGACVQNVLDSVISALFEDKNRKFIYVEM 96
K+ V +VPHSH+D GW++T ++YY +++L + + L ++ KFI+ E+
Sbjct: 80 KLKVFVVPHSHNDPGWIQTFEEYYQHD--------TKHILSNALRHLHDNPEMKFIWAEI 131
Query: 97 AFFQRWWRQQSKAMKVKVKGLVDSGQLEFINGGMCMHDEASPHYIDMIDQTTLGHWFIKD 156
++F R++ + K+++K +V +GQLEF+ GG M DEA+ H+ +++ Q T G ++K
Sbjct: 132 SYFARFYHDLGENKKLQMKSIVKNGQLEFVTGGWVMPDEANSHWRNVLLQLTEGQTWLKQ 191
Query: 157 SFGKLPRVGWQIDPFGHSAVQAYLLGAELGFDSLYFARIDYQDRAKRLKEKNLEVVWRGS 216
P W IDPFGHS Y+L GF ++ R Y + + +++ LE +WR
Sbjct: 192 FMNVTPTASWAIDPFGHSPTMPYILQKS-GFKNMLIQRTHYSVKKELAQQRQLEFLWRQI 250
Query: 217 KSLGSSSQIFTGIFPRHY---------DPPDGFTFEINDVS----------PPIQDDVLL 257
+ +FT + P + DP F+ + PP +
Sbjct: 251 WDNKGDTALFTHMMPFYSYDIPHTCGPDPKVCCQFDFKRMGSFGLSCPWKVPP----RTI 306
Query: 258 FDYNVEERVNDFVAAALAQANVTRTNHIMWLMGTDFRYQYANSWFRQM---DKFIHYVNK 314
D NV R + V +A + RTN ++ +G DFR++ W Q ++ ++N
Sbjct: 307 SDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDDFRFKQNTEWDVQRVNYERLFEHINS 366
Query: 315 DGRVN--ALYSTPSIYTDA----KNAANEEWPLKTEDFFPYADHPNAYWTGYFTSRPALK 368
N A + T Y DA + A E+P + DFF YAD + YW+GY+TSRP K
Sbjct: 367 QAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFFTYADRSDNYWSGYYTSRPYHK 426
Query: 369 GYVRMMSGYYLSG-LVVIYPYIDAPVKISHRIEN 401
R++ Y + ++ + D +I R+E
Sbjct: 427 RMDRVLMHYVRAAEMLSAWHSWDGMARIEERLEQ 460
>pdb|3DX3|A Chain A, Golgi Alpha-Mannosidase Ii In Complex With Mannostatin
Analog (1r,2r,
3s,4r,5r)-5-Aminocyclopentane-1,2,3,4-Tetraol
Length = 1045
Score = 172 bits (436), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 113/394 (28%), Positives = 190/394 (48%), Gaps = 42/394 (10%)
Query: 37 KINVHLVPHSHDDVGWLKTVDQYYVGANNSIRGACVQNVLDSVISALFEDKNRKFIYVEM 96
K+ V +VPHSH+D GW++T ++YY +++L + + L ++ KFI+ E+
Sbjct: 80 KLKVFVVPHSHNDPGWIQTFEEYYQHD--------TKHILSNALRHLHDNPEMKFIWAEI 131
Query: 97 AFFQRWWRQQSKAMKVKVKGLVDSGQLEFINGGMCMHDEASPHYIDMIDQTTLGHWFIKD 156
++F R++ + K+++K +V +GQLEF+ GG M DEA+ H+ +++ Q T G ++K
Sbjct: 132 SYFARFYHDLGENKKLQMKSIVKNGQLEFVTGGWVMPDEANSHWRNVLLQLTEGQTWLKQ 191
Query: 157 SFGKLPRVGWQIDPFGHSAVQAYLLGAELGFDSLYFARIDYQDRAKRLKEKNLEVVWRGS 216
P W IDPFGHS Y+L GF ++ R Y + + +++ LE +WR
Sbjct: 192 FMNVTPTASWAIDPFGHSPTMPYILQKS-GFKNMLIQRTHYSVKKELAQQRQLEFLWRQI 250
Query: 217 KSLGSSSQIFTGIFPRHY---------DPPDGFTFEINDVS----------PPIQDDVLL 257
+ +FT + P + DP F+ + PP +
Sbjct: 251 WDNKGDTALFTHMMPFYSYDIPHTCGPDPKVCCQFDFKRMGSFGLSCPWKVPP----RTI 306
Query: 258 FDYNVEERVNDFVAAALAQANVTRTNHIMWLMGTDFRYQYANSWFRQM---DKFIHYVNK 314
D NV R + V +A + RTN ++ +G DFR++ W Q ++ ++N
Sbjct: 307 SDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDDFRFKQNTEWDVQRVNYERLFEHINS 366
