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(-) Description

Title :  CRYOEM STRUCTURE OF HK022 NUN - E.COLI RNA POLYMERASE ELONGATION COMPLEX
 
Authors :  J. Y. Kang, D. A. Seth
Date :  01 Feb 17  (Deposition) - 29 Mar 17  (Release) - 05 Apr 17  (Revision)
Method :  ELECTRON MICROSCOPY
Resolution :  3.74
Chains :  Asym./Biol. Unit :  A,B,G,H,I,J,K,N,R
Keywords :  Dna-Dependent Rna Polymerase, Bacterial Transcription, Ternary Elongation Complex, Transcription Arrest, Transcription-Dna-Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Y. Kang, P. D. Olinares, J. Chen, E. A. Campbell, A. Mustaev, B. T. Chait, M. E. Gottesman, S. A. Darst
Structural Basis Of Transcription Arrest By Coliphage Hk022 Nun In An Escherichia Coli Rna Polymerase Elongation Complex.
Elife V. 6 2017
PubMed-ID: 28318486  |  Reference-DOI: 10.7554/ELIFE.25478

(-) Compounds

Molecule 1 - DNA (29-MER)
    Chains: A
    Engineered: YES
    Organism Scientific: T7LIKEVIRUS
    Organism Taxid: 110456
    Other Details: NON-TEMPLATE
    Synthetic: YES
 
Molecule 2 - DNA (29-MER)
    Chains: B
    Engineered: YES
    Organism Scientific: T7LIKEVIRUS
    Organism Taxid: 110456
    Other Details: TEMPLATE
    Synthetic: YES
 
Molecule 3 - RNA (5'- R(*GP*CP*AP*UP*UP*CP*AP*AP*AP*GP*CP*GP*GP*AP*GP*AP*GP*GP*UP*A)-3')
    Chains: R
    Engineered: YES
    Organism Scientific: T7LIKEVIRUS
    Organism Taxid: 110456
    Synthetic: YES
 
Molecule 4 - DNA-DIRECTED RNA POLYMERASE SUBUNIT ALPHA
    Chains: G, H
    EC Number: 2.7.7.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: RPOA, PEZ, PHS, SEZ, B3295, JW3257
    Organism Scientific: ESCHERICHIA COLI (STRAIN K12)
    Organism Taxid: 83333
    Strain: K12
    Synonym: RNAP SUBUNIT ALPHA,RNA POLYMERASE SUBUNIT ALPHA, TRANSCRIPTASE SUBUNIT ALPHA
 
Molecule 5 - DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA
    Chains: I
    EC Number: 2.7.7.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: RPOB, GRON, NITB, RIF, RON, STL, STV, TABD, B3987, JW3950
    Organism Scientific: ESCHERICHIA COLI (STRAIN K12)
    Organism Taxid: 83333
    Strain: K12
    Synonym: RNAP SUBUNIT BETA,RNA POLYMERASE SUBUNIT BETA,TRANSCRIPTASE SUBUNIT BETA
 
Molecule 6 - DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA'
    Chains: J
    EC Number: 2.7.7.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: RPOC, TABB, B3988, JW3951
    Organism Scientific: ESCHERICHIA COLI (STRAIN K12)
    Organism Taxid: 83333
    Strain: K12
    Synonym: RNAP SUBUNIT BETA',RNA POLYMERASE SUBUNIT BETA', TRANSCRIPTASE SUBUNIT BETA'
 
Molecule 7 - DNA-DIRECTED RNA POLYMERASE SUBUNIT OMEGA
    Chains: K
    EC Number: 2.7.7.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: RPOZ, B3649, JW3624
    Organism Scientific: ESCHERICHIA COLI (STRAIN K12)
    Organism Taxid: 83333
    Strain: K12
    Synonym: RNAP OMEGA SUBUNIT,RNA POLYMERASE OMEGA SUBUNIT, TRANSCRIPTASE SUBUNIT OMEGA
 
