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(-) Description

Title :  STRUCTURE OF FUNGAL BETA-MANNOSIDASE FROM GLYCOSIDE HYDROLASE FAMILY 2 OF TRICHODERMA HARZIANUM
 
Authors :  J. R. C. Muniz, R. Aparicio, J. C. Santos, A. S. Nascimento, A. M. Golubev I. Polikarpov
Date :  31 Mar 14  (Deposition) - 09 Jul 14  (Release) - 01 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. S. Nascimento, J. R. C. Muniz, R. Aparicio, A. M. Golubev, I. Polikarpov
Insights Into The Structure And Function Of Fungal Beta- Mannosidases From Glycoside Hydrolase Family 2 Based On Multiple Crystal Structures Of The Trichoderma Harzianum Enzyme.
Febs J. V. 281 4165 2014
PubMed-ID: 24975648  |  Reference-DOI: 10.1111/FEBS.12894

(-) Compounds

Molecule 1 - BETA-MANNOSIDASE
    Chains: A
    Organism Scientific: TRICHODERMA HARZIANUM
    Organism Taxid: 5544

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (9, 62)

Asymmetric Unit (9, 62)
No.NameCountTypeFull Name
1BMA4Ligand/IonBETA-D-MANNOSE
2CA1Ligand/IonCALCIUM ION
3CD17Ligand/IonCADMIUM ION
4CL1Ligand/IonCHLORIDE ION
5MAN16Ligand/IonALPHA-D-MANNOSE
6NA6Ligand/IonSODIUM ION
7NAG15Ligand/IonN-ACETYL-D-GLUCOSAMINE
8PE41Ligand/Ion2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL
9PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 1 (5, 74)
No.NameCountTypeFull Name
1BMA8Ligand/IonBETA-D-MANNOSE
2CA-1Ligand/IonCALCIUM ION
3CD-1Ligand/IonCADMIUM ION
4CL-1Ligand/IonCHLORIDE ION
5MAN32Ligand/IonALPHA-D-MANNOSE
6NA-1Ligand/IonSODIUM ION
7NAG30Ligand/IonN-ACETYL-D-GLUCOSAMINE
8PE42Ligand/Ion2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL
9PEG2Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (37, 37)

