Citrus Sinensis ID: 043842

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------13
MRIPGRITHMWNDLRVQPSRWEASSSCRDVNQDFEKEPTSRYCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDHPHVERSKSSGNNGRCSFTPWGKPCKSGN
cccccccccEEEEEEEEcccccEEHHHHcHHEEEEEcccccEEEEEcccccEEEEcccccEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
ccccccccEEEEEEEEcccccHHHHHccHHHHHHEccccccEEEEEcccccEEEEEcccEEEEEEEcccccccEEEccccccccccccccccHHHccHHHccccccccccccccccccccccccccccc
mripgrithmwndlrvqpsrweassscrdvnqdfekeptsryclvrlrcgnekvidprcratigtvsnpshgakklskagqrswlgrrAVVRGVamipvdhphverskssgnngrcsftpwgkpcksgn
mripgrithmwndlrvqpsrweassscrdvnqdfekeptsryclvrlrcgnekvidprcratigtvsnpshgakklskagqrswlgrRAVVRGVAmipvdhphverskssgnngrcsftpwgkpcksgn
MRIPGRITHMWNDLRVQPSRWEASSSCRDVNQDFEKEPTSRYCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDHPHVERSKSSGNNGRCSFTPWGKPCKSGN
********HMWNDL*************************SRYCLVRLRCGNEKVIDPRCRATIGTV****************SWLGRRAVVRGVAMIPV******************************
MRIPGRITHMWNDLRVQPSRWEASSSCRDVNQDFEKEPTSRYCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDH*********************KPCK***
MRIPGRITHMWNDLRVQPS****************KEPTSRYCLVRLRCGNEKVIDPRCRATIGTVS**************RSWLGRRAVVRGVAMIPVDHPH**********GRCSFTPWGKPCKSGN
MRIPGRITHMWNDLRVQPSRWEASSSCRDVNQDFEKEPTSRYCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDHP****S*******RC*************
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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MRIPGRITHMWNDLRVQPSRWEASSSCRDVNQDFEKEPTSRYCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDHPHVERSKSSGNNGRCSFTPWGKPCKSGN
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query129 2.2.26 [Sep-21-2011]
P92812502 60S ribosomal protein L2, yes no 0.891 0.229 0.529 7e-25
Q2F969502 60S ribosomal protein L2, N/A no 0.891 0.229 0.529 7e-25
P0C8K6502 60S ribosomal protein L2, yes no 0.891 0.229 0.529 7e-25
P26859501 60S ribosomal protein L2, N/A no 0.790 0.203 0.528 2e-22
A4YSJ5277 50S ribosomal protein L2 yes no 0.651 0.303 0.494 8e-17
A5ELM4277 50S ribosomal protein L2 yes no 0.651 0.303 0.494 8e-17
C0R306274 50S ribosomal protein L2 yes no 0.658 0.310 0.523 4e-16
Q134T2278 50S ribosomal protein L2 yes no 0.651 0.302 0.494 4e-16
Q73H89274 50S ribosomal protein L2 yes no 0.658 0.310 0.511 5e-16
Q89J87277 50S ribosomal protein L2 yes no 0.651 0.303 0.470 6e-16
>sp|P92812|RM02_ORYSJ 60S ribosomal protein L2, mitochondrial OS=Oryza sativa subsp. japonica GN=RPL2 PE=2 SV=2 Back     alignment and function desciption
 Score =  112 bits (280), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 62/117 (52%), Positives = 74/117 (63%), Gaps = 2/117 (1%)

Query: 12  NDLRVQPSRWEASSSCRDVNQDFEKEPTSRYCLVRLRCGNEKVIDPRCRATIGTVSNPSH 71
           +D+   P +    +          KEP S+ CLVRL  G EK+ID RCRATIG VSNP+H
Sbjct: 376 HDIECHPGQGAKLARAAGTYAKIIKEPASQ-CLVRLPSGVEKLIDSRCRATIGIVSNPNH 434

