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(-) Description

Title :  CRYSTAL STRUCTURE OF TTHA0252 FROM THERMUS THERMOPHILUS HB8 COMPLEXED WITH RNA ANALOG
 
Authors :  H. Ishikawa, N. Nakagawa, S. Kuramitus, S. Yokoyama, R. Masui
Date :  23 Jul 09  (Deposition) - 28 Jul 10  (Release) - 28 Jul 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B,C,D,G,H,I,J,K,L,M,N,O,P
Biol. Unit 1:  A,G,J,L,N  (1x)
Biol. Unit 2:  B,H,K  (1x)
Biol. Unit 3:  C,O,P  (1x)
Biol. Unit 4:  D,I,M  (1x)
Keywords :  Metallo Beta Lactamase Fold, Endonuclease, Hydrolase, Metal-Binding, Nuclease, Rna-Binding, Rrna Processing, Hydrolase-Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Ishikawa, N. Nakagawa, S. Kuramitsu, R. Masui
Crystal Structure Of Ttha0252 From Thermus Thermophilus Hb8 Complexed With Rna Analog
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - RIBONUCLEASE TTHA0252
    Chains: A, B, C, D
    EC Number: 3.1.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: TTHA0252
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 300852
    Strain: HB8
 
Molecule 2 - RNA (5'-R(*(SSU)P*(SSU)P*(SSU)P*(SSU)P*(SSU)P*(SSU))-3')
    Chains: G, H, I, J, K, L, M, N, O, P
    Engineered: YES
    Other Details: CHEMICALLY-SYNTHESIZED
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234567891011121314
Asymmetric Unit : ABCDGHIJKLMNOP
Biological Unit 1 (1x): A   G  J L N  
Biological Unit 2 (1x):  B   H  K     
Biological Unit 3 (1x):   C         OP
Biological Unit 4 (1x):    D  I   M   

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 103)

Asymmetric Unit (4, 103)
No.NameCountTypeFull Name
1FLC1Ligand/IonCITRATE ANION
2SO459Ligand/IonSULFATE ION
3SSU35Mod. NucleotideURIDINE-5'-PHOSPHOROTHIOATE
4ZN8Ligand/IonZINC ION
Biological Unit 1 (2, 33)
No.NameCountTypeFull Name
1FLC-1Ligand/IonCITRATE ANION
2SO417Ligand/IonSULFATE ION
3SSU16Mod. NucleotideURIDINE-5'-PHOSPHOROTHIOATE
4ZN-1Ligand/IonZINC ION
Biological Unit 2 (3, 27)
No.NameCountTypeFull Name
1FLC1Ligand/IonCITRATE ANION
2SO419Ligand/IonSULFATE ION
3SSU7Mod. NucleotideURIDINE-5'-PHOSPHOROTHIOATE
4ZN-1Ligand/IonZINC ION
Biological Unit 3 (2, 16)
No.NameCountTypeFull Name
1FLC-1Ligand/IonCITRATE ANION
2SO412Ligand/IonSULFATE ION
3SSU4Mod. NucleotideURIDINE-5'-PHOSPHOROTHIOATE
4ZN-1Ligand/IonZINC ION
Biological Unit 4 (2, 19)
No.NameCountTypeFull Name
1FLC-1Ligand/IonCITRATE ANION
2SO411Ligand/IonSULFATE ION
3SSU8Mod. NucleotideURIDINE-5'-PHOSPHOROTHIOATE
4ZN-1Ligand/IonZINC ION

(-) Sites  (67, 67)