Asymmetric Unit (37, 37)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:62 , GLU A:613 , HOH A:3043 , HOH A:3044 , HOH A:3726BINDING SITE FOR RESIDUE CD A1978
02AC2SOFTWAREASN A:72 , ASP A:611 , HOH A:3051 , HOH A:3058 , HOH A:3727BINDING SITE FOR RESIDUE CD A1979
03AC3SOFTWAREASN A:75 , HOH A:3050 , HOH A:3728BINDING SITE FOR RESIDUE CD A1980
04AC4SOFTWAREASP A:547 , ASP A:549 , GLU A:913 , HOH A:3434 , HOH A:3435BINDING SITE FOR RESIDUE CD A1981
05AC5SOFTWAREHIS A:267 , ASP A:660BINDING SITE FOR RESIDUE CD A1982
06AC6SOFTWAREASP A:430 , ASP A:434 , HOH A:3300 , HOH A:3380BINDING SITE FOR RESIDUE CD A1983
07AC7SOFTWAREASP A:430 , HIS A:477 , HIS A:478 , HOH A:3298 , HOH A:3379BINDING SITE FOR RESIDUE CD A1984
08AC8SOFTWAREGLU A:412 , HOH A:3278 , HOH A:3366BINDING SITE FOR RESIDUE CD A1985
09AC9SOFTWAREGLU A:381 , HOH A:3322 , HOH A:3323 , HOH A:3563BINDING SITE FOR RESIDUE CD A1986
10BC1SOFTWAREGLU A:438 , HOH A:3357 , HOH A:3729BINDING SITE FOR RESIDUE CD A1987
11BC2SOFTWAREASP A:571 , NA A:2004 , HOH A:3448 , HOH A:3730BINDING SITE FOR RESIDUE CD A1988
12BC3SOFTWAREASP A:296 , HOH A:3244 , HOH A:3731BINDING SITE FOR RESIDUE CD A1989
13BC4SOFTWAREHIS A:848 , HOH A:3549 , HOH A:3668 , HOH A:3682BINDING SITE FOR RESIDUE CD A1990
14BC5SOFTWAREGLU A:825BINDING SITE FOR RESIDUE CD A1991
15BC6SOFTWAREASP A:811BINDING SITE FOR RESIDUE CD A1992
16BC7SOFTWAREASP A:306 , HIS A:308 , HOH A:3733BINDING SITE FOR RESIDUE CD A1993
17BC8SOFTWAREASP A:402BINDING SITE FOR RESIDUE CD A1994
18BC9SOFTWAREGLU A:754 , HOH A:3558BINDING SITE FOR RESIDUE NA A1995
19CC1SOFTWAREASP A:129 , HOH A:3117BINDING SITE FOR RESIDUE NA A1996
20CC2SOFTWAREASP A:409 , HOH A:3735BINDING SITE FOR RESIDUE NA A1997
21CC3SOFTWAREASP A:502 , THR A:505 , HOH A:3736BINDING SITE FOR RESIDUE NA A1998
22CC4SOFTWAREALA A:504 , HOH A:3414BINDING SITE FOR RESIDUE NA A1999
23CC5SOFTWARESER A:55 , ASP A:60 , PRO A:397 , ARG A:398 , HOH A:3738BINDING SITE FOR RESIDUE PE4 A2000
24CC6SOFTWAREVAL A:399 , TRP A:431BINDING SITE FOR RESIDUE PEG A2001
25CC7SOFTWAREGLU A:614 , HOH A:3501 , HOH A:3502BINDING SITE FOR RESIDUE CA A2002
26CC8SOFTWAREHIS A:565BINDING SITE FOR RESIDUE CL A2003
27CC9SOFTWARECD A:1988 , HOH A:3448BINDING SITE FOR RESIDUE NA A2004