Query: 72  GAKKLSKAGQRSWLGRRAVVRGVAMIPVDHPHVERSKSSGNNGRCSFTPWGKPCKSG 128
           GA+KL KAGQ  W GRR +VRGVAM PVDHPH      +   GR S +PWGKP K+G
Sbjct: 435 GARKLRKAGQSRWSGRRPIVRGVAMNPVDHPHGGGEGRT-KGGRPSVSPWGKPTKAG 490

Oryza sativa subsp. japonica (taxid: 39947)
>sp|Q2F969|RM02_ORYSI 60S ribosomal protein L2, mitochondrial OS=Oryza sativa subsp. indica GN=RPL2 PE=2 SV=2 Back     alignment and function description
>sp|P0C8K6|RM02_ORYSA 60S ribosomal protein L2, mitochondrial OS=Oryza sativa GN=RPL2 PE=2 SV=1 Back     alignment and function description
>sp|P26859|RM02_MARPO 60S ribosomal protein L2, mitochondrial OS=Marchantia polymorpha GN=RPL2 PE=3 SV=2 Back     alignment and function description
>sp|A4YSJ5|RL2_BRASO 50S ribosomal protein L2 OS=Bradyrhizobium sp. (strain ORS278) GN=rplB PE=3 SV=1 Back     alignment and function description
>sp|A5ELM4|RL2_BRASB 50S ribosomal protein L2 OS=Bradyrhizobium sp. (strain BTAi1 / ATCC BAA-1182) GN=rplB PE=3 SV=1 Back     alignment and function description
>sp|C0R306|RL2_WOLWR 50S ribosomal protein L2 OS=Wolbachia sp. subsp. Drosophila simulans (strain wRi) GN=rplB PE=3 SV=1 Back     alignment and function description
>sp|Q134T2|RL2_RHOPS 50S ribosomal protein L2 OS=Rhodopseudomonas palustris (strain BisB5) GN=rplB PE=3 SV=1 Back     alignment and function description
>sp|Q73H89|RL2_WOLPM 50S ribosomal protein L2 OS=Wolbachia pipientis wMel GN=rplB PE=3 SV=1 Back     alignment and function description
>sp|Q89J87|RL2_BRAJA 50S ribosomal protein L2 OS=Bradyrhizobium japonicum (strain USDA 110) GN=rplB PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query129
17644114191 ribosomal protein L2 [Gossypium arboreum 0.953 0.643 0.603 2e-32
296084340204 unnamed protein product [Vitis vinifera] 0.953 0.602 0.579 2e-31
225434185193 PREDICTED: 60S ribosomal protein L2, mit 0.937 0.626 0.580 3e-31
255586439 241 50S ribosomal protein L2, putative [Rici 0.953 0.510 0.563 5e-28
297824397214 ribosomal protein L2 family protein [Ara 0.953 0.574 0.531 1e-27
21592449214 unknown [Arabidopsis thaliana] 0.953 0.574 0.515 8e-27
357446875175 60S ribosomal protein L2 [Medicago trunc 0.953 0.702 0.523 1e-26
217074666196 unknown [Medicago truncatula] 0.953 0.627 0.523 1e-26
18406440214 ribosomal protein L2-like protein [Arabi 0.953 0.574 0.515 1e-26
388502526192 unknown [Lotus japonicus] 0.953 0.640 0.531 1e-26
>gi|17644114|gb|AAK95391.1| ribosomal protein L2 [Gossypium arboreum] Back     alignment and taxonomy information
 Score =  143 bits (361), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 76/126 (60%), Positives = 86/126 (68%), Gaps = 3/126 (2%)

Query: 6   RITHMWNDLRVQPSRWEASSSCRDVNQDFEKEPTSRYCLVRLRCGNEKVIDPRCRATIGT 65
           RI    +++ V P +          +    KEP SRYCL+RL  G EK+ID RCRAT+GT
Sbjct: 56  RIGTFIHNIEVNPGQGGKLVRAAGTSAKILKEPKSRYCLIRLPSGAEKLIDTRCRATVGT 115

Query: 66  VSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDHPH---VERSKSSGNNGRCSFTPWG 122
           VSNPSHGAKKL KAGQ  WLGRR VVRGVAM PVDHPH     RSKSSG+ G+ S TPWG
Sbjct: 116 VSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGGEGRSKSSGSYGKGSRTPWG 175