Asymmetric Unit (67, 67)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:241 , HOH A:521 , SER B:330 , ASP B:331BINDING SITE FOR RESIDUE SO4 A 432
02AC2SOFTWAREARG A:192 , ARG A:195 , GLY A:375 , HOH A:491 , HOH A:529BINDING SITE FOR RESIDUE SO4 A 433
03AC3SOFTWARELYS A:298 , HIS A:323 , LYS A:326 , HIS A:327BINDING SITE FOR RESIDUE SO4 A 434
04AC4SOFTWAREARG A:198 , GLU A:199 , ARG A:202BINDING SITE FOR RESIDUE SO4 A 435
05AC5SOFTWAREARG A:77 , GLU A:113 , HIS A:117BINDING SITE FOR RESIDUE SO4 A 436
06AC6SOFTWAREPRO A:172 , ASP A:173 , SER A:269 , GLU A:270 , HOH A:490 , HOH A:500BINDING SITE FOR RESIDUE SO4 A 437
07AC7SOFTWAREARG A:24 , LEU A:129 , GLY A:130 , HOH A:507BINDING SITE FOR RESIDUE SO4 A 438
08AC8SOFTWAREPRO A:304 , ASP A:331 , ARG A:333BINDING SITE FOR RESIDUE SO4 A 439
09AC9SOFTWAREARG A:195 , GLU A:199 , LYS D:326 , HIS D:327 , SER D:330BINDING SITE FOR RESIDUE SO4 A 440
10BC1SOFTWAREHIS A:61 , LEU A:142 , PHE A:223 , VAL A:225 , GLU A:226 , ARG A:227 , SSU G:4 , HOH G:97BINDING SITE FOR RESIDUE SO4 A 441
11BC2SOFTWAREARG A:202 , HIS A:238 , HIS A:240 , ARG A:241 , PRO B:366 , ARG B:368BINDING SITE FOR RESIDUE SO4 A 442
12BC3SOFTWAREPRO A:252 , MET A:253 , ARG A:256 , SSU G:6BINDING SITE FOR RESIDUE SO4 A 443
13BC4SOFTWAREHIS A:293 , THR A:294 , GLU A:295 , SSU G:6BINDING SITE FOR RESIDUE SO4 A 444
14BC5SOFTWAREARG A:368BINDING SITE FOR RESIDUE SO4 A 445
15BC6SOFTWARETYR A:248 , GLU A:289 , ALA A:296 , TYR B:248 , GLU B:289 , HOH B:496BINDING SITE FOR RESIDUE SO4 A 446
16BC7SOFTWAREMET A:1 , ARG A:2 , HOH A:498BINDING SITE FOR RESIDUE SO4 A 447
17BC8SOFTWAREASP A:63 , HIS A:64 , ASP A:162 , HIS A:400 , ZN A:449 , SSU G:3BINDING SITE FOR RESIDUE ZN A 448
18BC9SOFTWAREHIS A:59 , HIS A:61 , HIS A:141 , ASP A:162 , ZN A:448 , SSU G:3BINDING SITE FOR RESIDUE ZN A 449
19CC1SOFTWAREPRO B:243 , ARG B:244BINDING SITE FOR RESIDUE SO4 B 432
20CC2SOFTWAREARG B:24BINDING SITE FOR RESIDUE SO4 B 433
21CC3SOFTWAREARG B:84 , ARG B:263BINDING SITE FOR RESIDUE SO4 B 434
22CC4SOFTWAREARG B:354 , SO4 B:448BINDING SITE FOR RESIDUE SO4 B 435
23CC5SOFTWARETYR B:189 , ARG B:227 , GLY B:340 , TYR B:341 , SER B:378 , GLY B:379 , SSU K:1BINDING SITE FOR RESIDUE SO4 B 436
24CC6SOFTWARELEU B:387 , LEU B:412BINDING SITE FOR RESIDUE SO4 B 437
25CC7SOFTWAREARG B:24 , LEU B:129 , GLY B:130BINDING SITE FOR RESIDUE SO4 B 438
26CC8SOFTWAREARG B:195 , GLY B:375 , GLY B:376 , HOH B:500BINDING SITE FOR RESIDUE SO4 B 439
27CC9SOFTWAREHIS B:372 , THR B:373 , SO4 B:441BINDING SITE FOR RESIDUE SO4 B 440
28DC1SOFTWAREILE B:352 , ARG B:354 , VAL B:371 , SO4 B:440 , SO4 B:448BINDING SITE FOR RESIDUE SO4 B 441
29DC2SOFTWAREPRO B:172 , ASP B:173 , SER B:269 , GLU B:270BINDING SITE FOR RESIDUE SO4 B 442
30DC3SOFTWARESER B:370 , HIS B:372 , SO4 B:448BINDING SITE FOR RESIDUE SO4 B 443
31DC4SOFTWAREARG B:320 , HOH B:517 , HOH K:524BINDING SITE FOR RESIDUE SO4 B 444
32DC5SOFTWAREHIS B:293 , THR B:294 , GLU B:295 , HOH B:517 , SSU L:2BINDING SITE FOR RESIDUE SO4 B 445