Query: 315 DGRVN--ALYSTPSIYTDA----KNAANEEWPLKTEDFFPYADHPNAYWTGYFTSRPALK 368
N A + T Y DA + A E+P + DFF YAD + YW+GY+TSRP K
Sbjct: 367 QAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFFTYADRSDNYWSGYYTSRPYHK 426
Query: 369 GYVRMMSGYYLSG-LVVIYPYIDAPVKISHRIEN 401
R++ Y + ++ + D +I R+E
Sbjct: 427 RMDRVLMHYVRAAEMLSAWHSWDGMARIEERLEQ 460
>pdb|1HXK|A Chain A, Golgi Alpha-Mannosidase Ii In Complex With
Deoxymannojirimicin
pdb|1HWW|A Chain A, Golgi Alpha-Mannosidase Ii In Complex With Swainsonine
Length = 1015
Score = 172 bits (436), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 113/394 (28%), Positives = 190/394 (48%), Gaps = 42/394 (10%)
Query: 37 KINVHLVPHSHDDVGWLKTVDQYYVGANNSIRGACVQNVLDSVISALFEDKNRKFIYVEM 96
K+ V +VPHSH+D GW++T ++YY +++L + + L ++ KFI+ E+
Sbjct: 50 KLKVFVVPHSHNDPGWIQTFEEYYQHD--------TKHILSNALRHLHDNPEMKFIWAEI 101
Query: 97 AFFQRWWRQQSKAMKVKVKGLVDSGQLEFINGGMCMHDEASPHYIDMIDQTTLGHWFIKD 156
++F R++ + K+++K +V +GQLEF+ GG M DEA+ H+ +++ Q T G ++K
Sbjct: 102 SYFARFYHDLGENKKLQMKSIVKNGQLEFVTGGWVMPDEANSHWRNVLLQLTEGQTWLKQ 161
Query: 157 SFGKLPRVGWQIDPFGHSAVQAYLLGAELGFDSLYFARIDYQDRAKRLKEKNLEVVWRGS 216
P W IDPFGHS Y+L GF ++ R Y + + +++ LE +WR
Sbjct: 162 FMNVTPTASWAIDPFGHSPTMPYILQKS-GFKNMLIQRTHYSVKKELAQQRQLEFLWRQI 220
Query: 217 KSLGSSSQIFTGIFPRHY---------DPPDGFTFEINDVS----------PPIQDDVLL 257
+ +FT + P + DP F+ + PP +
Sbjct: 221 WDNKGDTALFTHMMPFYSYDIPHTCGPDPKVCCQFDFKRMGSFGLSCPWKVPP----RTI 276
Query: 258 FDYNVEERVNDFVAAALAQANVTRTNHIMWLMGTDFRYQYANSWFRQM---DKFIHYVNK 314
D NV R + V +A + RTN ++ +G DFR++ W Q ++ ++N
Sbjct: 277 SDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDDFRFKQNTEWDVQRVNYERLFEHINS 336
Query: 315 DGRVN--ALYSTPSIYTDA----KNAANEEWPLKTEDFFPYADHPNAYWTGYFTSRPALK 368
N A + T Y DA + A E+P + DFF YAD + YW+GY+TSRP K
Sbjct: 337 QAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFFTYADRSDNYWSGYYTSRPYHK 396
Query: 369 GYVRMMSGYYLSG-LVVIYPYIDAPVKISHRIEN 401
R++ Y + ++ + D +I R+E
Sbjct: 397 RMDRVLMHYVRAAEMLSAWHSWDGMARIEERLEQ 430
>pdb|1PS3|A Chain A, Golgi Alpha-mannosidase Ii In Complex With Kifunensine
Length = 1045
Score = 172 bits (435), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 113/394 (28%), Positives = 190/394 (48%), Gaps = 42/394 (10%)
Query: 37 KINVHLVPHSHDDVGWLKTVDQYYVGANNSIRGACVQNVLDSVISALFEDKNRKFIYVEM 96
K+ V +VPHSH+D GW++T ++YY +++L + + L ++ KFI+ E+
Sbjct: 80 KLKVFVVPHSHNDPGWIQTFEEYYQHD--------TKHILSNALRHLHDNPEMKFIWAEI 131
Query: 97 AFFQRWWRQQSKAMKVKVKGLVDSGQLEFINGGMCMHDEASPHYIDMIDQTTLGHWFIKD 156