Query: 123 KPCKSG 128
           KPCK G
Sbjct: 176 KPCKCG 181

Source: Gossypium arboreum

Species: Gossypium arboreum

Genus: Gossypium

Family: Malvaceae

Order: Malvales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|296084340|emb|CBI24728.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|225434185|ref|XP_002279271.1| PREDICTED: 60S ribosomal protein L2, mitochondrial-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|255586439|ref|XP_002533864.1| 50S ribosomal protein L2, putative [Ricinus communis] gi|223526186|gb|EEF28514.1| 50S ribosomal protein L2, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|297824397|ref|XP_002880081.1| ribosomal protein L2 family protein [Arabidopsis lyrata subsp. lyrata] gi|297325920|gb|EFH56340.1| ribosomal protein L2 family protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|21592449|gb|AAM64400.1| unknown [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|357446875|ref|XP_003593713.1| 60S ribosomal protein L2 [Medicago truncatula] gi|355482761|gb|AES63964.1| 60S ribosomal protein L2 [Medicago truncatula] Back     alignment and taxonomy information
>gi|217074666|gb|ACJ85693.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|18406440|ref|NP_566007.1| ribosomal protein L2-like protein [Arabidopsis thaliana] gi|42571223|ref|NP_973685.1| ribosomal protein L2-like protein [Arabidopsis thaliana] gi|17380714|gb|AAL36187.1| unknown protein [Arabidopsis thaliana] gi|20197074|gb|AAM14906.1| Expressed protein [Arabidopsis thaliana] gi|20259009|gb|AAM14220.1| unknown protein [Arabidopsis thaliana] gi|330255274|gb|AEC10368.1| ribosomal protein L2-like protein [Arabidopsis thaliana] gi|330255275|gb|AEC10369.1| ribosomal protein L2-like protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|388502526|gb|AFK39329.1| unknown [Lotus japonicus] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query129
TAIR|locus:505006316214 AT2G44065 [Arabidopsis thalian 0.961 0.579 0.526 4.4e-29
UNIPROTKB|P0C8K6502 RPL2 "60S ribosomal protein L2 0.899 0.231 0.529 1.6e-26
UNIPROTKB|P92812502 RPL2 "60S ribosomal protein L2 0.899 0.231 0.529 1.6e-26
UNIPROTKB|Q2F969502 RPL2 "60S ribosomal protein L2 0.899 0.231 0.529 1.6e-26
TIGR_CMR|BA_0113276 BA_0113 "ribosomal protein L2" 0.922 0.431 0.388 1.1e-16
TIGR_CMR|CBU_0241275 CBU_0241 "ribosomal protein L2 0.643 0.301 0.511 1.4e-16
TIGR_CMR|APH_0283276 APH_0283 "ribosomal protein L2 0.643 0.300 0.534 4.7e-16
TIGR_CMR|ECH_0412276 ECH_0412 "ribosomal protein L2 0.643 0.300 0.523 6e-16
TIGR_CMR|CPS_0870274 CPS_0870 "ribosomal protein L2 0.643 0.302 0.488 7.7e-16
TIGR_CMR|SO_0234274 SO_0234 "ribosomal protein L2" 0.643 0.302 0.488 7.7e-16
TAIR|locus:505006316 AT2G44065 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 323 (118.8 bits), Expect = 4.4e-29, P = 4.4e-29
 Identities = 69/131 (52%), Positives = 81/131 (61%)

Query:     1 MRIPGRITHMWNDLRVQPSRWEASSSCRDVNQDFEKEPTSRYCLVRLRCGNEKVIDPRCR 60
             MRI G I H   ++ + P +          N    KEP    CL++L  G+ K I+ +CR
Sbjct:    68 MRI-GTIIH---NIEMNPGQGAKMVRAAGTNAKILKEPAKGKCLIKLPSGDTKWINAKCR 123