Molecule 8 - TRANSCRIPTION TERMINATION FACTOR NUN
    Chains: N
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: ESCHERICHIA COLI (STRAIN K12)
    Organism Taxid: 83333
    Strain: K12

 Structural Features

(-) Chains, Units

  123456789
Asymmetric/Biological Unit : ABGHIJKNR

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1MG1Ligand/IonMAGNESIUM ION
2ZN2Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP J:462 , ASP J:464 , A R:20binding site for residue MG R 1501
2AC2SOFTWARECYS J:70 , CYS J:72 , CYS J:85 , CYS J:88binding site for residue ZN J 1501
3AC3SOFTWARECYS J:814 , ARG J:883 , CYS J:888 , CYS J:895 , CYS J:898binding site for residue ZN J 1502

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5UP6)

(-) Cis Peptide Bonds  (7, 7)

Asymmetric/Biological Unit
No.Residues
1Glu H:29 -Pro H:30
2Phe I:57 -Pro I:58
3Arg I:107 -Glu I:108
4Ala I:543 -Gly I:544
5Asp I:1160 -Leu I:1161
6Arg J:53 -Asp J:54
7Leu J:120 -Pro J:121

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5UP6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5UP6)

(-) Exons   (0, 0)

(no "Exon" information available for 5UP6)

(-) Sequences/Alignments

Asymmetric/Biological 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:DNA  Length:29
                                                              
                5up6 A    1 GGGCTACCTCTCCATGACGGCGAATACCC   29
                                    10        20         


Chain B from PDB  Type:DNA  Length:29
                                                              
                5up6 B    1 GGGTATTCGCCGTGTACCTCTCCTAGCCC   29
                                    10        20         


Chain G from PDB  Type:PROTEIN  Length:230
                                                                                                                                                                                                                                                                       
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........ee.....eeeeeeee..hhhhhhhhhhhhhhhhh.ee..eeeeee...............hhhhhhhhhhh..ee.....eeeeeee....eeee.hhh......ee.....eeeee.......eeeeeee.ee...hhhhhh..........eee.......eeeeeeeeee.........eeeeeeeee....hhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5up6 G    6 TEFLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLE  235
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235


Chain H from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......ee.........eeeeeeeee..hhhhhhhhhhhhhhhheeeeeeeeeeee...............hhhhhhhhhhhh.eee.....eeee.........hhhhh.....eee..................eeeeeeeeeeee.........ee...eeeeeeeeeee.......eeeeeeeeee....hhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5up6 H    6 TEFLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDL  234
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155  ||   177       187       197       207       217       227       
                                                                                                                                                                                  158|                                                               
                                                                                                                                                                                   171                                                               