++F R++ + K+++K +V +GQLEF+ GG M DEA+ H+ +++ Q T G ++K
Sbjct: 132 SYFARFYHDLGENKKLQMKSIVKNGQLEFVTGGWVMPDEANSHWRNVLLQLTEGQTWLKQ 191
Query: 157 SFGKLPRVGWQIDPFGHSAVQAYLLGAELGFDSLYFARIDYQDRAKRLKEKNLEVVWRGS 216
P W IDPFGHS Y+L GF ++ R Y + + +++ LE +WR
Sbjct: 192 FMNVTPTASWAIDPFGHSPTMPYILQKS-GFKNMLIQRTHYSVKKELAQQRQLEFLWRQI 250
Query: 217 KSLGSSSQIFTGIFPRHY---------DPPDGFTFEINDVS----------PPIQDDVLL 257
+ +FT + P + DP F+ + PP +
Sbjct: 251 WDNKGDTALFTHMMPFYSYDIPHTCGPDPKVCCQFDFKRMGSFGLSCPWKVPP----RTI 306
Query: 258 FDYNVEERVNDFVAAALAQANVTRTNHIMWLMGTDFRYQYANSWFRQM---DKFIHYVNK 314
D NV R + V +A + RTN ++ +G DFR++ W Q ++ ++N
Sbjct: 307 SDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDDFRFKQNTEWDVQRVNYERLFEHINS 366
Query: 315 DGRVN--ALYSTPSIYTDA----KNAANEEWPLKTEDFFPYADHPNAYWTGYFTSRPALK 368
N A + T Y DA + A E+P + DFF YAD + YW+GY+TSRP K
Sbjct: 367 QAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFFTYADRSDNYWSGYYTSRPYHK 426
Query: 369 GYVRMMSGYYLSG-LVVIYPYIDAPVKISHRIEN 401
R++ Y + ++ + D +I R+E
Sbjct: 427 RMDRVLMHYVRAAEMLSAWHSWDGMARIEERLEQ 460
>pdb|1QWU|A Chain A, Golgi Alpha-Mannosidase Ii D341n Mutant Complex With
5-F-Guloside
pdb|1QX1|A Chain A, Golgi Alpha-Mannosidase Ii D341n Mutant Complex With
2-F-Mannosyl-F
pdb|3BUP|A Chain A, Golgi Alpha-Mannosidase Ii D341n Acid-Base Catalyst Mutant
With Bound Mannose
Length = 1045
Score = 170 bits (431), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 112/394 (28%), Positives = 190/394 (48%), Gaps = 42/394 (10%)
Query: 37 KINVHLVPHSHDDVGWLKTVDQYYVGANNSIRGACVQNVLDSVISALFEDKNRKFIYVEM 96
K+ V +VPHSH+D GW++T ++YY +++L + + L ++ KFI+ E+
Sbjct: 80 KLKVFVVPHSHNDPGWIQTFEEYYQHD--------TKHILSNALRHLHDNPEMKFIWAEI 131
Query: 97 AFFQRWWRQQSKAMKVKVKGLVDSGQLEFINGGMCMHDEASPHYIDMIDQTTLGHWFIKD 156
++F R++ + K+++K +V +GQLEF+ GG M DEA+ H+ +++ Q T G ++K
Sbjct: 132 SYFARFYHDLGENKKLQMKSIVKNGQLEFVTGGWVMPDEANSHWRNVLLQLTEGQTWLKQ 191
Query: 157 SFGKLPRVGWQIDPFGHSAVQAYLLGAELGFDSLYFARIDYQDRAKRLKEKNLEVVWRGS 216
P W IDPFGHS Y+L GF ++ R Y + + +++ LE +WR
Sbjct: 192 FMNVTPTASWAIDPFGHSPTMPYILQKS-GFKNMLIQRTHYSVKKELAQQRQLEFLWRQI 250
Query: 217 KSLGSSSQIFTGIFPRHY---------DPPDGFTFEINDVS----------PPIQDDVLL 257
+ +FT + P + DP F+ + PP +
Sbjct: 251 WDNKGDTALFTHMMPFYSYDIPHTCGPDPKVCCQFDFKRMGSFGLSCPWKVPP----RTI 306
Query: 258 FDYNVEERVNDFVAAALAQANVTRTNHIMWLMGTDFRYQYANSWFRQM---DKFIHYVNK 314
D NV R + V +A + RTN ++ +G +FR++ W Q ++ ++N
Sbjct: 307 SDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDNFRFKQNTEWDVQRVNYERLFEHINS 366
Query: 315 DGRVN--ALYSTPSIYTDA----KNAANEEWPLKTEDFFPYADHPNAYWTGYFTSRPALK 368
