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= 002764
(883 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 232 bits (591), Expect = 8e-61, Method: Compositional matrix adjust.
Identities = 209/750 (27%), Positives = 339/750 (45%), Gaps = 93/750 (12%)
Query: 3 MHDEAAPHYIDMIDQTTLGHRYIKEQFNVTPRIGWQIDPFGHSAVQAYLLSAEVGFDFLF 62
M DEA H+ +++ Q T G ++K+ NVTP W IDPFGHS Y+L + GF +
Sbjct: 137 MPDEANSHWRNVLLQLTEGQTWLKQFMNVTPTASWAIDPFGHSPTMPYILQ-KSGFKNML 195
Query: 63 FARIDYQDRAKRINEKTLEVVWRASKSLGSSAQIMTGISP-KNYEPPSD---------NF 112
R Y + + ++ LE +WR + T + P +Y+ P F
Sbjct: 196 IQRTHYSVKKELAQQRQLEFLWRQIWDNKGDTALFTHMMPFYSYDIPHTCGPDPKVCCQF 255
Query: 113 YFE----VGDTSPIVQDDMNLFDYNVPERVNDFVSAAIAQANITRTNHIMWTMGTDFKYQ 168
F+ G + P + D NV R + V +A + RTN ++ +G DF+++
Sbjct: 256 DFKRMGSFGLSCPWKVPPRTISDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDDFRFK 315
Query: 169 YAHTWFRQM---DKFIHYVNQDGRVN--ALYSTPSMYIDAKYAANES----WPLKTDDFF 219
W Q ++ ++N N A + T Y DA + A + +P + DFF
Sbjct: 316 QNTEWDVQRVNYERLFEHINSQAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFF 375
Query: 220 PYADRENAYWTGYFTSRPALKGYVRTMSAYYLAARQLEFFK---GRNEVGXXXXXXXXXX 276
YADR + YW+GY+TSRP K R + Y AA L + G +
Sbjct: 376 TYADRSDNYWSGYYTSRPYHKRMDRVLMHYVRAAEMLSAWHSWDGMARIEERLEQARREL 435
Query: 277 XXVQHHDAVSGTEKQHVADDYAKRLSIGYTEAEKVVAASLACLTEFSKNGCVNPITNFQQ 336
QHHD ++GT K HV DY +R+ + V+ S+ L +K +P +F
Sbjct: 436 SLFQHHDGITGTAKTHVVVDYEQRMQEALKACQMVMQQSVYRL--LTKPSIYSPDFSFSY 493
Query: 337 CPLLNISYCPPSEVDLSS-----GKSLV----VVVYNPLGWKREDIIRIPVINENVTVKD 387
L+ S P S V+ S G+ ++ VV++N L RE ++ V + V+V D
Sbjct: 494 F-TLDDSRWPGSGVEDSRTTIILGEDILPSKHVVMHNTLPHWREQLVDFYVSSPFVSVTD 552
Query: 388 SKGKVIESQLLPLLKDSMSLRNSYSTAYLGKSTN---VTPSYWLAFSASVPPLGFNTYII 444
+E+Q+ P+ S+ L K+ + T Y + F A VPP+G TY++
Sbjct: 553 LANNPVEAQVSPVW--------SWHHDTLTKTIHPQGSTTKYRIIFKARVPPMGLATYVL 604
Query: 445 SSAKQAASHSGMRTVYKSQ--IRQNDT------------------IEVGPGNLKLLYSGK 484
+ + H T Y S +R+N T I + GN L +
Sbjct: 605 TISDSKPEH----TSYASNLLLRKNPTSLPLGQYPEDVKFGDPREISLRVGNGPTLAFSE 660
Query: 485 RAKLMRYINSKTSVNKLLEQSYIYYRGDDGSKDLQPSGAYIFRPNG-TYPIEPEGQLSFT 543
+ L ++ S + + ++ Y G D SGAY+F PNG P+E GQ
Sbjct: 661 QGLLKSIQLTQDSPHVPVHFKFLKY-GVRSHGDR--SGAYLFLPNGPASPVE-LGQPVVL 716
Query: 544 ILRGPLLDEVHQRINPWIYQVTRVYKGKDHAEIEFTVGPIPIDDGIGKEVVTQITSNMIS 603
+ +G L V + ++Q + +G EI V +D+ E+V ++ +++ S
Sbjct: 717 VTKGKLESSVSVGLPSVVHQT--IMRGGA-PEIRNLVDIGSLDN---TEIVMRLETHIDS 770
Query: 604 NKTFYTDSSGRDFIERIRDYRKDWNLEVNQPIAGNYYPVNLGIYMKDNSSELSILVDRSV 663
FYTD +G FI+R R + P+ NYYP+ G++++D ++ L++L + +
Sbjct: 771 GDIFYTDLNGLQFIKRRRLDK--------LPLQANYYPIPSGMFIEDANTRLTLLTGQPL 822
Query: 664 GGSSIADGQLELMLHRRLVADDNRGVSEAL 693
GGSS+A G+LE+M RRL +DD RG+ + +
Sbjct: 823 GGSSLASGELEIMQDRRLASDDERGLGQGV 852
>pdb|1PS3|A Chain A, Golgi Alpha-mannosidase Ii In Complex With Kifunensine
Length = 1045
Score = 232 bits (591), Expect = 9e-61, Method: Compositional matrix adjust.