Query:    61 ATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDHPH---VERSKSSGNNGRCS 117
             ATIGTVSNPSHG KKL KAGQ  WLG R  VRGVAM P DHPH     +SKSSG+ GR S
Sbjct:   124 ATIGTVSNPSHGTKKLYKAGQSRWLGIRPKVRGVAMNPCDHPHGGGEGKSKSSGSRGRTS 183

Query:   118 FTPWGKPCKSG 128
              +PWGKPCK G
Sbjct:   184 VSPWGKPCKGG 194
GO:0003723 "RNA binding" evidence=IEA
GO:0003735 "structural constituent of ribosome" evidence=IEA;ISS
GO:0005622 "intracellular" evidence=IEA
GO:0005840 "ribosome" evidence=IEA
GO:0006412 "translation" evidence=IEA;ISS
GO:0009507 "chloroplast" evidence=ISM
GO:0015934 "large ribosomal subunit" evidence=IEA;ISS
GO:0016740 "transferase activity" evidence=IEA
GO:0006354 "DNA-dependent transcription, elongation" evidence=RCA
GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=RCA
GO:0009853 "photorespiration" evidence=RCA
GO:0051788 "response to misfolded protein" evidence=RCA
GO:0080129 "proteasome core complex assembly" evidence=RCA
UNIPROTKB|P0C8K6 RPL2 "60S ribosomal protein L2, mitochondrial" [Oryza sativa (taxid:4530)] Back     alignment and assigned GO terms
UNIPROTKB|P92812 RPL2 "60S ribosomal protein L2, mitochondrial" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
UNIPROTKB|Q2F969 RPL2 "60S ribosomal protein L2, mitochondrial" [Oryza sativa Indica Group (taxid:39946)] Back     alignment and assigned GO terms
TIGR_CMR|BA_0113 BA_0113 "ribosomal protein L2" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms
TIGR_CMR|CBU_0241 CBU_0241 "ribosomal protein L2" [Coxiella burnetii RSA 493 (taxid:227377)] Back     alignment and assigned GO terms
TIGR_CMR|APH_0283 APH_0283 "ribosomal protein L2" [Anaplasma phagocytophilum HZ (taxid:212042)] Back     alignment and assigned GO terms
TIGR_CMR|ECH_0412 ECH_0412 "ribosomal protein L2" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_0870 CPS_0870 "ribosomal protein L2" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
TIGR_CMR|SO_0234 SO_0234 "ribosomal protein L2" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00034728001
SubName- Full=Chromosome chr5 scaffold_72, whole genome shotgun sequence; (204 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00026943001
SubName- Full=Chromosome chr15 scaffold_40, whole genome shotgun sequence; (265 aa)
• ••• • 0.987
GSVIVG00035271001
SubName- Full=Chromosome chr10 scaffold_76, whole genome shotgun sequence; (140 aa)
•  •• • 0.983
GSVIVG00023012001
SubName- Full=Chromosome chr6 scaffold_28, whole genome shotgun sequence; (213 aa)
• ••• • 0.981
GSVIVG00028331001
SubName- Full=Chromosome chr10 scaffold_43, whole genome shotgun sequence; (166 aa)
• ••• • 0.976
rps3
SubName- Full=Chromosome undetermined scaffold_3592, whole genome shotgun sequence; (207 aa)
• ••  • 0.976
GSVIVG00026031001
SubName- Full=Chromosome chr12 scaffold_36, whole genome shotgun sequence; (117 aa)
•  •• • 0.976
GSVIVG00019749001
SubName- Full=Putative uncharacterized protein (Chromosome chr5 scaffold_2, whole genome shotgu [...] (161 aa)
•  •• • 0.974
GSVIVG00011509001
SubName- Full=Chromosome chr10 scaffold_312, whole genome shotgun sequence; (129 aa)
•  •• • 0.973
GSVIVG00033342001
SubName- Full=Chromosome chr19 scaffold_66, whole genome shotgun sequence; (203 aa)
•  •  • 0.967
GSVIVG00015322001
SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (167 aa)
• ••  • 0.967