N A + T Y DA + A E+P + DFF YAD + YW+GY+TSRP K
Sbjct: 367 QAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFFTYADRSDNYWSGYYTSRPYHK 426
Query: 369 GYVRMMSGYYLSG-LVVIYPYIDAPVKISHRIEN 401
R++ Y + ++ + D +I R+E
Sbjct: 427 RMDRVLMHYVRAAEMLSAWHSWDGMARIEERLEQ 460
>pdb|3CV5|A Chain A, Golgi Mannosidase Ii D204a Catalytic Nucleophile Mutant
Complex With 3alpha,6alpha-Mannopentaose
pdb|3CZN|A Chain A, Golgi Alpha-Mannosidase Ii (D204a Nucleophile Mutant) In
Complex With Gnman5gn
pdb|3CZS|A Chain A, Golgi Alpha-Mannosidase Ii (D204a Nucleophile Mutant)
pdb|3BUD|A Chain A, Golgi Mannosidase Ii D204a Catalytic Nucleophile Mutant
With An Empty Active Site
pdb|3BUI|A Chain A, Golgi Mannosidase Ii D204a Catalytic Nucleophile Mutant
Complex With Tris
pdb|3BUQ|A Chain A, Golgi Alpha-Mannosidase Ii D204a Catalytic Nucleophile
Mutant With Bound Mannose.
pdb|3BVT|A Chain A, Golgi Mannosidase Ii D204a Catalytic Nucleophile Mutant
Complex With Methyl
(Alpha-D-Mannopyranosyl)-(1->3)-S-Alpha-D-
Mannopyranoside
pdb|3BVU|A Chain A, Golgi Mannosidase Ii D204a Catalytic Nucleophile Mutant
Complex With
Methyl(Alpha-D-Mannopyranosyl)-(1->3)-S-[(Alpha-D-
Mannopyranosyl)-(1- >6)]-Alpha-D-Mannopyranoside
pdb|3BVV|A Chain A, Golgi Mannosidase Ii D204a Catalytic Nucleophile Mutant
Complex With Methyl
Alpha-D-Mannopyranosyl-(1->3)-[6-Thio-
Alpha-D-Mannopyranosyl-(1->6)]-Beta-D-Mannopyranoside
pdb|3BVW|A Chain A, Golgi Mannosidase Ii D204a Catalytic Nucleophile Mutant
Complex With Methyl (2-Deoxy-2-Acetamido-Beta-D-
Glucopyranosyl)-(1->2)-Alpha-D-Mannopyranosyl- (1->3)-
[alpha-D-Mannopyranosyl-(1->6)-6-Thio-Alpha-D-
Mannopyranosyl- (1->6)]-Beta-D-Mannopyranoside
pdb|3BVX|A Chain A, Golgi Mannosidase Ii D204a Catalytic Nucleophile Mutant
Complex With Methyl (2-Deoxy-2-Acetamido-Beta-D-
Glucopyranosyl)-(1->2)-(Alpha-D-Mannopyranosyl)- (1->3)-
[(Alpha-D-Mannopyranosyl)-(1->6)-(Alpha-D-
Mannopyranosyl)- (1->6)]-Beta-D-Mannopyranoside
Length = 1045
Score = 169 bits (428), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 112/394 (28%), Positives = 189/394 (47%), Gaps = 42/394 (10%)
Query: 37 KINVHLVPHSHDDVGWLKTVDQYYVGANNSIRGACVQNVLDSVISALFEDKNRKFIYVEM 96
K+ V +VPHSH+D GW++T ++YY +++L + + L ++ KFI+ E+
Sbjct: 80 KLKVFVVPHSHNDPGWIQTFEEYYQHD--------TKHILSNALRHLHDNPEMKFIWAEI 131
Query: 97 AFFQRWWRQQSKAMKVKVKGLVDSGQLEFINGGMCMHDEASPHYIDMIDQTTLGHWFIKD 156
++F R++ + K+++K +V +GQLEF+ GG M DEA+ H+ +++ Q T G ++K
Sbjct: 132 SYFARFYHDLGENKKLQMKSIVKNGQLEFVTGGWVMPDEANSHWRNVLLQLTEGQTWLKQ 191