28DC1SOFTWAREASN A:46BINDING SITE FOR MONO-SACCHARIDE NAG A1972 BOUND TO ASN A 46
29DC2SOFTWAREASN A:86 , TYR A:115 , ALA A:116 , THR A:117 , HIS A:123 , ILE A:124 , THR A:127 , ASP A:129 , ASN A:155 , GLY A:157 , HOH A:3707 , HOH A:3708BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG A1947 THROUGH MAN A1954 BOUND TO ASN A 86
30DC3SOFTWAREASN A:167 , ALA A:168 , ASP A:170 , HIS A:174 , PRO A:186 , HOH A:3722BINDING SITE FOR MONO-SACCHARIDE NAG A1973 BOUND TO ASN A 167
31DC4SOFTWAREASN A:255 , SER A:257 , ASP A:259 , GLN A:294 , SER A:295 , MET A:297 , THR A:298 , VAL A:465 , GLY A:466 , ARG A:473 , ASN A:523 , ALA A:527 , HIS A:530 , LEU A:548 , LEU A:550 , PRO A:551 , SER A:867 , TYR A:868 , ASN A:869 , LYS A:870 , SER A:871 , HOH A:3122 , HOH A:3242 , HOH A:3263 , HOH A:3265 , HOH A:3397 , HOH A:3420 , HOH A:3423 , HOH A:3425 , HOH A:3656 , HOH A:3714 , HOH A:3715 , HOH A:3716 , HOH A:3717 , HOH A:3718 , HOH A:3719 , HOH A:3720 , HOH A:3721BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG A1961 THROUGH MAN A1971 BOUND TO ASN A 255
32DC5SOFTWAREASN A:357 , LEU A:544 , GLU A:545 , ARG A:557 , HOH A:3431BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG A1976 THROUGH NAG A1977 BOUND TO ASN A 357
33DC6SOFTWAREASP A:456 , PRO A:507 , TYR A:508 , LEU A:510 , GLY A:511 , GLN A:512 , GLU A:514 , ASN A:515 , VAL A:555 , GLU A:556 , TYR A:558 , TYR A:559 , ASN A:560 , HOH A:3418 , HOH A:3709 , HOH A:3710 , HOH A:3711 , HOH A:3712BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG A1955 THROUGH MAN A1960 BOUND TO ASN A 560
34DC7SOFTWAREPHE A:617 , ASN A:618 , THR A:642 , VAL A:646 , THR A:649 , GLU A:653 , NAG A:1946BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG A1943 THROUGH BMA A1945 BOUND TO ASN A 618
35DC8SOFTWARETYR A:181 , PRO A:630 , ALA A:631 , ASN A:637 , ASN A:640 , HOH A:3172 , HOH A:3521 , HOH A:3723 , HOH A:3724 , HOH A:3725BINDING SITE FOR MONO-SACCHARIDE NAG A1975 BOUND TO ASN A 640
36DC9SOFTWAREASP A:660 , LYS A:661 , ASN A:667 , TRP A:671 , NAG A:1943 , HOH A:3706BINDING SITE FOR MONO-SACCHARIDE NAG A1946 BOUND TO ASN A 667
37EC1SOFTWAREARG A:699 , ASN A:799BINDING SITE FOR MONO-SACCHARIDE NAG A1974 BOUND TO ASN A 799