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query129
pfam03947130 pfam03947, Ribosomal_L2_C, Ribosomal Proteins L2, 2e-27
PRK09374276 PRK09374, rplB, 50S ribosomal protein L2; Validate 7e-27
COG0090275 COG0090, RplB, Ribosomal protein L2 [Translation, 4e-25
TIGR01171273 TIGR01171, rplB_bact, ribosomal protein L2, bacter 3e-24
CHL00052273 CHL00052, rpl2, ribosomal protein L2 4e-21
PTZ00031317 PTZ00031, PTZ00031, ribosomal protein L2; Provisio 1e-13
PRK09612238 PRK09612, rpl2p, 50S ribosomal protein L2P; Valida 3e-11
PTZ00180260 PTZ00180, PTZ00180, 60S ribosomal protein L8; Prov 1e-07
>gnl|CDD|202823 pfam03947, Ribosomal_L2_C, Ribosomal Proteins L2, C-terminal domain Back     alignment and domain information 
 Score = 98.0 bits (245), Expect = 2e-27
 Identities = 43/89 (48%), Positives = 50/89 (56%), Gaps = 12/89 (13%)

Query: 42  YCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVDH 101
           Y  ++L  G  +++   CRATIG VSN  H  K L KAG+  WLG R  VRGVAM PVDH
Sbjct: 48  YVTLKLPSGEVRLVSSNCRATIGVVSNIDHNNKPLGKAGRSRWLGIRPTVRGVAMNPVDH 107

Query: 102 PHVERSKSSGNNGRCSF------TPWGKP 124
           PH       G  GR S       +PWGKP
Sbjct: 108 PH------GGGEGRTSIGRPPPVSPWGKP 130

Length = 130
>gnl|CDD|236488 PRK09374, rplB, 50S ribosomal protein L2; Validated Back     alignment and domain information
>gnl|CDD|223168 COG0090, RplB, Ribosomal protein L2 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|162234 TIGR01171, rplB_bact, ribosomal protein L2, bacterial/organellar Back     alignment and domain information
>gnl|CDD|176993 CHL00052, rpl2, ribosomal protein L2 Back     alignment and domain information
>gnl|CDD|173329 PTZ00031, PTZ00031, ribosomal protein L2; Provisional Back     alignment and domain information
>gnl|CDD|236589 PRK09612, rpl2p, 50S ribosomal protein L2P; Validated Back     alignment and domain information
>gnl|CDD|173464 PTZ00180, PTZ00180, 60S ribosomal protein L8; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 129
TIGR01171273 rplB_bact ribosomal protein L2, bacterial/organell 100.0
PRK09374276 rplB 50S ribosomal protein L2; Validated 100.0
PF03947130 Ribosomal_L2_C: Ribosomal Proteins L2, C-terminal 100.0
PTZ00031317 ribosomal protein L2; Provisional 100.0
CHL00052273 rpl2 ribosomal protein L2 100.0
COG0090275 RplB Ribosomal protein L2 [Translation, ribosomal 100.0
PRK09612238 rpl2p 50S ribosomal protein L2P; Validated 100.0
PTZ00180260 60S ribosomal protein L8; Provisional 100.0
KOG0438312 consensus Mitochondrial/chloroplast ribosomal prot 100.0
KOG2309248 consensus 60s ribosomal protein L2/L8 [Translation 99.98
>TIGR01171 rplB_bact ribosomal protein L2, bacterial/organellar Back     alignment and domain information 
Probab=100.00  E-value=1.4e-60  Score=389.39  Aligned_cols=122  Identities=36%  Similarity=0.640  Sum_probs=117.0