Identities = 209/750 (27%), Positives = 339/750 (45%), Gaps = 93/750 (12%)
Query: 3 MHDEAAPHYIDMIDQTTLGHRYIKEQFNVTPRIGWQIDPFGHSAVQAYLLSAEVGFDFLF 62
M DEA H+ +++ Q T G ++K+ NVTP W IDPFGHS Y+L + GF +
Sbjct: 167 MPDEANSHWRNVLLQLTEGQTWLKQFMNVTPTASWAIDPFGHSPTMPYILQ-KSGFKNML 225
Query: 63 FARIDYQDRAKRINEKTLEVVWRASKSLGSSAQIMTGISP-KNYEPPSD---------NF 112
R Y + + ++ LE +WR + T + P +Y+ P F
Sbjct: 226 IQRTHYSVKKELAQQRQLEFLWRQIWDNKGDTALFTHMMPFYSYDIPHTCGPDPKVCCQF 285
Query: 113 YFE----VGDTSPIVQDDMNLFDYNVPERVNDFVSAAIAQANITRTNHIMWTMGTDFKYQ 168
F+ G + P + D NV R + V +A + RTN ++ +G DF+++
Sbjct: 286 DFKRMGSFGLSCPWKVPPRTISDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDDFRFK 345
Query: 169 YAHTWFRQM---DKFIHYVNQDGRVN--ALYSTPSMYIDAKYAANES----WPLKTDDFF 219
W Q ++ ++N N A + T Y DA + A + +P + DFF
Sbjct: 346 QNTEWDVQRVNYERLFEHINSQAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFF 405
Query: 220 PYADRENAYWTGYFTSRPALKGYVRTMSAYYLAARQLEFFK---GRNEVGXXXXXXXXXX 276
YADR + YW+GY+TSRP K R + Y AA L + G +
Sbjct: 406 TYADRSDNYWSGYYTSRPYHKRMDRVLMHYVRAAEMLSAWHSWDGMARIEERLEQARREL 465
Query: 277 XXVQHHDAVSGTEKQHVADDYAKRLSIGYTEAEKVVAASLACLTEFSKNGCVNPITNFQQ 336
QHHD ++GT K HV DY +R+ + V+ S+ L +K +P +F
Sbjct: 466 SLFQHHDGITGTAKTHVVVDYEQRMQEALKACQMVMQQSVYRL--LTKPSIYSPDFSFSY 523
Query: 337 CPLLNISYCPPSEVDLSS-----GKSLV----VVVYNPLGWKREDIIRIPVINENVTVKD 387
L+ S P S V+ S G+ ++ VV++N L RE ++ V + V+V D
Sbjct: 524 F-TLDDSRWPGSGVEDSRTTIILGEDILPSKHVVMHNTLPHWREQLVDFYVSSPFVSVTD 582
Query: 388 SKGKVIESQLLPLLKDSMSLRNSYSTAYLGKSTN---VTPSYWLAFSASVPPLGFNTYII 444
+E+Q+ P+ S+ L K+ + T Y + F A VPP+G TY++
Sbjct: 583 LANNPVEAQVSPVW--------SWHHDTLTKTIHPQGSTTKYRIIFKARVPPMGLATYVL 634
Query: 445 SSAKQAASHSGMRTVYKSQ--IRQNDT------------------IEVGPGNLKLLYSGK 484
+ + H T Y S +R+N T I + GN L +
Sbjct: 635 TISDSKPEH----TSYASNLLLRKNPTSLPLGQYPEDVKFGDPREISLRVGNGPTLAFSE 690
Query: 485 RAKLMRYINSKTSVNKLLEQSYIYYRGDDGSKDLQPSGAYIFRPNG-TYPIEPEGQLSFT 543
+ L ++ S + + ++ Y G D SGAY+F PNG P+E GQ
Sbjct: 691 QGLLKSIQLTQDSPHVPVHFKFLKY-GVRSHGDR--SGAYLFLPNGPASPVE-LGQPVVL 746
Query: 544 ILRGPLLDEVHQRINPWIYQVTRVYKGKDHAEIEFTVGPIPIDDGIGKEVVTQITSNMIS 603
+ +G L V + ++Q + +G EI V +D+ E+V ++ +++ S
Sbjct: 747 VTKGKLESSVSVGLPSVVHQT--IMRGGA-PEIRNLVDIGSLDN---TEIVMRLETHIDS 800
Query: 604 NKTFYTDSSGRDFIERIRDYRKDWNLEVNQPIAGNYYPVNLGIYMKDNSSELSILVDRSV 663
FYTD +G FI+R R + P+ NYYP+ G++++D ++ L++L + +
Sbjct: 801 GDIFYTDLNGLQFIKRRRLDK--------LPLQANYYPIPSGMFIEDANTRLTLLTGQPL 852
Query: 664 GGSSIADGQLELMLHRRLVADDNRGVSEAL 693
GGSS+A G+LE+M RRL +DD RG+ + +
Sbjct: 853 GGSSLASGELEIMQDRRLASDDERGLGQGV 882
>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 = 231 bits (590), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 209/750 (27%), Positives = 339/750 (45%), Gaps = 93/750 (12%)
Query: 3 MHDEAAPHYIDMIDQTTLGHRYIKEQFNVTPRIGWQIDPFGHSAVQAYLLSAEVGFDFLF 62
M DEA H+ +++ Q T G ++K+ NVTP W IDPFGHS Y+L + GF +
Sbjct: 167 MPDEANSHWRNVLLQLTEGQTWLKQFMNVTPTASWAIDPFGHSPTMPYILQ-KSGFKNML 225
Query: 63 FARIDYQDRAKRINEKTLEVVWRASKSLGSSAQIMTGISP-KNYEPPSD---------NF 112
R Y + + ++ LE +WR + T + P +Y+ P F
Sbjct: 226 IQRTHYSVKKELAQQRQLEFLWRQIWDNKGDTALFTHMMPFYSYDIPHTCGPDPKVCCQF 285
Query: 113 YFE----VGDTSPIVQDDMNLFDYNVPERVNDFVSAAIAQANITRTNHIMWTMGTDFKYQ 168
F+ G + P + D NV R + V +A + RTN ++ +G DF+++
Sbjct: 286 DFKRMGSFGLSCPWKVPPRTISDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDDFRFK 345
Query: 169 YAHTWFRQM---DKFIHYVNQDGRVN--ALYSTPSMYIDAKYAANES----WPLKTDDFF 219
W Q ++ ++N N A + T Y DA + A + +P + DFF
Sbjct: 346 QNTEWDVQRVNYERLFEHINSQAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFF 405
Query: 220 PYADRENAYWTGYFTSRPALKGYVRTMSAYYLAARQLEFFK---GRNEVGXXXXXXXXXX 276
YADR + YW+GY+TSRP K R + Y AA L + G +
Sbjct: 406 TYADRSDNYWSGYYTSRPYHKRMDRVLMHYVRAAEMLSAWHSWDGMARIEERLEQARREL 465
Query: 277 XXVQHHDAVSGTEKQHVADDYAKRLSIGYTEAEKVVAASLACLTEFSKNGCVNPITNFQQ 336
QHHD ++GT K HV DY +R+ + V+ S+ L +K +P +F
Sbjct: 466 SLFQHHDGITGTAKTHVVVDYEQRMQEALKACQMVMQQSVYRL--LTKPSIYSPDFSFSY 523
Query: 337 CPLLNISYCPPSEVDLSS-----GKSLV----VVVYNPLGWKREDIIRIPVINENVTVKD 387