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:121 -A:146

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Phe A:53 -Pro A:54
2Asp A:113 -Thr A:114
3Leu A:261 -Gly A:262
4Ser A:423 -Ser A:424
5His A:628 -Tyr A:629
6Trp A:706 -Gln A:707

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4CVU)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4CVU)

(-) Exons   (0, 0)

(no "Exon" information available for 4CVU)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:913
 aligned with A0A075B5H6_T | A0A075B5H6 from UniProtKB/TrEMBL  Length:942

    Alignment length:917
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745       755       765       775       785       795       805       815       825       835       845       855       865       875       885       895       905       915       925       935       
         A0A075B5H6_T    26 GKASIHDLALQKWTVTNEYGNITVPGKFPSQAHLDLHAAGVIGESNNGLNDFDLRWIAAQNWTYTSKPISGLSKHSDIATWLVFDGLDTYATVKFCDHIVGTPDNQFRQWFYDVSSALASCKSDPVLSINFGSVPRIINAINASDEVQHWPASVVYPFEYPNRQWVRKEQNDFGWDWGPAFSPVGPWQPGRIVQLSKGGELYSLNTDIDIFRKGQFNNFAPDQTAPWVVNASLDFLGTLPKHASMSVIITDASDSRSVLYSGKLEGVTQSDMTVTGSVTIDAHKPKLWWPRDMGNQQLYNITVSVSSAGSKTPILVSQRRVGFRTILFSSGNITDAQIASGITPGNNWHFEINGHEFYAKGANLIPPDAFWPRVTSDRMNRLFDSVESQNFNMLRVWSSGTYLPDWIYDIADERGVLLWSEFQFSDTLYPDSDDFKANVVGEITYNVRRLNHHASLACWMGGNEFENLMLPIAQGADPATYPYVLGQYENLFITTLFNVLAANSHSISYSPCSANNGWLEIDLDLPVPIVERYYNTTSGHIYGDTDFYNYDTSVSFDTSAYPVGRFANEFGFISMPSIQTWQQAVDPEELSFNSTTVILRNHHYPAGGLTRNIHNSTLGQVEMTLAVERYYPTPDKTDPVANFSSWCHATQLFQADMYKSEIQFYRRGSGLPERQLGSLYWQLNDIWQAPTWAGLEYDGRWKVLPYVSRRTYEHVIASAFWNYTANELEIWVTSDLWEPVAGEVSLTWVDLKGKPIANNAGMTKSTKFNVGAINTTQIITANIQSDLKIPDTSDAVLVIELTAHGKLPNAASSKTTTFTHHNHFLPVWPNQAKVSDPKLHLSYNKSTKKFTVEATAGVSLYTWLTHPAGVLGFFDDNAFVLRPGEKKEVGFTLQQDTTGGKWTEQVTVESLWDLTTP 942
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee.hhh.eeee......eeee....hhhhhhhhh.........hhhhhhhhhhh..eeeee...........eeeeeee......eeeee..eeee........eeeehhhhhhhh.....eeeee.hhhhhhhhhhhh.................hhhhh..hhhhhh...............eeeeeee.....eeeeeeeeeee..............eeeeeeeeee......eeeeeeeee.----.eeeeee.eeeee...eeeeeeee..................eeeeeeeee.......eeeeeee....eeee....hhhhhhhh.......eeee..ee..eeeeee.....hhhhhhhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhhh.eeeee..........hhhhhhhhhhhhhhhhhhhh....eeeee.......hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh....ee.......eeee.......eee.............eee.........hhhhh.....eeee......hhhhhhhhhhhhhh...hhhhhhhh..........hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeee......................hhhhhhhhhh..eeeeeeee....eeeeeeee.....eeeeeeeeee......hhhhhhh..eeeeee...eeeeeeeee........hhhhheeeeeeeeee..........eeeeeeeee...hhhhh......eeeeee....eeeeee....eeeeeee....eeeee....eee....eeeeeeeeeee...hhhhhhheeehhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4cvu A  26 GKASIHDLALQKWTVTNEYGNITVPGKFPSQAHLDLHAAGVIGESNNGLNDFDLRWIAAQNWTYTSKPISGLSKHSDIATWLVFDGLDTYATVKFCDHIVGTPDNQFRQWFYDVSSALASCKSDPVLSINFGSVPRIINAINASDEVQHWPASVVYPFEYPNRQWVRKEQNDFGWDWGPAFSPVGPWQPGRIVQLSKGGELYSLNTDIDIFRKGQFNNFAPDQTAPWVVNASLDFLGTLPKHASMSVIITDA----SVLYSGKLEGVTQSDMTVTGSVTIDAHKPKLWWPRDMGNQQLYNITVSVSSAGSKTPILVSQRRVGFRTILFSSGNITDAQIASGITPGNNWHFEINGHEFYAKGANLIPPDAFWPRVTSDRMNRLFDSVESQNFNMLRVWSSGTYLPDWIYDIADERGVLLWSEFQFSDTLYPDSDDFKANVVGEITYNVRRLNHHASLACWMGGNEFENLMLPIAQGADPATYPYVLGQYENLFITTLFNVLAANSHSISYSPCSANNGWLEIDLDLPVPIVERYYNTTSGHIYGDTDFYNYDTSVSFDTSAYPVGRFANEFGFISMPSIQTWQQAVDPEELSFNSTTVILRNHHYPAGGLTRNIHNSTLGQVEMTLAVERYYPTPDKTDPVANFSSWCHATQLFQADMYKSEIQFYRRGSGLPERQLGSLYWQLNDIWQAPTWAGLEYDGRWKVLPYVSRRTYEHVIASAFWNYTANELEIWVTSDLWEPVAGEVSLTWVDLKGKPIANNAGMTKSTKFNVGAINTTQIITANIQSDLKIPDTSDAVLVIELTAHGKLPNAASSKTTTFTHHNHFLPVWPNQAKVSDPKLHLSYNKSTKKFTVEATAGVSLYTWLTHPAGVLGFFDDNAFVLRPGEKKEVGFTLQQDTTGGKWTEQVTVESLWDLTTP 942
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275 |    |285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745       755       765       775       785       795       805       815       825       835       845       855       865       875       885       895       905       915       925       935       
                                                                                                                                                                                                                                                                                     277  282
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

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(no "SCOP Domain" information available for 4CVU)

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(no "CATH Domain" information available for 4CVU)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4CVU)

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    (no "Gene Ontology" information available for 4CVU)

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  4cvu
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  A0A075B5H6_T | A0A075B5H6
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        A0A075B5H6_T | A0A075B5H6: 4uoj

(-) Related Entries Specified in the PDB File

4uoj STRUCTURE OF FUNGAL BETA-MANNOSIDASE (GH2) FROM TRICHODERMA HARZIANUM