Chain I from PDB  Type:PROTEIN  Length:1340
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhh...ee.............hhhhhhhhhhhh........hhhhhhhhhh.ee.....eeeeeeeeee.....hhhhhhhhh...eeeeeeeeeeeee.......eeeeee...eeeeeee..............eee.eeeee..eeeee..............eeeee......eeee.......eeee....eeehhhhhhhh..hhhhhhhhhh..eee.......eee..............eee..eeee......hhhhhhhhhhh...eee.hhhhhh..ee...ee......eee...ee.hhhhhhhhhhhh...eee.........hhhhhhhhhh...hhhhhhhhhhhhhh.....hhhhhhhhhhh.........hhhhhhhhhhhh............hhhhhhhhhhhhhhhhh.............eee.hhhhhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhhh...eee....hhhhhhhhh..ee.............hhhhh.hhhhh........................ee.....eeeeeeee....eeeeeeeehhhhhhhh.ee.....ee...ee...eeeee.....eeee.....eee.......hhhhhh..hhhhhhhhhhhhhhhhhhh...........ee.hhhhhhhhhh...ee....eeeeee...eeeeee............eeee....ee.....ee..ee............eeee...ee..ee...eeeeeee...........eeeehhhhhh......eeeeeeeeee..................................ee....eee..ee.........hhhhhhh.........ee..ee......eeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeeeeeee.........ee........eeeee......ee.......eee..hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh..............hhhhhhhhhhhh....ee.......hhhhhhhhhhhh......ee.ee...........eeeeeeeeee...hhhhhheee......................eehhhhhhhhhhh..hhhhhhhhh....hhhhhhhhhhhhhh.........hhhhhhhhhhhhhh.eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5up6 I    3 YSYTEKKRIRKDFGKRPQVLDVPYLLSIQLDSFQKFIEQDPEGQYGLEAAFRSVFPIQSYSGNSELQYVSYRLGEPVFDVQECQIRGVTYSAPLRVKLRLVIYEREAPEGTVKDIKEQEVYMGEIPLMTDNGTFVINGTERVIVSQLHRSPGVFFDSDKGKTHSSGKVLYNARIIPYRGSWLDFEFDPKDNLFVRIDRRRKLPATIILRALNYTTEQILDLFFEKVIFEIRDNKLQMELVPERLRGETASFDIEANGKVYVEKGRRITARHIRQLEKDDVKLIEVPVEYIAGKVVAKDYIDESTGELICAANMELSLDLLAKLSQSGHKRIETLFTNDLDHGPYISETLRVDPTNDRLSALVEIYRMMRPGEPPTREAAESLFENLFFSEDRYDLSAVGRMKFNRSLLREEIEGSGILSKDDIIDVMKKLIDIRNGKGEVDDIDHLGNRRIRSVGEMAENQFRVGLVRVERAVKERLSLGDLDTLMPQDMINAKPISAAVKEFFGSSQLSQFMDQNNPLSEITHKRRISALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLSVYAQTNEYGFLETPYRKVTDGVVTDEIHYLSAIEEGNYVIAQANSNLDEEGHFVEDLVTCRSKGESSLFSRDQVDYMDVSTQQVVSVGASLIPFLEHDDANRALMGANMQRQAVPTLRADKPLVGTGMERAVAVDSGVTAVAKRGGVVQYVDASRIVIKVNEDEMYPGEAGIDIYNLTKYTRSNQNTCINQMPCVSLGEPVERGDVLADGPSTDLGELALGQNMRVAFMPWNGYNFEDSILVSERVVQEDRFTTIHIQELACVSRDTKLGPEEITADIPNVGEAALSKLDESGIVYIGAEVTGGDILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDSSLRVPNGVSGTVIDVQVFTRDGVEKDKRALEIEEMQLKQAKKDLSEELQILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWLELGLTDEEKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDLAPGVLKIVKVYLAVKRRIQPGDKMAGRHGNKGVISKINPIEDMPYDENGTPVDIVLNPLGVPSRMNIGQILETHLGMAAKGIGDKINAMLKQQQEVAKLREFIQRAYDLGADVRQKVDLSTFSDEEVMRLAENLRKGMPIATPVFDGAKEAEIKELLKLGDLPTSGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKMYKNIVDGNHQMEPGMPESFNVLLKEIRSLGINIELEDE 1342
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722       732       742       752       762       772       782       792       802       812       822       832       842       852       862       872       882       892       902       912       922       932       942       952       962       972       982       992      1002      1012      1022      1032      1042      1052      1062      1072      1082      1092      1102      1112      1122      1132      1142      1152      1162      1172      1182      1192      1202      1212      1222      1232      1242      1252      1262      1272      1282      1292      1302      1312      1322      1332      1342


