University of California San Francisco | About UCSF | UCSF Benioff Children's Hospital San Francisco

ModBase: Database of Comparative Protein Structure Models

Model Details Page

Sequence Information

Primary Database Link P09155.1
Original Database ID ref NP_416318.1
Organism Escherichia coli, Shigella boydii, etc.
Annotation rnd_ecoli recname: full=ribonuclease
d; short=rnase d
Sequence Length 375

Dataset Information:

The newest dataset for this sequence was created on 2016-11-09. If you think that a better template has been added to the template database since, you can start a new calculation.

The calculation typically takes 1-2 days, and the results will be added to this page. Registered users will receive an email notification.

Information for additional models of this sequences are available by clicking on the model thumbnails below.  

Model Information

Perform action on this model:

Quality criteria indicate whether the model is considered
reliable (green) or unreliable (red).
 
Target Region1-375
Protein Length375
Template PDB Code1yt3A
Template Region1-375
Sequence Identity100%
E-Value0
GA3411
MPQS2.2206
z-DOPE-1.27
TSVMod MethodMTALL
TSVMod RMSD0.239
TSVMod NO350.999
DatasetMW-e_coli_D1
ModPipe VersionSVN.r1602
Model Date2016-11-09

Mouse over the images for more information

Sequence Model Coverage Summary
for all Models of this Sequence:

Filtered models for current sequence (Show all models)

 