Query: 157 SFGKLPRVGWQIDPFGHSAVQAYLLGAELGFDSLYFARIDYQDRAKRLKEKNLEVVWRGS 216
P W I PFGHS Y+L GF ++ R Y + + +++ LE +WR
Sbjct: 192 FMNVTPTASWAIAPFGHSPTMPYILQKS-GFKNMLIQRTHYSVKKELAQQRQLEFLWRQI 250
Query: 217 KSLGSSSQIFTGIFPRHY---------DPPDGFTFEINDVS----------PPIQDDVLL 257
+ +FT + P + DP F+ + PP +
Sbjct: 251 WDNKGDTALFTHMMPFYSYDIPHTCGPDPKVCCQFDFKRMGSFGLSCPWKVPP----RTI 306
Query: 258 FDYNVEERVNDFVAAALAQANVTRTNHIMWLMGTDFRYQYANSWFRQM---DKFIHYVNK 314
D NV R + V +A + RTN ++ +G DFR++ W Q ++ ++N
Sbjct: 307 SDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDDFRFKQNTEWDVQRVNYERLFEHINS 366
Query: 315 DGRVN--ALYSTPSIYTDA----KNAANEEWPLKTEDFFPYADHPNAYWTGYFTSRPALK 368
N A + T Y DA + A E+P + DFF YAD + YW+GY+TSRP K
Sbjct: 367 QAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFFTYADRSDNYWSGYYTSRPYHK 426
Query: 369 GYVRMMSGYYLSG-LVVIYPYIDAPVKISHRIEN 401
R++ Y + ++ + D +I R+E
Sbjct: 427 RMDRVLMHYVRAAEMLSAWHSWDGMARIEERLEQ 460
>pdb|1HTY|A Chain A, Golgi Alpha-Mannosidase Ii
Length = 1015
Score = 165 bits (418), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 113/394 (28%), Positives = 186/394 (47%), Gaps = 42/394 (10%)
Query: 37 KINVHLVPHSHDDVGWLKTVDQYYVGANNSIRGACVQNVLDSVISALFEDKNRKFIYVEM 96
K+ V +VPHSH+D GW++T ++YY +++L + + L ++ KFI+ E+
Sbjct: 50 KLKVFVVPHSHNDPGWIQTFEEYYQHD--------TKHILSNALRHLHDNPEXKFIWAEI 101
Query: 97 AFFQRWWRQQSKAMKVKVKGLVDSGQLEFINGGMCMHDEASPHYIDMIDQTTLGHWFIKD 156
++F R++ + K++ K +V +GQLEF+ GG DEA+ H+ +++ Q T G ++K
Sbjct: 102 SYFARFYHDLGENKKLQXKSIVKNGQLEFVTGGWVXPDEANSHWRNVLLQLTEGQTWLKQ 161
Query: 157 SFGKLPRVGWQIDPFGHSAVQAYLLGAELGFDSLYFARIDYQDRAKRLKEKNLEVVWRGS 216
P W IDPFGHS Y+L + GF ++ R Y + + +++ LE +WR
Sbjct: 162 FXNVTPTASWAIDPFGHSPTXPYIL-QKSGFKNMLIQRTHYSVKKELAQQRQLEFLWRQI 220
Query: 217 KSLGSSSQIFTGIFPRH-YDPPD------------------GFTFEINDVSPPIQDDVLL 257
+ +FT P + YD P F PP +
Sbjct: 221 WDNKGDTALFTHXXPFYSYDIPHTCGPDPKVCCQFDFKRXGSFGLSCPWKVPP----RTI 276
Query: 258 FDYNVEERVNDFVAAALAQANVTRTNHIMWLMGTDFRYQYANSWFRQM---DKFIHYVNK 314
D NV R + V +A + RTN ++ +G DFR++ W Q ++ ++N
Sbjct: 277 SDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDDFRFKQNTEWDVQRVNYERLFEHINS 336
Query: 315 DGRVN--ALYSTPSIYTDA----KNAANEEWPLKTEDFFPYADHPNAYWTGYFTSRPALK 368
N A + T Y DA + A E+P + DFF YAD + YW+GY+TSRP K
Sbjct: 337 QAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFFTYADRSDNYWSGYYTSRPYHK 396
Query: 369 GYVRMMSGYYLSG-LVVIYPYIDAPVKISHRIEN 401
R++ Y + + + D +I R+E
Sbjct: 397 RXDRVLXHYVRAAEXLSAWHSWDGMARIEERLEQ 430
>pdb|1O7D|B Chain B, The Structure Of The Bovine Lysosomal A-Mannosidase