L+ S P S V+ S G+ ++ VV++N L RE ++ V + V+V D
Sbjct: 524 F-TLDDSRWPGSGVEDSRTTIILGEDILPSKHVVMHNTLPHWREQLVDFYVSSPFVSVTD 582
Query: 388 SKGKVIESQLLPLLKDSMSLRNSYSTAYLGKSTN---VTPSYWLAFSASVPPLGFNTYII 444
+E+Q+ P+ S+ L K+ + T Y + F A VPP+G TY++
Sbjct: 583 LANNPVEAQVSPVW--------SWHHDTLTKTIHPQGSTTKYRIIFKARVPPMGLATYVL 634
Query: 445 SSAKQAASHSGMRTVYKSQ--IRQNDT------------------IEVGPGNLKLLYSGK 484
+ + H T Y S +R+N T I + GN L +
Sbjct: 635 TISDSKPEH----TSYASNLLLRKNPTSLPLGQYPEDVKFGDPREISLRVGNGPTLAFSE 690
Query: 485 RAKLMRYINSKTSVNKLLEQSYIYYRGDDGSKDLQPSGAYIFRPNG-TYPIEPEGQLSFT 543
+ L ++ S + + ++ Y G D SGAY+F PNG P+E GQ
Sbjct: 691 QGLLKSIQLTQDSPHVPVHFKFLKY-GVRSHGDR--SGAYLFLPNGPASPVE-LGQPVVL 746
Query: 544 ILRGPLLDEVHQRINPWIYQVTRVYKGKDHAEIEFTVGPIPIDDGIGKEVVTQITSNMIS 603
+ +G L V + ++Q + +G EI V +D+ E+V ++ +++ S
Sbjct: 747 VTKGKLESSVSVGLPSVVHQT--IMRGGA-PEIRNLVDIGSLDN---TEIVMRLETHIDS 800
Query: 604 NKTFYTDSSGRDFIERIRDYRKDWNLEVNQPIAGNYYPVNLGIYMKDNSSELSILVDRSV 663
FYTD +G FI+R R + P+ NYYP+ G++++D ++ L++L + +
Sbjct: 801 GDIFYTDLNGLQFIKRRRLDK--------LPLQANYYPIPSGMFIEDANTRLTLLTGQPL 852
Query: 664 GGSSIADGQLELMLHRRLVADDNRGVSEAL 693
GGSS+A G+LE+M RRL +DD RG+ + +
Sbjct: 853 GGSSLASGELEIMQDRRLASDDERGLGQGV 882
>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 = 231 bits (590), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 209/750 (27%), Positives = 339/750 (45%), Gaps = 93/750 (12%)
Query: 3 MHDEAAPHYIDMIDQTTLGHRYIKEQFNVTPRIGWQIDPFGHSAVQAYLLSAEVGFDFLF 62
M DEA H+ +++ Q T G ++K+ NVTP W IDPFGHS Y+L + GF +
Sbjct: 167 MPDEANSHWRNVLLQLTEGQTWLKQFMNVTPTASWAIDPFGHSPTMPYILQ-KSGFKNML 225
Query: 63 FARIDYQDRAKRINEKTLEVVWRASKSLGSSAQIMTGISP-KNYEPPSD---------NF 112
R Y + + ++ LE +WR + T + P +Y+ P F
Sbjct: 226 IQRTHYSVKKELAQQRQLEFLWRQIWDNKGDTALFTHMMPFYSYDIPHTCGPDPKVCCQF 285
Query: 113 YFE----VGDTSPIVQDDMNLFDYNVPERVNDFVSAAIAQANITRTNHIMWTMGTDFKYQ 168
F+ G + P + D NV R + V +A + RTN ++ +G DF+++
Sbjct: 286 DFKRMGSFGLSCPWKVPPRTISDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDDFRFK 345
Query: 169 YAHTWFRQM---DKFIHYVNQDGRVN--ALYSTPSMYIDAKYAANES----WPLKTDDFF 219
W Q ++ ++N N A + T Y DA + A + +P + DFF
Sbjct: 346 QNTEWDVQRVNYERLFEHINSQAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFF 405
Query: 220 PYADRENAYWTGYFTSRPALKGYVRTMSAYYLAARQLEFFK---GRNEVGXXXXXXXXXX 276
YADR + YW+GY+TSRP K R + Y AA L + G +
Sbjct: 406 TYADRSDNYWSGYYTSRPYHKRMDRVLMHYVRAAEMLSAWHSWDGMARIEERLEQARREL 465
Query: 277 XXVQHHDAVSGTEKQHVADDYAKRLSIGYTEAEKVVAASLACLTEFSKNGCVNPITNFQQ 336
QHHD ++GT K HV DY +R+ + V+ S+ L +K +P +F
Sbjct: 466 SLFQHHDGITGTAKTHVVVDYEQRMQEALKACQMVMQQSVYRL--LTKPSIYSPDFSFSY 523
Query: 337 CPLLNISYCPPSEVDLSS-----GKSLV----VVVYNPLGWKREDIIRIPVINENVTVKD 387
L+ S P S V+ S G+ ++ VV++N L RE ++ V + V+V D
Sbjct: 524 F-TLDDSRWPGSGVEDSRTTIILGEDILPSKHVVMHNTLPHWREQLVDFYVSSPFVSVTD 582
Query: 388 SKGKVIESQLLPLLKDSMSLRNSYSTAYLGKSTN---VTPSYWLAFSASVPPLGFNTYII 444
+E+Q+ P+ S+ L K+ + T Y + F A VPP+G TY++
Sbjct: 583 LANNPVEAQVSPVW--------SWHHDTLTKTIHPQGSTTKYRIIFKARVPPMGLATYVL 634
Query: 445 SSAKQAASHSGMRTVYKSQ--IRQNDT------------------IEVGPGNLKLLYSGK 484
+ + H T Y S +R+N T I + GN L +
Sbjct: 635 TISDSKPEH----TSYASNLLLRKNPTSLPLGQYPEDVKFGDPREISLRVGNGPTLAFSE 690
Query: 485 RAKLMRYINSKTSVNKLLEQSYIYYRGDDGSKDLQPSGAYIFRPNG-TYPIEPEGQLSFT 543
+ L ++ S + + ++ Y G D SGAY+F PNG P+E GQ
Sbjct: 691 QGLLKSIQLTQDSPHVPVHFKFLKY-GVRSHGDR--SGAYLFLPNGPASPVE-LGQPVVL 746
Query: 544 ILRGPLLDEVHQRINPWIYQVTRVYKGKDHAEIEFTVGPIPIDDGIGKEVVTQITSNMIS 603
+ +G L V + ++Q + +G EI V +D+ E+V ++ +++ S
Sbjct: 747 VTKGKLESSVSVGLPSVVHQT--IMRGGA-PEIRNLVDIGSLDN---TEIVMRLETHIDS 800
Query: 604 NKTFYTDSSGRDFIERIRDYRKDWNLEVNQPIAGNYYPVNLGIYMKDNSSELSILVDRSV 663
FYTD +G FI+R R + P+ NYYP+ G++++D ++ L++L + +
Sbjct: 801 GDIFYTDLNGLQFIKRRRLDK--------LPLQANYYPIPSGMFIEDANTRLTLLTGQPL 852
Query: 664 GGSSIADGQLELMLHRRLVADDNRGVSEAL 693
GGSS+A G+LE+M RRL +DD RG+ + +
Sbjct: 853 GGSSLASGELEIMQDRRLASDDERGLGQGV 882
>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 = 229 bits (585), Expect = 4e-60, Method: Compositional matrix adjust.
