General information
PDB ID 4V1O
Title ARCHITECTURE OF THE RNA POLYMERASE II-MEDIATOR CORE TRANSCRIPTION INITIATION COMPLEX
PDB header TRANSCRIPTION
Date 2014-09-29
Experimental method ELECTRON MICROSCOPY
Resolution (A) 9.7
Kind hybrid
Organism SACCHAROMYCES CEREVISIAE, SYNTHETIC CONSTRUCT, SACCHAROMYCES MIKATAE
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
PRIDB
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb4v1o.pdb ABCDEFGHIJKLMOQRSUVWXYZ NT P 0
Biounits:
4v1o.pdb1.pdb ABCDEFGHIJKLMOQRSUVWXYZ NT P 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
RNA_pol_Rpb1_1 Domain P04050_11-340 3.2e-114 1 No_clan A 11 340   
RNA_pol_Rpb1_5 Domain P04050_807-1397 2.7e-92 1 No_clan A 807 1397 NT  L-Bb L-Mn 
RNA_pol_Rpb1_2 Domain P04050_342-507 1.7e-77 1 No_clan A 342 507 PT   
RNA_pol_Rpb1_6 Domain P04050_873-1056 2.4e-63 1 No_clan A 873 1056   
RNA_pol_Rpb1_3 Domain P04050_510-669 7.9e-47 1 No_clan A 510 669   
RNA_pol_Rpb1_7 Domain P04050_1141-1274 3.2e-37 1 No_clan A 1141 1274   
RNA_pol_Rpb1_4 Domain P04050_693-800 5.3e-35 1 No_clan A 693 800   
RNA_pol_Rpb2_6 Domain P08518_752-1124 1.6e-122 1 CL0410 B 752 1124 PT   
RNA_pol_Rpb2_2 Domain P08518_219-407 2.4e-51 1 No_clan B 219 407   
RNA_pol_Rpb2_7 Domain P08518_1126-1219 1.8e-33 1 No_clan B 1126 1219 T   
RNA_pol_Rpb2_4 Domain P08518_580-641 1.6e-25 1 No_clan B 580 641   
RNA_pol_Rpb2_3 Domain P08518_481-545 3.4e-20 1 No_clan B 481 545 P   
RNA_pol_Rpb2_5 Domain P08518_681-745 1.4e-19 1 No_clan B 681 745   
RNA_pol_A_bac Domain P16370_49-171 7.3e-32 1 No_clan C 49 171   
RNA_pol_L Domain P16370_19-255 6.6e-19 1 CL0509 C 19 255   
RNA_pol_Rpb5_C Domain P20434_142-214 1.6e-31 1 No_clan E 142 214   
RNA_pol_Rpb5_N Domain P20434_6-100 1.1e-29 1 CL0236 E 6 100   
S1 Domain P34087_80-161 6.2e-18 1 CL0021 G 80 161   
SHS2_Rpb7-N Domain P34087_8-79 2.6e-16 1 CL0319 G 8 79   
RNA_POL_M_15KD Domain P27999_4-41 1.2e-17 1 CL0167 I 4 41   
TFIIS_C Domain P27999_73-111 1.3e-14 1 CL0167 I 73 111   
RNA_pol_N Domain P22139_1-60 5.4e-30 1 No_clan J 1 60   
RNA_pol_L_2 Domain P38902_30-104 1.6e-24 1 CL0509 K 30 104   
DNA_RNApol_7kD Domain P40422_29-60 1.9e-16 1 CL0167 L 29 60   
TFIIB Domain P29055_133-203 1.4e-28 1 CL0065 M 133 203   
TFIIB Domain P29055_239-309 2.9e-13 1 CL0065 M 239 309 T  H-Bb H-Mj L-Bb L-Mj 
TF_Zn_Ribbon Domain P29055_22-66 5.7e-13 1 CL0167 M 22 66 T   
TBP Domain P13393_154-237 4.3e-33 1 CL0407 O 154 237 NT  S-Bb S-Mn L-Bb L-Mj L-Mn 
TBP Domain P13393_64-146 1.3e-32 1 CL0407 O 64 146 NT  S-Bb S-Mn L-Bb L-Mn 
Med18 Domain P32585_3-299 4.9e-47 1 CL0273 X 3 299   
RNA_pol_Rpb2_1 Family P08518_42-455 1.8e-74 1 No_clan B 42 455   
RNA_pol_Rpb4 Family P20433_49-218 8.6e-39 1 CL0426 D 49 218   
RNA_pol_Rpb6 Family P20435_79-132 7.3e-18 1 No_clan F 79 132   
RNA_pol_Rpb8 Family P20436_7-146 2.1e-42 1 CL0021 H 7 146   
TFIIF_alpha Family A0A0H2UKZ8_343-412 8.6e-10 1 CL0123 Q 133 412   
TFIIF_beta Family 2.5e-26 1 CL0123 R 58 213
Med6 Family P38782_9-195 4.3e-51 1 No_clan S 9 195   
Med8 Family P38304_31-210 7.3e-17 1 No_clan U 31 208   
Med11 Family Q99278_7-104 1.8e-12 1 No_clan V 7 104   
Med17 Family P32569_199-569 3.9e-113 1 No_clan W 199 569   
Med20 Family P34162_2-209 5.1e-40 1 CL0273 Y 3 209   
Med22 Family P32570_8-117 2e-13 1 No_clan Z 8 115   
SCOP domains
No SCOP domains
GO terms
No GO terms
Sequences
Download file with secondary structure created by Stride  
4v1o.pdb1.pdb:   [ download sequences in FASTA format ]
N (dna): 
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T (dna): 
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A (protein): 
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B (protein): 
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C (protein): 
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D (protein): 
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E (protein): 
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F (protein): 
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G (protein): 
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H (protein): 
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I (protein): 
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J (protein): 
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K (protein): 
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L (protein): 
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M (protein): 
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O (protein): 
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Q (protein): 
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R (protein): 
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S (protein): 
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U (protein): 
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V (protein): 
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W (protein): 
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X (protein): 
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Y (protein): 
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Z (protein): 
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P (rna): 
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