Chain J from PDB  Type:PROTEIN  Length:1334
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee.hhhhhhhhh.............................................................hhhhhh.eeeeeeeeee.hhhhhh..hhhhhhhh.hhhhhhhhhh....ee..............hhhhhhhhhhhh.....ee.hhhhhhhhhhhh.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh..hhhh.eeeeeee..................hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.....................hhhhhhh...hhhhhhh..ee...eee..ee..........eeehhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh.hhhhhhhhhhhh...ee.......hhhhh.ee..eee....ee..hhhhhh...........ee...hhhhhhhhhhh....................hhhhhhhhhhh...........ee.hhhhhhhhhhhh......eeeeeeeeee.......eeeeeeeeeehhhhhhhh......hhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh....hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee......ee....hhhhhhhhh....hhhhhhhhh..........................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............eee...........hhhhhhh..ee....................hhhhhhhhhhh....eeee...........hhhhhh.............hhhhhhhhhhhhhhhh...eeee....eeeee...eee.....eee.....eeeee.....eeeeee.....ee...........eeeee....eee.......eeeee.......eeee........eeee......hhhhhh...eeeee.................ee......................eee..hhhhhhhhhh.............eeeeee......eeeeee........eeee............ee...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhh.eeee..........eeehhhhhhhhh.............eee...hhhhhhhh...........hhhhhhhhhhhh..ee....hhhhhhhh......hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5up6 J   16 EFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCARIFGPVKDYECLCGKYKRLKHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLLLDMPLRDIERVLYFESYVVIEGGMTNLERQQILTEEQYLDALEEFGDEFDAKMGAEAIQALLKSMDLEQECEQLREELNETNSETKRKKLTKRIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTIKAAKKMVEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTRDCVNAKGEGMVLTGPKEAERLYRSGLASLHARVKVRITEYEKDANGELVAKTSLKDTTVGRAILWMIVPKGLPYSIVNQALGKKAISKMLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHEIISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEEKQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCGTHEGIMMTPVIEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRNTLLHEQWCDLLEENSVDAVKVRSVVSCDTDFGVCAHCYGRDLARGHIINKGEAIGVIAAQSIGEPGTQLTSSIQVKNKGSIKLSNVKSVVNSSGKLVITSRNTELKLIDEFGRTKESYKVPYGAVLAKGDGEQVAGGETVANWDPHTMPVITEVSGFVRFTDMIDGQTITRQTDELTGLSSLVVLDSAERTAGGKDLRPALKIVDAQGNDVLIPGTDMPAQYFLPGKAIVQLEDGVQISSGDTLARIPQGLPRVADLFEARRPKEPAILAEISGIVSFGKETKGKRRLVITPVDGSDPYEEMIPKWRQLNVFEGERVERGDVISDGPEAPHDILRLRGVHAVTRYIVNEVQDVYRLQGVKINDKHIEVIVRQMLRKATIVNAGSSDFLEGEQVEYSRVKIANRELEANGKVGATYSRDLLGITKASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKENVIVGRLIPAGTGYAYHQDRMRRRAA 1375
                                    25        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     ||951       961       971       981       991      1001      1011      1021      1031      1041      1051      1061      1071      1081      1091      1101      1111      1121    ||1141      1151      1161      1171      1181      1191      1201      1211      1221      1231      1241      1251      1261      1271      1281      1291      1301      1311      1321      1331      1341      1351      1361      1371    
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             931|                                                                                                                                                                              1126|                                                                                                                                                                                                                                              
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              948                                                                                                                                                                               1137                                                                                                                                                                                                                                              


Chain K from PDB  Type:PROTEIN  Length:79
                                                                                                                
               SCOP domains ------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhh...hhhhhhhhhhhhhhhh............hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------- Transcript
                5up6 K    2 ARVTVQDAVEKIGNRFDLVLVAARRARQMQVGGKDPLVPEENDKTTVIALREIEEGLINNQILDVRERQEQQEQEAAEL   80
                                    11        21        31        41        51        61        71         


Chain N from PDB  Type:PROTEIN  Length:23
                                                        
               SCOP domains ----------------------- SCOP domains
               CATH domains ----------------------- CATH domains
               Pfam domains ----------------------- Pfam domains
         Sec.struct. author ...hhhhh............... Sec.struct. author
                 SAPs(SNPs) ----------------------- SAPs(SNPs)
                    PROSITE ----------------------- PROSITE
                 Transcript ----------------------- Transcript
                5up6 N   87 KYEDVMHRVVNHAHQRNPNKKWS  109
                                    96       106   