Identities = 208/750 (27%), Positives = 339/750 (45%), Gaps = 93/750 (12%)
Query: 3 MHDEAAPHYIDMIDQTTLGHRYIKEQFNVTPRIGWQIDPFGHSAVQAYLLSAEVGFDFLF 62
M DEA H+ +++ Q T G ++K+ NVTP W IDPFGHS Y+L + GF +
Sbjct: 167 MPDEANSHWRNVLLQLTEGQTWLKQFMNVTPTASWAIDPFGHSPTMPYILQ-KSGFKNML 225
Query: 63 FARIDYQDRAKRINEKTLEVVWRASKSLGSSAQIMTGISP-KNYEPPSD---------NF 112
R Y + + ++ LE +WR + T + P +Y+ P F
Sbjct: 226 IQRTHYSVKKELAQQRQLEFLWRQIWDNKGDTALFTHMMPFYSYDIPHTCGPDPKVCCQF 285
Query: 113 YFE----VGDTSPIVQDDMNLFDYNVPERVNDFVSAAIAQANITRTNHIMWTMGTDFKYQ 168
F+ G + P + D NV R + V +A + RTN ++ +G +F+++
Sbjct: 286 DFKRMGSFGLSCPWKVPPRTISDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDNFRFK 345
Query: 169 YAHTWFRQM---DKFIHYVNQDGRVN--ALYSTPSMYIDAKYAANES----WPLKTDDFF 219
W Q ++ ++N N A + T Y DA + A + +P + DFF
Sbjct: 346 QNTEWDVQRVNYERLFEHINSQAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFF 405
Query: 220 PYADRENAYWTGYFTSRPALKGYVRTMSAYYLAARQLEFFK---GRNEVGXXXXXXXXXX 276
YADR + YW+GY+TSRP K R + Y AA L + G +
Sbjct: 406 TYADRSDNYWSGYYTSRPYHKRMDRVLMHYVRAAEMLSAWHSWDGMARIEERLEQARREL 465
Query: 277 XXVQHHDAVSGTEKQHVADDYAKRLSIGYTEAEKVVAASLACLTEFSKNGCVNPITNFQQ 336
QHHD ++GT K HV DY +R+ + V+ S+ L +K +P +F
Sbjct: 466 SLFQHHDGITGTAKTHVVVDYEQRMQEALKACQMVMQQSVYRL--LTKPSIYSPDFSFSY 523
Query: 337 CPLLNISYCPPSEVDLSS-----GKSLV----VVVYNPLGWKREDIIRIPVINENVTVKD 387
L+ S P S V+ S G+ ++ VV++N L RE ++ V + V+V D
Sbjct: 524 F-TLDDSRWPGSGVEDSRTTIILGEDILPSKHVVMHNTLPHWREQLVDFYVSSPFVSVTD 582
Query: 388 SKGKVIESQLLPLLKDSMSLRNSYSTAYLGKSTN---VTPSYWLAFSASVPPLGFNTYII 444
+E+Q+ P+ S+ L K+ + T Y + F A VPP+G TY++
Sbjct: 583 LANNPVEAQVSPVW--------SWHHDTLTKTIHPQGSTTKYRIIFKARVPPMGLATYVL 634
Query: 445 SSAKQAASHSGMRTVYKSQ--IRQNDT------------------IEVGPGNLKLLYSGK 484
+ + H T Y S +R+N T I + GN L +
Sbjct: 635 TISDSKPEH----TSYASNLLLRKNPTSLPLGQYPEDVKFGDPREISLRVGNGPTLAFSE 690
Query: 485 RAKLMRYINSKTSVNKLLEQSYIYYRGDDGSKDLQPSGAYIFRPNG-TYPIEPEGQLSFT 543
+ L ++ S + + ++ Y G D SGAY+F PNG P+E GQ
Sbjct: 691 QGLLKSIQLTQDSPHVPVHFKFLKY-GVRSHGDR--SGAYLFLPNGPASPVE-LGQPVVL 746
Query: 544 ILRGPLLDEVHQRINPWIYQVTRVYKGKDHAEIEFTVGPIPIDDGIGKEVVTQITSNMIS 603
+ +G L V + ++Q + +G EI V +D+ E+V ++ +++ S
Sbjct: 747 VTKGKLESSVSVGLPSVVHQT--IMRGGA-PEIRNLVDIGSLDN---TEIVMRLETHIDS 800
Query: 604 NKTFYTDSSGRDFIERIRDYRKDWNLEVNQPIAGNYYPVNLGIYMKDNSSELSILVDRSV 663
FYTD +G FI+R R + P+ NYYP+ G++++D ++ L++L + +
Sbjct: 801 GDIFYTDLNGLQFIKRRRLDKL--------PLQANYYPIPSGMFIEDANTRLTLLTGQPL 852
Query: 664 GGSSIADGQLELMLHRRLVADDNRGVSEAL 693
GGSS+A G+LE+M RRL +DD RG+ + +
Sbjct: 853 GGSSLASGELEIMQDRRLASDDERGLGQGV 882
>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 = 229 bits (583), Expect = 7e-60, Method: Compositional matrix adjust.