33DC6SOFTWAREARG B:359 , LEU B:361 , HOH B:464BINDING SITE FOR RESIDUE SO4 B 446
34DC7SOFTWAREARG A:244 , LYS B:298BINDING SITE FOR RESIDUE SO4 B 447
35DC8SOFTWAREARG B:354 , ALA B:369 , SER B:370 , VAL B:371 , SO4 B:435 , SO4 B:441 , SO4 B:443BINDING SITE FOR RESIDUE SO4 B 448
36DC9SOFTWAREARG A:244 , HIS B:323 , LYS B:326 , HIS B:327BINDING SITE FOR RESIDUE SO4 B 449
37EC1SOFTWARELEU A:407 , GLY A:410 , LYS A:411 , LEU B:407 , GLY B:410 , LYS B:411BINDING SITE FOR RESIDUE FLC B 450
38EC2SOFTWAREASP B:63 , HIS B:64 , ASP B:162 , HIS B:400 , ZN B:452 , SSU K:1BINDING SITE FOR RESIDUE ZN B 451
39EC3SOFTWAREHIS B:59 , HIS B:61 , HIS B:141 , ASP B:162 , ZN B:451 , SSU K:1BINDING SITE FOR RESIDUE ZN B 452
40EC4SOFTWAREVAL C:291 , GLU C:292 , HIS C:293BINDING SITE FOR RESIDUE SO4 C 432
41EC5SOFTWAREARG C:354BINDING SITE FOR RESIDUE SO4 C 433
42EC6SOFTWAREARG C:24 , LEU C:129 , GLY C:130BINDING SITE FOR RESIDUE SO4 C 434
43EC7SOFTWAREARG C:84 , LEU C:88 , ARG C:263 , ARG C:266BINDING SITE FOR RESIDUE SO4 C 435
44EC8SOFTWAREARG C:155BINDING SITE FOR RESIDUE SO4 C 436
45EC9SOFTWAREARG C:10 , ARG C:424BINDING SITE FOR RESIDUE SO4 C 437
46FC1SOFTWAREARG A:73 , ARG C:424BINDING SITE FOR RESIDUE SO4 C 438
47FC2SOFTWARELEU C:171 , PRO C:172 , ASP C:173 , SER C:269 , GLU C:270BINDING SITE FOR RESIDUE SO4 C 439
48FC3SOFTWAREGLU C:153 , HOH C:461BINDING SITE FOR RESIDUE SO4 C 440
49FC4SOFTWAREHIS C:42 , PRO C:104 , PHE C:105BINDING SITE FOR RESIDUE SO4 C 441
50FC5SOFTWARETYR C:189 , ARG C:227 , GLY C:340 , TYR C:341 , SER C:378 , GLY C:379 , SSU P:1BINDING SITE FOR RESIDUE SO4 C 442
51FC6SOFTWAREARG A:73 , ARG C:424BINDING SITE FOR RESIDUE SO4 C 443
52FC7SOFTWAREASP C:63 , HIS C:64 , ASP C:162 , HIS C:400 , ZN C:445BINDING SITE FOR RESIDUE ZN C 444
53FC8SOFTWAREHIS C:59 , HIS C:61 , HIS C:141 , ASP C:162 , ZN C:444BINDING SITE FOR RESIDUE ZN C 445
54FC9SOFTWAREARG D:263BINDING SITE FOR RESIDUE SO4 D 432
55GC1SOFTWAREPRO D:366 , ARG D:368BINDING SITE FOR RESIDUE SO4 D 433
56GC2SOFTWAREARG D:24 , ARG D:128 , LEU D:129 , GLY D:130BINDING SITE FOR RESIDUE SO4 D 435
57GC3SOFTWAREARG A:84 , PRO A:120 , GLU A:122 , ARG A:266 , GLU D:270 , HOH D:446BINDING SITE FOR RESIDUE SO4 D 436
58GC4SOFTWAREARG D:155BINDING SITE FOR RESIDUE SO4 D 437
59GC5SOFTWAREPRO D:172 , ASP D:173 , SER D:269 , GLU D:270 , HOH D:467BINDING SITE FOR RESIDUE SO4 D 438
60GC6SOFTWARELYS D:298 , HIS D:323 , LYS D:326 , HIS D:327BINDING SITE FOR RESIDUE SO4 D 439
61GC7SOFTWAREHIS D:42 , PHE D:105 , HOH D:461BINDING SITE FOR RESIDUE SO4 D 440
62GC8SOFTWAREMET D:1 , ARG D:2BINDING SITE FOR RESIDUE SO4 D 441
63GC9SOFTWAREARG D:77 , GLU D:113 , HIS D:117BINDING SITE FOR RESIDUE SO4 D 442
64HC1SOFTWAREASP D:63 , HIS D:64 , ASP D:162 , HIS D:400 , ZN D:444 , SSU I:3BINDING SITE FOR RESIDUE ZN D 443
65HC2SOFTWAREHIS D:59 , HIS D:61 , HIS D:141 , ASP D:162 , ZN D:443 , SSU I:3BINDING SITE FOR RESIDUE ZN D 444
66HC3SOFTWARESSU J:3BINDING SITE FOR RESIDUE SO4 J 40
67HC4SOFTWARESSU K:3 , HOH K:227 , HOH K:524BINDING SITE FOR RESIDUE SO4 K 36