Chain R from PDB  Type:DNA/RNA  Length:17
                                                  
                5up6 R    4 UUCAAAGCGGAGAGGUA   20
                                    13
   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  (0, 0)

(no "SCOP Domain" information available for 5UP6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5UP6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5UP6)

(-) Gene Ontology  (17, 44)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ala I:543 - Gly I:544   [ RasMol ]  
    Arg I:107 - Glu I:108   [ RasMol ]  
    Arg J:53 - Asp J:54   [ RasMol ]  
    Asp I:1160 - Leu I:1161   [ RasMol ]  
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    Phe I:57 - Pro I:58   [ RasMol ]  
 

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  5up6
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
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    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
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  RPOA_ECOLI | P0A7Z4
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  RPOB_ECOLI | P0A8V2
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  RPOC_ECOLI | P0A8T7
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  RPOZ_ECOLI | P0A800
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  VNUN_BPHK0 | P18683
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
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  2.7.7.6
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    Pathway: KEGG | MetaCyc
 
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  (no 'MIM ID' available)
    Disease Information: OMIM
 
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    Age Related Information: GenAge

(-) Analysis Tools

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    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
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Access by UniProt ID/Accession number
  RPOA_ECOLI | P0A7Z4
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  RPOB_ECOLI | P0A8V2
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  RPOC_ECOLI | P0A8T7
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  RPOZ_ECOLI | P0A800
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  VNUN_BPHK0 | P18683
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        RPOA_ECOLI | P0A7Z4: 1bdf 1coo 1lb2 1xs9 2jzb 3iyd 3k4g 3lu0 3n4m 3n97 4jk1 4jk2 4kmu 4kn4 4kn7 4mex 4mey 4s20 4xsx 4xsy 4xsz 4yg2 4yln 4ylo 4ylp 4zh2 4zh3 4zh4 5byh 5ciz 5ezk 5ipl 5ipm 5ipn 5ms0 5my1 5nsr 5nss 5uac 5uag 5uah 5uaj 5ual 5uaq 5upc 5vsw 5w1s 5w1t
        RPOB_ECOLI | P0A8V2: 3iyd 3lti 3lu0 3t72 3tbi 4jk1 4jk2 4kmu 4kn4 4kn7 4mex 4mey 4s20 4xsx 4xsy 4xsz 4yg2 4yln 4ylo 4ylp 4zh2 4zh3 4zh4 5byh 5ezk 5ipl 5ipm 5ipn 5ms0 5nsr 5nss 5uac 5uag 5uah 5uaj 5ual 5uaq 5upc 5vsw 5w1s 5w1t
        RPOC_ECOLI | P0A8T7: 2auk 2lmc 3iyd 3lu0 4iqz 4jk1 4jk2 4kmu 4kn4 4kn7 4mex 4mey 4xsx 4xsy 4xsz 4yg2 4yln 4ylo 4ylp 4zh2 4zh3 4zh4 5byh 5ezk 5ipl 5ipm 5ipn 5my1 5nsr 5nss 5uac 5uag 5uah 5uaj 5ual 5uaq 5upc 5vsw 5w1s 5w1t
        RPOZ_ECOLI | P0A800: 3iyd 3lu0 4jk1 4jk2 4kmu 4kn4 4kn7 4mex 4mey 4xsx 4xsy 4xsz 4yg2 4yln 4ylo 4ylp 4zh2 4zh3 4zh4 5byh 5ezk 5ipl 5ipm 5ipn 5ms0 5nsr 5nss 5uac 5uag 5uah 5uaj 5ual 5uaq 5upc 5vsw 5w1s 5w1t
        VNUN_BPHK0 | P18683: 1e4z 1hji

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5UP6)