Identities = 208/750 (27%), Positives = 338/750 (45%), Gaps = 93/750 (12%)
Query: 3 MHDEAAPHYIDMIDQTTLGHRYIKEQFNVTPRIGWQIDPFGHSAVQAYLLSAEVGFDFLF 62
M DEA H+ +++ Q T G ++K+ NVTP W I PFGHS Y+L + GF +
Sbjct: 167 MPDEANSHWRNVLLQLTEGQTWLKQFMNVTPTASWAIAPFGHSPTMPYILQ-KSGFKNML 225
Query: 63 FARIDYQDRAKRINEKTLEVVWRASKSLGSSAQIMTGISP-KNYEPPSD---------NF 112
R Y + + ++ LE +WR + T + P +Y+ P F
Sbjct: 226 IQRTHYSVKKELAQQRQLEFLWRQIWDNKGDTALFTHMMPFYSYDIPHTCGPDPKVCCQF 285
Query: 113 YFE----VGDTSPIVQDDMNLFDYNVPERVNDFVSAAIAQANITRTNHIMWTMGTDFKYQ 168
F+ G + P + D NV R + V +A + RTN ++ +G DF+++
Sbjct: 286 DFKRMGSFGLSCPWKVPPRTISDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDDFRFK 345
Query: 169 YAHTWFRQM---DKFIHYVNQDGRVN--ALYSTPSMYIDAKYAANES----WPLKTDDFF 219
W Q ++ ++N N A + T Y DA + A + +P + DFF
Sbjct: 346 QNTEWDVQRVNYERLFEHINSQAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFF 405
Query: 220 PYADRENAYWTGYFTSRPALKGYVRTMSAYYLAARQLEFFK---GRNEVGXXXXXXXXXX 276
YADR + YW+GY+TSRP K R + Y AA L + G +
Sbjct: 406 TYADRSDNYWSGYYTSRPYHKRMDRVLMHYVRAAEMLSAWHSWDGMARIEERLEQARREL 465
Query: 277 XXVQHHDAVSGTEKQHVADDYAKRLSIGYTEAEKVVAASLACLTEFSKNGCVNPITNFQQ 336
QHHD ++GT K HV DY +R+ + V+ S+ L +K +P +F
Sbjct: 466 SLFQHHDGITGTAKTHVVVDYEQRMQEALKACQMVMQQSVYRL--LTKPSIYSPDFSFSY 523
Query: 337 CPLLNISYCPPSEVDLSS-----GKSLV----VVVYNPLGWKREDIIRIPVINENVTVKD 387
L+ S P S V+ S G+ ++ VV++N L RE ++ V + V+V D
Sbjct: 524 F-TLDDSRWPGSGVEDSRTTIILGEDILPSKHVVMHNTLPHWREQLVDFYVSSPFVSVTD 582
Query: 388 SKGKVIESQLLPLLKDSMSLRNSYSTAYLGKSTN---VTPSYWLAFSASVPPLGFNTYII 444
+E+Q+ P+ S+ L K+ + T Y + F A VPP+G TY++
Sbjct: 583 LANNPVEAQVSPVW--------SWHHDTLTKTIHPQGSTTKYRIIFKARVPPMGLATYVL 634
Query: 445 SSAKQAASHSGMRTVYKSQ--IRQNDT------------------IEVGPGNLKLLYSGK 484
+ + H T Y S +R+N T I + GN L +
Sbjct: 635 TISDSKPEH----TSYASNLLLRKNPTSLPLGQYPEDVKFGDPREISLRVGNGPTLAFSE 690
Query: 485 RAKLMRYINSKTSVNKLLEQSYIYYRGDDGSKDLQPSGAYIFRPNG-TYPIEPEGQLSFT 543
+ L ++ S + + ++ Y G D SGAY+F PNG P+E GQ
Sbjct: 691 QGLLKSIQLTQDSPHVPVHFKFLKY-GVRSHGDR--SGAYLFLPNGPASPVE-LGQPVVL 746
Query: 544 ILRGPLLDEVHQRINPWIYQVTRVYKGKDHAEIEFTVGPIPIDDGIGKEVVTQITSNMIS 603
+ +G L V + ++Q + +G EI V +D+ E+V ++ +++ S
Sbjct: 747 VTKGKLESSVSVGLPSVVHQT--IMRGGA-PEIRNLVDIGSLDN---TEIVMRLETHIDS 800
Query: 604 NKTFYTDSSGRDFIERIRDYRKDWNLEVNQPIAGNYYPVNLGIYMKDNSSELSILVDRSV 663
FYTD +G FI+R R + P+ NYYP+ G++++D ++ L++L + +
Sbjct: 801 GDIFYTDLNGLQFIKRRRLDK--------LPLQANYYPIPSGMFIEDANTRLTLLTGQPL 852
Query: 664 GGSSIADGQLELMLHRRLVADDNRGVSEAL 693
GGSS+A G+LE+M RRL +DD RG+ + +
Sbjct: 853 GGSSLASGELEIMQDRRLASDDERGLGQGV 882
>pdb|1HTY|A Chain A, Golgi Alpha-Mannosidase Ii
Length = 1015
Score = 221 bits (562), Expect = 2e-57, Method: Compositional matrix adjust.
Identities = 207/748 (27%), Positives = 331/748 (44%), Gaps = 93/748 (12%)
Query: 5 DEAAPHYIDMIDQTTLGHRYIKEQFNVTPRIGWQIDPFGHSAVQAYLLSAEVGFDFLFFA 64
DEA H+ +++ Q T G ++K+ NVTP W IDPFGHS Y+L + GF +
Sbjct: 139 DEANSHWRNVLLQLTEGQTWLKQFXNVTPTASWAIDPFGHSPTXPYILQ-KSGFKNMLIQ 197
Query: 65 RIDYQDRAKRINEKTLEVVWRASKSLGSSAQIMTGISP-KNYEPPSD---------NFYF 114
R Y + + ++ LE +WR + T P +Y+ P F F
Sbjct: 198 RTHYSVKKELAQQRQLEFLWRQIWDNKGDTALFTHXXPFYSYDIPHTCGPDPKVCCQFDF 257
Query: 115 E----VGDTSPIVQDDMNLFDYNVPERVNDFVSAAIAQANITRTNHIMWTMGTDFKYQYA 170
+ G + P + D NV R + V +A + RTN ++ +G DF+++
Sbjct: 258 KRXGSFGLSCPWKVPPRTISDQNVAARSDLLVDQWKKKAELYRTNVLLIPLGDDFRFKQN 317
Query: 171 HTWFRQM---DKFIHYVNQDGRVN--ALYSTPSMYIDAKYAANES----WPLKTDDFFPY 221
W Q ++ ++N N A + T Y DA + A + +P + DFF Y
Sbjct: 318 TEWDVQRVNYERLFEHINSQAHFNVQAQFGTLQEYFDAVHQAERAGQAEFPTLSGDFFTY 377
Query: 222 ADRENAYWTGYFTSRPALKGYVRTMSAYYLAARQLEFFK---GRNEVGXXXXXXXXXXXX 278
ADR + YW+GY+TSRP K R + Y AA L + G +
Sbjct: 378 ADRSDNYWSGYYTSRPYHKRXDRVLXHYVRAAEXLSAWHSWDGMARIEERLEQARRELSL 437
Query: 279 VQHHDAVSGTEKQHVADDYAKRLSIGYTEAEKVVAASLACLTEFSKNGCVNPITNFQQCP 338
QHHD ++GT K HV DY +R + V S+ L +K +P +F
Sbjct: 438 FQHHDGITGTAKTHVVVDYEQRXQEALKACQXVXQQSVYRL--LTKPSIYSPDFSFSYF- 494
Query: 339 LLNISYCPPSEVDLSS-----GKSLV----VVVYNPLGWKREDIIRIPVINENVTVKDSK 389