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3IEM)

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Gly A:305 -Pro A:306
2Gly A:312 -Ser A:313
3Gly B:305 -Pro B:306
4Gly B:312 -Ser B:313
5Gly C:305 -Pro C:306
6Gly C:312 -Ser C:313
7Gly D:305 -Pro D:306
8Gly D:312 -Ser D:313

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3IEM)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3IEM)

(-) Exons   (0, 0)

(no "Exon" information available for 3IEM)

(-) 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:431
 aligned with RNSE_THET8 | Q5SLP1 from UniProtKB/Swiss-Prot  Length:431

    Alignment length:431
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430 
           RNSE_THET8     1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLEDALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFVVAQGEGRTLVYSGDLGNREKDVLPDPSLPPLADLVLAEGTYGDRPHRPYRETVREFLEILEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLPRAPIYLDSPMAGRVLSLYPRLVRYFSEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLKHGLSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGHAGQDELLDWLQGEPRVVLVHGEEEKLLALGKLLALRGQEVSLARFGEGVPV 431
               SCOP domains d3iema_ A: Putative RNA-degradation protein TTHA0252                                                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee...........eeeee..eeeee........hhhhhhh....hhhhh.eee....hhhhhhhhhhhhhh.....eeehhhhhhhhhhhhhhhhhh......hhhhhhhhhh.eee......eee..eeeeeee.......eeeeeee..eeeee......................eeeee.........hhhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhhhh....eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhh.........eee..hhhhhhhhhhh...eeeee.......hhhhhhhhhhh.....eeee.......hhhhhhhh...eee....eee...eeee.hhhh...hhhhhhhhhh...eeeee..hhhhhhhhhhhhhhh..eeee......ee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3iem A   1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLEDALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFVVAQGEGRTLVYSGDLGNREKDVLPDPSLPPLADLVLAEGTYGDRPHRPYRETVREFLEILEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLPRAPIYLDSPMAGRVLSLYPRLVRYFSEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLKHGLSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGHAGQDELLDWLQGEPRVVLVHGEEEKLLALGKLLALRGQEVSLARFGEGVPV 431
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430 


Chain B from PDB  Type:PROTEIN  Length:431
 aligned with RNSE_THET8 | Q5SLP1 from UniProtKB/Swiss-Prot  Length:431