Cross-references

Show obsolete/secondary identifiers
Template Structure
PDB1yt3crystal structure of escherichia coli rnase d, an exoribonuclease involved in structured rna processing
DBALI1yt3A 
JenaImageLibrary1yt3 
Target Sequence
UniProtKBP09155RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProP09155 
PFAMP09155 
ProdomP09155 
UniProtKBM2NU42RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProM2NU42 
PFAMM2NU42 
ProdomM2NU42 
UniProtKBE6NY91RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProE6NY91 
PFAME6NY91 
ProdomE6NY91 
UniProtKBE3PNI8RecName: Full=Ribonuclease D {ECO:0000256|HAMAP-Rule:MF_01899, ECO:0000313|EMBL:CBJ01340.1};Short=RNase D {ECO:0000256|HAMAP-Rule:MF_01899};EC=3.1.13.5 {ECO:0000256|HAMAP-Rule:MF_01899};
InterProE3PNI8 
PFAME3PNI8 
ProdomE3PNI8 
UniProtKBD8BS98RecName: Full=Ribonuclease D {ECO:0000256|HAMAP-Rule:MF_01899};Short=RNase D {ECO:0000256|HAMAP-Rule:MF_01899};EC=3.1.13.5 {ECO:0000256|HAMAP-Rule:MF_01899};
InterProD8BS98 
PFAMD8BS98 
ProdomD8BS98 
UniProtKBC4ZZG0RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProC4ZZG0 
PFAMC4ZZG0 
ProdomC4ZZG0 
UniProtKBA0A0E3KMM7RecName: Full=Ribonuclease D {ECO:0000256|HAMAP-Rule:MF_01899};Short=RNase D {ECO:0000256|HAMAP-Rule:MF_01899};EC=3.1.13.5 {ECO:0000256|HAMAP-Rule:MF_01899};
InterProA0A0E3KMM7 
PFAMA0A0E3KMM7 
ProdomA0A0E3KMM7 
UniProtKBA0A080FBJ3RecName: Full=Ribonuclease D {ECO:0000256|HAMAP-Rule:MF_01899};Short=RNase D {ECO:0000256|HAMAP-Rule:MF_01899};EC=3.1.13.5 {ECO:0000256|HAMAP-Rule:MF_01899};
InterProA0A080FBJ3 
PFAMA0A080FBJ3 
ProdomA0A080FBJ3 
UniProtKBA0A080EID6RecName: Full=Ribonuclease D {ECO:0000256|HAMAP-Rule:MF_01899};Short=RNase D {ECO:0000256|HAMAP-Rule:MF_01899};EC=3.1.13.5 {ECO:0000256|HAMAP-Rule:MF_01899};
InterProA0A080EID6 
PFAMA0A080EID6 
ProdomA0A080EID6 
UniProtKBA0A070YM76RecName: Full=Ribonuclease D {ECO:0000256|HAMAP-Rule:MF_01899};Short=RNase D {ECO:0000256|HAMAP-Rule:MF_01899};EC=3.1.13.5 {ECO:0000256|HAMAP-Rule:MF_01899};
InterProA0A070YM76 
PFAMA0A070YM76 
ProdomA0A070YM76 
UniProtKBB1XGR4RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProB1XGR4 
PFAMB1XGR4 
ProdomB1XGR4 
UniProtKBF9QV71RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProF9QV71 
PFAMF9QV71 
ProdomF9QV71 
UniProtKBA0A024KVQ9RecName: Full=Ribonuclease D {ECO:0000256|HAMAP-Rule:MF_01899};Short=RNase D {ECO:0000256|HAMAP-Rule:MF_01899};EC=3.1.13.5 {ECO:0000256|HAMAP-Rule:MF_01899};
InterProA0A024KVQ9 
PFAMA0A024KVQ9 
ProdomA0A024KVQ9 
UniProtKBH0Q8L4RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProH0Q8L4 
PFAMH0Q8L4 
ProdomH0Q8L4 
UniProtKBI2IA07RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProI2IA07 
PFAMI2IA07 
ProdomI2IA07 
UniProtKBG2EXQ5RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProG2EXQ5 
PFAMG2EXQ5 
ProdomG2EXQ5 
UniProtKBM9KH35RecName: Full=Ribonuclease D {ECO:0000256|HAMAP-Rule:MF_01899};Short=RNase D {ECO:0000256|HAMAP-Rule:MF_01899};EC=3.1.13.5 {ECO:0000256|HAMAP-Rule:MF_01899};
InterProM9KH35 
PFAMM9KH35 
ProdomM9KH35 
UniProtKBN2PKH7RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProN2PKH7 
PFAMN2PKH7 
ProdomN2PKH7 
UniProtKBN2V459RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProN2V459 
PFAMN2V459 
ProdomN2V459 
UniProtKBG2AVS4RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProG2AVS4 
PFAMG2AVS4 
ProdomG2AVS4 
UniProtKBI2IA07SubName: Full=Ribonuclease D;
InterProI2IA07 
PFAMI2IA07 
ProdomI2IA07 
UniProtKBA0A1R1K5T7Ribonuclease D {ECO:0000256|HAMAP-Rule:MF_01899}Short=RNase D {ECO:0000256|HAMAP-Rule:MF_01899}EC=3.1.13.5 {ECO:0000256|HAMAP-Rule:MF_01899}
InterProA0A1R1K5T7 
PFAMA0A1R1K5T7 
ProdomA0A1R1K5T7 
UniProtKBA0A1S9J836Ribonuclease D {ECO:0000256|HAMAP-Rule:MF_01899}Short=RNase D {ECO:0000256|HAMAP-Rule:MF_01899}EC=3.1.13.5 {ECO:0000256|HAMAP-Rule:MF_01899}
InterProA0A1S9J836 
PFAMA0A1S9J836 
ProdomA0A1S9J836 
UniProtKBA0A3Y2RRU4SubName: Full=Ribonuclease D {ECO:0000313|EMBL:EAB6514433.1}EC=3.1.13.5 {ECO:0000313|EMBL:EAB6514433.1}
InterProA0A3Y2RRU4 
PFAMA0A3Y2RRU4 
ProdomA0A3Y2RRU4 