L+ S P S V+ S G+ ++ VV +N L RE ++ V + V+V D
Sbjct: 495 TLDDSRWPGSGVEDSRTTIILGEDILPSKHVVXHNTLPHWREQLVDFYVSSPFVSVTDLA 554
Query: 390 GKVIESQLLPLLKDSMSLRNSYSTAYLGKSTN---VTPSYWLAFSASVPPLGFNTYIISS 446
+E+Q+ P+ S+ L K+ + T Y + F A VPP G TY+++
Sbjct: 555 NNPVEAQVSPVW--------SWHHDTLTKTIHPQGSTTKYRIIFKARVPPXGLATYVLTI 606
Query: 447 AKQAASHSGMRTVYKSQ--IRQNDT------------------IEVGPGNLKLLYSGKRA 486
+ H T Y S +R+N T I + GN L ++
Sbjct: 607 SDSKPEH----TSYASNLLLRKNPTSLPLGQYPEDVKFGDPREISLRVGNGPTLAFSEQG 662
Query: 487 KLMRYINSKTSVNKLLEQSYIYYRGDDGSKDLQPSGAYIFRPNG-TYPIEPEGQLSFTIL 545
L ++ S + + ++ Y G D SGAY+F PNG P+E GQ +
Sbjct: 663 LLKSIQLTQDSPHVPVHFKFLKY-GVRSHGDR--SGAYLFLPNGPASPVE-LGQPVVLVT 718
Query: 546 RGPLLDEVHQRINPWIYQVTRVYKGKDHAEIEFTVGPIPIDDGIGKEVVTQITSNMISNK 605
+G L V + ++Q + +G EI V +D+ E+V ++ +++ S
Sbjct: 719 KGKLESSVSVGLPSVVHQT--IXRGGA-PEIRNLVDIGSLDN---TEIVXRLETHIDSGD 772
Query: 606 TFYTDSSGRDFIERIRDYRKDWNLEVNQPIAGNYYPVNLGIYMKDNSSELSILVDRSVGG 665
FYTD +G FI+R R + P+ NYYP+ G +++D ++ L++L + +GG
Sbjct: 773 IFYTDLNGLQFIKRRRLDK--------LPLQANYYPIPSGXFIEDANTRLTLLTGQPLGG 824
Query: 666 SSIADGQLELMLHRRLVADDNRGVSEAL 693
SS+A G+LE+ RRL +DD RG+ + +
Sbjct: 825 SSLASGELEIXQDRRLASDDERGLGQGV 852
>pdb|1O7D|D Chain D, The Structure Of The Bovine Lysosomal A-Mannosidase
Suggests A Novel Mechanism For Low Ph Activation
Length = 282
Score = 200 bits (508), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 101/237 (42%), Positives = 147/237 (62%), Gaps = 8/237 (3%)
Query: 502 LEQSYIYYRGDDGSK-DLQPSGAYIFRPNGTYPIEPEGQLSFTILRGPLLDEVHQRINPW 560
+ Q++ +Y G+ Q SGAYIFRPN P+ +++ L+ EVHQ + W
Sbjct: 35 VRQAFYWYNASTGNNLSSQASGAYIFRPNQNKPLFVSHWAQTHLVKASLVQEVHQNFSAW 94
Query: 561 IYQVTRVYKGKDHAEIEFTVGPIPIDDGIGKEVVTQITSNMISNKTFYTDSSGRDFIERI 620
QV R+Y + H E+E+TVGPIP+ DG GKEV+++ + + + FYTDS+GR+ +ER
Sbjct: 95 CSQVVRLYPRQRHLELEWTVGPIPVGDGWGKEVISRFDTALATRGLFYTDSNGREILERR 154
Query: 621 RDYRKDWNLEVNQPIAGNYYPVNLGIYMKDNSSELSILVDRSVGGSSIADGQLELMLHRR 680
R+YR W L +P+AGNYYPVN IY+ D + +L++L DRS GGSS+ DG LELM+HRR
Sbjct: 155 RNYRPTWKLNQTEPVAGNYYPVNSRIYITDGNMQLTVLTDRSQGGSSLRDGSLELMVHRR 214
Query: 681 LVADDNRGVSEALNETVCVFDKCEGLTIIGKYYLRIDPV-GEAAKWRRSFGQEIYSP 736
L+ DD RGV E LN+ + GL + G++ + +D AA+ R E+ +P
Sbjct: 215 LLKDDARGVGEPLNK------EGSGLWVRGRHLVLLDKKETAAARHRLQAEMEVLAP 265
>pdb|1O7D|A Chain A, The Structure Of The Bovine Lysosomal A-Mannosidase
Suggests A Novel Mechanism For Low Ph Activation
Length = 298
Score = 157 bits (398), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 84/193 (43%), Positives = 114/193 (59%), Gaps = 5/193 (2%)
Query: 3 MHDEAAPHYIDMIDQTTLGHRYIKEQF--NVTPRIGWQIDPFGHSAVQAYLLSAEVGFDF 60
M+DEA HY +IDQ TLG R+++E F + PR+ W IDPFGHS QA L A++GFD
Sbjct: 108 MNDEATTHYGAIIDQMTLGLRFLEETFGSDGRPRVAWHIDPFGHSREQASLF-AQMGFDG 166
Query: 61 LFFARIDYQDRAKRINEKTLEVVWRASKSLGS-SAQIMTGISPKNYEPPSDNFYFEVGDT 119
FF R+DYQD+ R +E VWRAS SL +A + T + P Y PP + +
Sbjct: 167 FFFGRLDYQDKKVRKKTLQMEQVWRASTSLKPPTADLFTSVLPNMYNPPEGLCWDMLCAD 226
Query: 120 SPIVQDDMNLFDYNVPERVNDFVSAAIAQANITRTNHIMWTMGTDFKYQYAHTWFRQMDK 179
P+V+D + +YN E V F+ A Q + RT H + TMG+DF+Y+ A+TWF+ +DK
Sbjct: 227 KPVVEDTRSP-EYNAKELVRYFLKLATDQGKLYRTKHTVMTMGSDFQYENANTWFKNLDK 285
Query: 180 FIHYVNQDGRVNA 192
I VN R N
Sbjct: 286 LIQLVNAQQRANG 298
>pdb|1O7D|C Chain C, The Structure Of The Bovine Lysosomal A-Mannosidase
Suggests A Novel Mechanism For Low Ph Activation
Length = 159
Score = 94.7 bits (234), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 61/167 (36%), Positives = 92/167 (55%), Gaps = 32/167 (19%)
Query: 279 VQHHDAVSGTEKQHVADDYAKRLSIGYTEAEKVVAASLACLTEFSKNGCVNPITNFQQCP 338
+QHHDAVSGT +QHVA+DYA++LS G+ E +++ +LA L+ + +F C
Sbjct: 13 LQHHDAVSGTSRQHVANDYARQLSEGWRPCEVLMSNALAHLSGLKE--------DFAFCR 64
Query: 339 LLNISYCPPSEVDLSSGKSLVVVVYNPLGWKREDIIRIPVINENVTVKDSKGKVIESQLL 398
LNIS CP ++ + + V+VYNPLG K + ++R+PV VKD GK++ S
Sbjct: 65 KLNISICPLTQ----TAERFQVIVYNPLGRKVDWMVRLPVSKHVYLVKDPGGKIVPS--- 117
Query: 399 PLLKDSMSLRNSYSTAYLGKSTNVTPSYWLAFSASVPPLGFNTYIIS 445
D +++ +S S L FSA VP +GF+ Y +S