Suggests A Novel Mechanism For Low Ph Activation
Length = 84
Score = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 35/57 (61%), Positives = 41/57 (71%)
Query: 317 RVNALYSTPSIYTDAKNAANEEWPLKTEDFFPYADHPNAYWTGYFTSRPALKGYVRM 373
RVN LYSTP+ Y N AN W +K +DFFPYAD P +WTGYF+SRPALK Y R+
Sbjct: 2 RVNVLYSTPACYLWELNKANLSWSVKKDDFFPYADGPYMFWTGYFSSRPALKRYERL 58
>pdb|4EOZ|A Chain A, Crystal Structure Of The Spop Btb Domain Complexed With
The Cul3 N- Terminal Domain
pdb|4EOZ|C Chain C, Crystal Structure Of The Spop Btb Domain Complexed With
The Cul3 N- Terminal Domain
Length = 145
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 5/60 (8%)
Query: 219 LGSSSQIFTGIFPRHYDPPDGFTFEINDVSPPIQDDVLLFDY-----NVEERVNDFVAAA 273
L + S +F+ +F + EINDV P + +++ F Y N+++ +D +AAA
Sbjct: 44 LAARSPVFSAMFEHEMEESKKNRVEINDVEPEVFKEMMCFIYTGKAPNLDKMADDLLAAA 103
>pdb|3HQI|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
SpopmathxBTB3-Box-Pucsbc1
pdb|3HQI|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
SpopmathxBTB3-Box-Pucsbc1
pdb|3HU6|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
SpopmathxBTB3-Box-Pucsbc1
pdb|3HU6|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
SpopmathxBTB3-Box-Pucsbc1
Length = 312
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 5/60 (8%)
Query: 219 LGSSSQIFTGIFPRHYDPPDGFTFEINDVSPPIQDDVLLFDY-----NVEERVNDFVAAA 273
L + S +F+ +F + EINDV P + +++ F Y N+++ +D +AAA
Sbjct: 193 LAARSPVFSAMFEHEMEESKKNRVEINDVEPEVFKEMMCFIYTGKAPNLDKMADDLLAAA 252
>pdb|2VQ2|A Chain A, Crystal Structure Of Pilw, Widely Conserved Type Iv Pilus
Biogenesis Factor
Length = 225
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 43/101 (42%), Gaps = 15/101 (14%)
Query: 126 INGGMCMHDEASPHYIDMIDQTTLGHWFIKDSFGKLPRVGWQIDPFGHSAVQAYLLGAEL 185
+N G+C + Q L ++K S P Q P + +L +L
Sbjct: 117 LNKGICSAKQG---------QFGLAEAYLKRSLAAQP----QFPPAFKELARTKMLAGQL 163
Query: 186 GFDSLYFARIDYQDRAKRLKEKNLEVVWRGSKSLGSSSQIF 226
G YF + YQ R + L+ +L + W+ +K+LG++ +
Sbjct: 164 GDADYYFKK--YQSRVEVLQADDLLLGWKIAKALGNAQAAY 202
>pdb|1FMJ|A Chain A, Crystal Structure Of Mercury Derivative Of Retinol
Dehydratase In A Complex With Retinol And Pap
pdb|1FMJ|B Chain B, Crystal Structure Of Mercury Derivative Of Retinol
Dehydratase In A Complex With Retinol And Pap
pdb|1FML|A Chain A, Crystal Structure Of Retinol Dehydratase In A Complex With
Retinol And Pap
pdb|1FML|B Chain B, Crystal Structure Of Retinol Dehydratase In A Complex With
Retinol And Pap
Length = 351
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 260 YNVEERVNDFVAAALAQANVTRTNHIMWLMGTDFRYQYANSWFRQMDKFIHYVNKDG 316