    Alignment length:431
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430 
           RNSE_THET8     1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLEDALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFVVAQGEGRTLVYSGDLGNREKDVLPDPSLPPLADLVLAEGTYGDRPHRPYRETVREFLEILEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLPRAPIYLDSPMAGRVLSLYPRLVRYFSEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLKHGLSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGHAGQDELLDWLQGEPRVVLVHGEEEKLLALGKLLALRGQEVSLARFGEGVPV 431
               SCOP domains d3iemb_ B: Putative RNA-degradation protein TTHA0252                                                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee...........eeeee..eeeee........hhhhhh.....hhhhh.eee....hhhhhhhhhhhhhh.....eeehhhhhhhhhhhhhhhhhhh.....hhhhhhhhhh.eee.....eeee..eeeeeee.......eeeeeee..eeeee......................eeeee.........hhhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhh.........eeeehhhhhhhhhhhhhhhhhhhhhhhhhhh..........eee..hhhhhhhhhhh...eeeee.......hhhhhhhhh.......eeee.......hhhhhhhh...eeee..eeee...eeee.hhhh...hhhhhhhhhh...eeeee..hhhhhhhhhhhhhhh..eeee......ee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3iem B   1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLEDALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFVVAQGEGRTLVYSGDLGNREKDVLPDPSLPPLADLVLAEGTYGDRPHRPYRETVREFLEILEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLPRAPIYLDSPMAGRVLSLYPRLVRYFSEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLKHGLSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGHAGQDELLDWLQGEPRVVLVHGEEEKLLALGKLLALRGQEVSLARFGEGVPV 431
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430 


Chain C from PDB  Type:PROTEIN  Length:431
 aligned with RNSE_THET8 | Q5SLP1 from UniProtKB/Swiss-Prot  Length:431

    Alignment length:431
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430 
           RNSE_THET8     1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLEDALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFVVAQGEGRTLVYSGDLGNREKDVLPDPSLPPLADLVLAEGTYGDRPHRPYRETVREFLEILEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLPRAPIYLDSPMAGRVLSLYPRLVRYFSEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLKHGLSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGHAGQDELLDWLQGEPRVVLVHGEEEKLLALGKLLALRGQEVSLARFGEGVPV 431
               SCOP domains d3iemc_ C: Putative RNA-degradation protein TTHA0252                                                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee...........eeeee..eeeee.....hhhhhhhhhh....hhhhh.eee....hhhhhhhhhhhhhh.....eeehhhhhhhhhhhhhhhh.........hhhhhhhhh.eee......eee..eeeeeee.......eeeeeee..eeeee......................eeee..........hhhhhhhhhhhhhhhhhh....eeee....hhhhhhhhhhhh.........eeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhh........eee..hhhhhhhhhhh....eeee.......................eeee..................eee....eee...eeee........hhhhhhhhh....eeee...hhhhhhhhhhhhhhh..eeee......ee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3iem C   1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLEDALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFVVAQGEGRTLVYSGDLGNREKDVLPDPSLPPLADLVLAEGTYGDRPHRPYRETVREFLEILEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLPRAPIYLDSPMAGRVLSLYPRLVRYFSEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLKHGLSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGHAGQDELLDWLQGEPRVVLVHGEEEKLLALGKLLALRGQEVSLARFGEGVPV 431
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430 


Chain D from PDB  Type:PROTEIN  Length:431
 aligned with RNSE_THET8 | Q5SLP1 from UniProtKB/Swiss-Prot  Length:431