Sbjct: 118 ----DVVTIPSSDSQELL-------------FSALVPAVGFSIYSVS 147
>pdb|1O7D|B Chain B, The Structure Of The Bovine Lysosomal A-Mannosidase
Suggests A Novel Mechanism For Low Ph Activation
Length = 84
Score = 77.0 bits (188), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 39/73 (53%), Positives = 45/73 (61%)
Query: 189 RVNALYSTPSMYIDAKYAANESWPLKTDDFFPYADRENAYWTGYFTSRPALKGYVRTMSA 248
RVN LYSTP+ Y+ AN SW +K DDFFPYAD +WTGYF+SRPALK Y R
Sbjct: 2 RVNVLYSTPACYLWELNKANLSWSVKKDDFFPYADGPYMFWTGYFSSRPALKRYERLSYN 61
Query: 249 YYLAARQLEFFKG 261
+ QLE G
Sbjct: 62 FLQVCNQLEALAG 74
>pdb|1O7D|E Chain E, The Structure Of The Bovine Lysosomal A-Mannosidase
Suggests A Novel Mechanism For Low Ph Activation
Length = 126
Score = 52.0 bits (123), Expect = 1e-06, Method: Composition-based stats.
Identities = 37/113 (32%), Positives = 52/113 (46%), Gaps = 9/113 (7%)
Query: 766 LPDNVALITLQELDSGKILLRLAHLYEIEEDT--DLSVMSSVELXXXXXXXXXXXVTEMN 823
LP +V L+TL +LLRL H + + ED+ +LS +++L + E
Sbjct: 12 LPPSVRLLTLARWGPETLLLRLEHQFAVGEDSGRNLSSPVTLDLTNLFSAFTITNLRETT 71
Query: 824 LSANQERAVMEKKRLVWRVEGSSKEQPTAVRGSPVDPAKLVVELAPMEIRTFV 876
L+ANQ A RL W + P SP P + L PMEIRTF+
Sbjct: 72 LAANQLLAY--ASRLQWTTDTGPTPHP-----SPSRPVSATITLQPMEIRTFL 117
>pdb|4HWG|A Chain A, Structure Of Udp-N-Acetylglucosamine 2-Epimerase From
Rickettsia Bellii
Length = 385
Score = 33.9 bits (76), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 61/151 (40%), Gaps = 23/151 (15%)
Query: 62 FFARIDYQDRAKRIN---EKTLEVVWR----ASKSLGSSAQIMTGISPKNYEPPSDNFYF 114
+F + + AK I EK EV+ + A G + ++ I+ K + P F+
Sbjct: 66 YFLEVAADNTAKSIGLVIEKVDEVLEKEKPDAVLFYGDTNSCLSAIAAKRRKIPI--FHM 123
Query: 115 EVGDTSPIVQDDMNLFDYNVPERVNDFVSAAIAQANITRTNH-----IMWTMGTDFKYQY 169
E G+ FD VPE +N + I+ NIT T H I + + ++
Sbjct: 124 EAGNRC---------FDQRVPEEINRKIIDHISDVNITLTEHARRYLIAEGLPAELTFKS 174
Query: 170 AHTWFRQMDKFIHYVNQDGRVNALYSTPSMY 200
+D+F+ + + ++ L TP Y
Sbjct: 175 GSHMPEVLDRFMPKILKSDILDKLSLTPKQY 205
>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 = 33.1 bits (74), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 33/68 (48%), Gaps = 7/68 (10%)
Query: 121 PIVQDDMNLFDYNVPERVNDFVSAAIAQANITRTNHIMWTMGTDFKYQYAHTWFRQMDKF 180
P ++D N+ YN+P R D A+ ++ T T ++W + D ++ A T+
Sbjct: 48 PYLKDAANI--YNMPLRPTDVFVASYQRSGTTMTQELVWLIENDLNFEAAKTYMS----- 100
Query: 181 IHYVNQDG 188
+ Y+ DG
Sbjct: 101 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 = 33.1 bits (74), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 33/68 (48%), Gaps = 7/68 (10%)
Query: 121 PIVQDDMNLFDYNVPERVNDFVSAAIAQANITRTNHIMWTMGTDFKYQYAHTWFRQMDKF 180
P ++D N+ YN+P R D A+ ++ T T ++W + D ++ A T+
Sbjct: 48 PYLKDAANI--YNMPLRPTDVFVASYQRSGTTMTQELVWLIENDLNFEAAKTYMS----- 100
Query: 181 IHYVNQDG 188
+ Y+ DG
Sbjct: 101 LRYIYLDG 108
>pdb|1EO8|L Chain L, Influenza Virus Hemagglutinin Complexed With A
Neutralizing Antibody
Length = 210
Score = 29.6 bits (65), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 39/87 (44%), Gaps = 8/87 (9%)
Query: 342 ISYCPPSEVDLSSGKSLVVVVYN-------PLGWKREDIIRIPVINENVTVKDSKGKVIE 394
+S PPS++ L+SG + VV N + WK + R + + T +DSK
Sbjct: 113 VSIFPPSKIQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYS 172
Query: 395 -SQLLPLLKDSMSLRNSYSTAYLGKST 420
S L L KD NSY+ K++
Sbjct: 173 MSSTLTLTKDEYERHNSYTCEATHKTS 199
>pdb|1ZAN|L Chain L, Crystal Structure Of Anti-Ngf Ad11 Fab
Length = 214
Score = 29.6 bits (65), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 41/91 (45%), Gaps = 9/91 (9%)
Query: 342 ISYCPPSEVDLSSGKSLVVVVYN-------PLGWKREDIIRIPVINENVTVKDSKGKVIE 394
+S PPS L+SG + VV + N + WK + R + ++VT +DSK
Sbjct: 115 VSIFPPSSEQLASGGASVVCLLNNFYPKDISVKWKIDGSERQNGVLDSVTDQDSKDSTYS 174
Query: 395 -SQLLPLLKDSMSLRNSYSTAYLGKSTNVTP 424
S L L K NSY T + T+ +P
Sbjct: 175 MSSTLTLTKAEYESHNSY-TCEVTHKTSTSP 204
>pdb|1KCU|L Chain L, Crystal Structure Of Antibody Pc287
pdb|1KC5|L Chain L, Crystal Structure Of Antibody Pc287 In Complex With Ps1
Peptide
Length = 214
Score = 29.6 bits (65), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 37/87 (42%), Gaps = 8/87 (9%)