YN+ R D A+ ++ T T ++WL+ D ++ A ++ + Y+ DG
Sbjct: 57 YNMPLRPTDVFVASYQRSGTTMTQELVWLIENDLNFEAAKTYMS-----LRYIYLDG 108
>pdb|1X8J|A Chain A, Crystal Structure Of Retinol Dehydratase In Complex With
Androsterone And Inactive Cofactor Pap
pdb|1X8J|B Chain B, Crystal Structure Of Retinol Dehydratase In Complex With
Androsterone And Inactive Cofactor Pap
pdb|1X8K|A Chain A, Crystal Structure Of Retinol Dehydratase In Complex With
Anhydroretinol And Inactive Cofactor Pap
pdb|1X8K|B Chain B, Crystal Structure Of Retinol Dehydratase In Complex With
Anhydroretinol And Inactive Cofactor Pap
pdb|1X8L|A Chain A, Crystal Structure Of Retinol Dehydratase In Complex With
All-Trans-4-Oxoretinol And Inactive Cofactor Pap
pdb|1X8L|B Chain B, Crystal Structure Of Retinol Dehydratase In Complex With
All-Trans-4-Oxoretinol And Inactive Cofactor Pap
Length = 351
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 260 YNVEERVNDFVAAALAQANVTRTNHIMWLMGTDFRYQYANSWFRQMDKFIHYVNKDG 316
YN+ R D A+ ++ T T ++WL+ D ++ A ++ + Y+ DG
Sbjct: 57 YNMPLRPTDVFVASYQRSGTTMTQELVWLIENDLNFEAAKTYMS-----LRYIYLDG 108
>pdb|4EQM|A Chain A, Structural Analysis Of Staphylococcus Aureus
SerineTHREONINE KINASE Pknb
pdb|4EQM|B Chain B, Structural Analysis Of Staphylococcus Aureus
SerineTHREONINE KINASE Pknb
pdb|4EQM|C Chain C, Structural Analysis Of Staphylococcus Aureus
SerineTHREONINE KINASE Pknb
pdb|4EQM|D Chain D, Structural Analysis Of Staphylococcus Aureus
SerineTHREONINE KINASE Pknb
pdb|4EQM|E Chain E, Structural Analysis Of Staphylococcus Aureus
SerineTHREONINE KINASE Pknb
pdb|4EQM|F Chain F, Structural Analysis Of Staphylococcus Aureus
SerineTHREONINE KINASE Pknb
Length = 294
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 23/32 (71%), Gaps = 1/32 (3%)
Query: 256 LLFDYNVEERVNDF-VAAALAQANVTRTNHIM 286
+L D N ++ DF +A AL++ ++T+TNH++
Sbjct: 142 ILIDSNKTLKIFDFGIAKALSETSLTQTNHVL 173
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
0.321 0.137 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,006,971
Number of Sequences: 62578
Number of extensions: 568557
Number of successful extensions: 1157
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1115
Number of HSP's gapped (non-prelim): 29
length of query: 414
length of database: 14,973,337
effective HSP length: 101
effective length of query: 313
effective length of database: 8,652,959
effective search space: 2708376167
effective search space used: 2708376167
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)