    Alignment length:431
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430 
           RNSE_THET8     1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLEDALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFVVAQGEGRTLVYSGDLGNREKDVLPDPSLPPLADLVLAEGTYGDRPHRPYRETVREFLEILEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLPRAPIYLDSPMAGRVLSLYPRLVRYFSEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLKHGLSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGHAGQDELLDWLQGEPRVVLVHGEEEKLLALGKLLALRGQEVSLARFGEGVPV 431
               SCOP domains d3iemd_ D: Putative RNA-degradation protein TTHA0252                                                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee...........eeeee..eeeee........hhhhhhh....hhhhh.eee....hhhhhhhhhhhhhh.....eeehhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhheee......eee..eeeeeee.......eeeeeee..eeeee......................eeeee.........hhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhh.........eeeehhhhhhhhhhhhhhhhhhhhhhhhhhhh.........eee..hhhhhhhhhhh...eeeee.......hhhhhhhhh.......eeee.......hhhhhhh....eeee..eeee...eeee.hhhh...hhhhhhhhhh....eeee..hhhhhhhhhhhhhh.............ee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3iem D   1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKLFREGYRGPVYATRATVLLMEIVLEDALKVMDEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFGQAGHLPGSAFVVAQGEGRTLVYSGDLGNREKDVLPDPSLPPLADLVLAEGTYGDRPHRPYRETVREFLEILEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLPRAPIYLDSPMAGRVLSLYPRLVRYFSEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLKHGLSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGHAGQDELLDWLQGEPRVVLVHGEEEKLLALGKLLALRGQEVSLARFGEGVPV 431
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430 


Chain G from PDB  Type:DNA/RNA  Length:6
                                      
                 3iem G   1 uuuuuu   6
                            ||||||
                            1-SSU|
                             2-SSU
                              3-SSU
                               4-SSU
                                5-SSU
                                 6-SSU


Chain H from PDB  Type:DNA/RNA  Length:4
                                    
                 3iem H   1 uuuu   4
                            ||||
                            ||||
                            1-SSU
                             2-SSU
                              3-SSU
                               4-SSU


Chain I from PDB  Type:DNA/RNA  Length:6
                                      
                 3iem I   1 uuuuuu   6
                            ||||||
                            ||||||
                            1-SSU|
                             2-SSU
                              3-SSU
                               4-SSU
                                5-SSU
                                 6-SSU


Chain J from PDB  Type:DNA/RNA  Length:3
                                   
                 3iem J   1 uuu   3
                            |||
                            |||
                            1-SSU
                             2-SSU
                              3-SSU


Chain K from PDB  Type:RNA  Length:3
                                   
                 3iem K   1 uuu   3
                            |||
                            |||
                            1-SSU
                             2-SSU
                              3-SSU


Chain L from PDB  Type:DNA/RNA  Length:4
                                    
                 3iem L   1 uuuu   4
                            ||||
                            ||||
                            1-SSU
                             2-SSU
                              3-SSU
                               4-SSU


Chain M from PDB  Type:DNA/RNA  Length:2
                                  
                 3iem M   1 uu   2
                            ||
                            ||
                            1-SSU
                             2-SSU


Chain N from PDB  Type:DNA/RNA  Length:3
                                   
                 3iem N   1 uuu   3
                            |||
                            |||
                            1-SSU
                             2-SSU
                              3-SSU


Chain O from PDB  Type:RNA  Length:2
                                  
                 3iem O   1 uu   2
                            ||
                            ||
                            1-SSU
                             2-SSU


Chain P from PDB  Type:DNA/RNA  Length:2
                                  
                 3iem P   1 uu   2
                            ||
                            ||
                            1-SSU
                             2-SSU
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 4)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3IEM)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3IEM)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (RNSE_THET8 | Q5SLP1)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0004519    endonuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids by creating internal breaks.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004518    nuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids.
biological process
    GO:0090305    nucleic acid phosphodiester bond hydrolysis    The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.
    GO:0006364    rRNA processing    Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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  3iem
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  RNSE_THET8 | Q5SLP1
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  3.1.-.-
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 Related Entries

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

UniProtKB/Swiss-Prot
        RNSE_THET8 | Q5SLP1: 2dkf 3a4y 3idz 3ie0 3ie1 3ie2 3iek 3iel

(-) Related Entries Specified in the PDB File

2dkf SELENOMETHIONINE DERIVATIVE
3a4y H61A MUTANT
3idz S378Q MUTANT
3ie0 S378Y MUTANT
3ie1 H380A MUTANT COMPLEXED WITH RNA
3ie2 H400V MUTANT
3iek NATIVE
3iel COMPLEXED WITH UMP