UniProtKBA0A5B7MQ32Ribonuclease D {ECO:0000256|HAMAP-Rule:MF_01899}Short=RNase D {ECO:0000256|HAMAP-Rule:MF_01899}EC=3.1.13.5 {ECO:0000256|HAMAP-Rule:MF_01899}
InterProA0A5B7MQ32 
PFAMA0A5B7MQ32 
ProdomA0A5B7MQ32 
UniProtKBA0A5E8FNR6Ribonuclease D {ECO:0000256|HAMAP-Rule:MF_01899}Short=RNase D {ECO:0000256|HAMAP-Rule:MF_01899}EC=3.1.13.5 {ECO:0000256|HAMAP-Rule:MF_01899}
InterProA0A5E8FNR6 
PFAMA0A5E8FNR6 
ProdomA0A5E8FNR6 
UniProtKBB1XGR4RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProB1XGR4 
PFAMB1XGR4 
ProdomB1XGR4 
UniProtKBC4ZZG0RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProC4ZZG0 
PFAMC4ZZG0 
ProdomC4ZZG0 
UniProtKBH0Q8L4RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProH0Q8L4 
PFAMH0Q8L4 
ProdomH0Q8L4 
UniProtKBD8BS98RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProD8BS98 
PFAMD8BS98 
ProdomD8BS98 
UniProtKBE3PNI8RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProE3PNI8 
PFAME3PNI8 
ProdomE3PNI8 
UniProtKBG2EXQ5RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProG2EXQ5 
PFAMG2EXQ5 
ProdomG2EXQ5 
UniProtKBE6NY91RecName: Full=Ribonuclease D 2;Short=RNase D 2;EC=3.1.13.5;
InterProE6NY91 
PFAME6NY91 
ProdomE6NY91 
UniProtKBG2AVS4RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProG2AVS4 
PFAMG2AVS4 
ProdomG2AVS4 
UniProtKBF9QV71RecName: Full=Ribonuclease D;Short=RNase D;EC=3.1.13.5;
InterProF9QV71 
PFAMF9QV71 
ProdomF9QV71 
UniProtKBP09155.1RND_ECOLI RecName: Full=Ribonuclease D; Short=RNase D
InterProP09155.1 
PFAMP09155.1 
ProdomP09155.1 
UniProtKBP09155RecName: Full=Ribonuclease D {ECO:0000255|HAMAP-Rule:MF_01899};Short=RNase D {ECO:0000255|HAMAP-Rule:MF_01899};EC=3.1.13.5 {ECO:0000255|HAMAP-Rule:MF_01899};
InterProP09155 
PFAMP09155 
ProdomP09155 
RefSeqAP_002423.1 ribonuclease D [Escherichia coli str. K-12 substr. W3110]
RefSeqYP_002926814.1 ribonuclease D [Escherichia coli BW2952]
RefSeqYP_001730780.1 ribonuclease D [Escherichia coli str. K-12 substr. DH10B]
RefSeqZP_07183546.1 ribonuclease D [Escherichia coli MS 196-1]
RefSeqNP_416318.1 ribonuclease D [Escherichia coli str. K-12 substr. MG1655]
1410308A1410308A ribonuclease D
PDB1YT3AChain A, Crystal Structure Of Escherichia Coli Rnase D, An Exoribonuclease Involved In Structured Rna Processing
PDB1YT3A Chain A, Crystal Structure Of Escherichia Coli Rnase D, An Exoribonuclease Involved In Structured Rna Processing
GenPept238901018 ribonuclease D [Escherichia coli BW2952]
GenPept238863466ribonuclease D
GenPept299882254 ribonuclease D [Escherichia coli MS 196-1]
GenPept301019362 ribonuclease D [Escherichia coli MS 196-1]
GenPept1736427ribonuclease D
GenPept1788105ribonuclease D
GenPept1736437Ribonuclease D (EC 3.1.13.-
GenPept170081460 ribonuclease D [Escherichia coli str. K-12 substr. DH10B]
GenPept2260931410308A ribonuclease D
GenPept169889295ribonuclease D
GenPept16129758 ribonuclease D [Escherichia coli str. K-12 substr. MG1655]
GenPept801068325ribonuclease D
GenPept133152RND_ECOLI RecName: Full=Ribonuclease D; Short=RNase D
GenPept309702026ribonuclease D
GenPept315136445ribonuclease D
GenPept359332281ribonuclease D
GenPept687672667RNase D
GenPept687676960RNase D
GenPept730583003ribonuclease D
GenPept731470732ribonuclease D
GenPept75765643A Chain A, Crystal Structure Of Escherichia Coli Rnase D, An Exoribonuclease Involved In Structured Rna Processing
GenPept802135277ribonuclease D
GenPept817575092ribonuclease D
GenPept817583373ribonuclease D
GenPept89108643 ribonuclease D [Escherichia coli str. K-12 substr. W3110]
GenPept817591654ribonuclease D
GenPept682119317ribonuclease D
GenPept817587514ribonuclease D
GenPept549813268ribonuclease D
GenPept557272129ribonuclease D
GenPept581215unnamed protein product
GenPept665436161Ribonuclease D
GenPept817579234ribonuclease D
GenPept67284NRECD ribonuclease III (EC 3.1.26.3) rnd - Escherichia coli
GenBankACR65464.1 ribonuclease D [Escherichia coli BW2952]
GenBankEFI90465.1 ribonuclease D [Escherichia coli MS 196-1]
GenBankACB03002.1 ribonuclease D [Escherichia coli str. K-12 substr. DH10B]
GenBankAAC74874.1 ribonuclease D [Escherichia coli str. K-12 substr. MG1655]
EMBLCAA30098.1