Query: 342 ISYCPPSEVDLSSGKSLVVVVYN-------PLGWKREDIIRIPVINENVTVKDSKGKVIE 394
+S PPS L+SG + VV N + WK + R + + T +DSK
Sbjct: 115 VSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVANSWTAQDSKDSTYS 174
Query: 395 -SQLLPLLKDSMSLRNSYSTAYLGKST 420
S L L KD NSY+ K++
Sbjct: 175 MSSTLTLTKDEYERHNSYTCEATHKTS 201
>pdb|1KEN|L Chain L, Influenza Virus Hemagglutinin Complexed With An Antibody
That Prevents The Hemagglutinin Low Ph Fusogenic
Transition
pdb|1KEN|U Chain U, Influenza Virus Hemagglutinin Complexed With An Antibody
That Prevents The Hemagglutinin Low Ph Fusogenic
Transition
Length = 213
Score = 29.6 bits (65), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 39/87 (44%), Gaps = 8/87 (9%)
Query: 342 ISYCPPSEVDLSSGKSLVVVVYN-------PLGWKREDIIRIPVINENVTVKDSKGKVIE 394
+S PPS++ L+SG + VV N + WK + R + + T +DSK
Sbjct: 116 VSIFPPSKIQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYS 175
Query: 395 -SQLLPLLKDSMSLRNSYSTAYLGKST 420
S L L KD NSY+ K++
Sbjct: 176 MSSTLTLTKDEYERHNSYTCEATHKTS 202
>pdb|1QFU|L Chain L, Influenza Virus Hemagglutinin Complexed With A
Neutralizing Antibody
Length = 217
Score = 29.3 bits (64), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 39/87 (44%), Gaps = 8/87 (9%)
Query: 342 ISYCPPSEVDLSSGKSLVVVVYN-------PLGWKREDIIRIPVINENVTVKDSKGKVIE 394
+S PPS++ L+SG + VV N + WK + R + + T +DSK
Sbjct: 120 VSIFPPSKIQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYS 179
Query: 395 -SQLLPLLKDSMSLRNSYSTAYLGKST 420
S L L KD NSY+ K++
Sbjct: 180 MSSTLTLTKDEYERHNSYTCEATHKTS 206
>pdb|2JEL|L Chain L, Jel42 FabHPR COMPLEX
Length = 217
Score = 29.3 bits (64), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 342 ISYCPPSEVDLSSGKSLVVVVYN-------PLGWKREDIIRIPVINENVTVKDSKGKVIE 394
+S PPS L+SG + VV N + WK D R + + T +DSK
Sbjct: 120 VSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIGDGARQNGVLNSWTDQDSKDSTYS 179
Query: 395 -SQLLPLLKDSMSLRNSYSTAYLGKSTN 421
S L L KD NSY+ K+++
Sbjct: 180 MSSTLTLTKDEYERHNSYTCEATHKTSD 207
>pdb|1KHB|A Chain A, Pepck Complex With Nonhydrolyzable Gtp Analog, Native Data
pdb|1KHF|A Chain A, Pepck Complex With Pep
pdb|1KHG|A Chain A, Pepck
pdb|1M51|A Chain A, Pepck Complex With A Gtp-Competitive Inhibitor
pdb|1NHX|A Chain A, Pepck Complex With A Gtp-Competitive Inhibitor
pdb|2GMV|A Chain A, Pepck Complex With A Gtp-Competitive Inhibitor
pdb|2GMV|B Chain B, Pepck Complex With A Gtp-Competitive Inhibitor
Length = 625
Score = 29.3 bits (64), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 10/77 (12%)
Query: 327 CVNPITNF----QQCPLLNISYCPPSEVDLSS----GK--SLVVVVYNPLGWKREDIIRI 376
C +P + F QCP+++ ++ P V + G+ + V +VY L W+ +
Sbjct: 402 CAHPNSRFCTPASQCPIIDAAWESPEGVPIEGIIFGGRRPAGVPLVYEALSWQHGVFVGA 461
Query: 377 PVINENVTVKDSKGKVI 393
+ +E + KGK+I
Sbjct: 462 AMRSEATAAAEHKGKII 478
>pdb|3OJD|A Chain A, Anti-Indolicidin Monoclonal Antibody V2d2 (Fab Fragment)
Length = 214
Score = 29.3 bits (64), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 37/87 (42%), Gaps = 8/87 (9%)
Query: 342 ISYCPPSEVDLSSGKSLVVVVYN-------PLGWKREDIIRIPVINENVTVKDSKGKVIE 394
+S PPS L+SG + VV N + WK + R + + T +DSK
Sbjct: 115 VSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQGGVLNSWTDQDSKDSTYS 174
Query: 395 -SQLLPLLKDSMSLRNSYSTAYLGKST 420
S L L KD NSY+ K+T
Sbjct: 175 MSSTLTLTKDEYERHNSYTCEATHKTT 201
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 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,093,881
Number of Sequences: 62578
Number of extensions: 1110208
Number of successful extensions: 2662
Number of sequences better than 100.0: 376
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 361
Number of HSP's that attempted gapping in prelim test: 2578
Number of HSP's gapped (non-prelim): 388
length of query: 883
length of database: 14,973,337
effective HSP length: 107
effective length of query: 776
effective length of database: 8,277,491
effective search space: 6423333016
effective search space used: 6423333016
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: 56 (26.2 bits)