Q ss_pred             CccccceEEEeeEeCCCCeeEEecCCCceEEEEecCCCeEEEEecCCceEEecCCCceeEEeeeCCCccceeeccccccc
Q 043842            4 PGRITHMWNDLRVQPSRWEASSSCRDVNQDFEKEPTSRYCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRS   83 (129)
Q Consensus         4 ~~p~Gt~I~nIE~~pg~gg~l~RsAGt~a~ii~~~~~~~~~ikLPSGe~r~v~~~c~AtiG~vsn~~~~~~~~gKAG~~R   83 (129)
                      -||+||.|||||++||+|+||||||||||+|+.+ ++++++|||||||+++|+++|+||||+|||.+|.+++|+|||++|
T Consensus       132 ~IP~Gt~I~NIE~~pg~Ggkl~RsAGt~A~ii~k-~~~~~~vkLPSGe~r~i~~~c~AtiG~Vsn~~~~~~~~gKAG~~r  210 (273)
T TIGR01171       132 NIPVGTTVHNIELKPGKGGQLARSAGTSAQILAK-EGGYVTLRLPSGEMRMVLKECRATIGEVGNEDHNNIVLGKAGRSR  210 (273)
T ss_pred             cCCCCCEEEEEEecCCCCceEEEecCCeEEEEEe-cCCEEEEECCCCCeEEECCcCeEEEEEccCCchhccEeccchhhe
Confidence            3799999999999999999999999999999988 689999999999999999999999999999999999999999999


Q ss_pred             ccCCCceeeEEEeeceeCCCC-CCCCCCCCCCCCCCCCCCcccCCC
Q 043842           84 WLGRRAVVRGVAMIPVDHPHV-ERSKSSGNNGRCSFTPWGKPCKSG  128 (129)
Q Consensus        84 ~~G~RP~VRGvamNpvdHPhG-G~~k~~g~~gr~~~spwG~~~kg~  128 (129)
                      |+|+||+|||||||||||||| |++++++  ||+|+||||++|||.
T Consensus       211 ~lg~rP~VRGvAMNpvDHPHGGGegk~~~--g~~~~spwG~~~kg~  254 (273)
T TIGR01171       211 WLGIRPTVRGVAMNPVDHPHGGGEGRTPG--GRHPVTPWGKPTKGY  254 (273)
T ss_pred             eCCCCCccccEecCcccCCCCCCCCcCCC--CCCCCCCCeeecccc
Confidence            999999999999999999999 6787764  699999999999985

This model distinguishes bacterial and organellar ribosomal protein L2 from its counterparts in the archaea nad in the eukaryotic cytosol. Plant mitochondrial examples tend to have long, variable inserts.
>PRK09374 rplB 50S ribosomal protein L2; Validated Back     alignment and domain information
>PF03947 Ribosomal_L2_C: Ribosomal Proteins L2, C-terminal domain; InterPro: IPR022669 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PTZ00031 ribosomal protein L2; Provisional Back     alignment and domain information
>CHL00052 rpl2 ribosomal protein L2 Back     alignment and domain information
>COG0090 RplB Ribosomal protein L2 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK09612 rpl2p 50S ribosomal protein L2P; Validated Back     alignment and domain information
>PTZ00180 60S ribosomal protein L8; Provisional Back     alignment and domain information
>KOG0438 consensus Mitochondrial/chloroplast ribosomal protein L2 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2309 consensus 60s ribosomal protein L2/L8 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query129
1nkw_A275 Crystal Structure Of The Large Ribosomal Subunit Fr 6e-14
1pnu_A270 Crystal Structure Of A Streptomycin Dependent Ribos 7e-14
1nwx_A274 Complex Of The Large Ribosomal Subunit From Deinoco 7e-14
2gya_A227 Structure Of The 50s Subunit Of A Pre-Translocation 2e-13
2aw4_C273 Crystal Structure Of The Bacterial Ribosome From Es 2e-13
1p85_A272 Real Space Refined Coordinates Of The 50s Subunit F 2e-13
3fik_C271 Ternary Complex-Bound E.Coli 70s Ribosome. This Ent 2e-13
3e1b_N270 Structure Of The 50s Subunit Of E. Coli Ribosome In 2e-13
2j28_C267 Model Of E. Coli Srp Bound To 70s Rncs Length = 267 2e-13
3bbo_E269 Homology Model For The Spinach Chloroplast 50s Subu 2e-12
3fin_D272 T. Thermophilus 70s Ribosome In Complex With Mrna, 3e-12
3pyo_C271 Crystal Structure Of A Complex Containing Domain 3 3e-12
3mrz_C275 Recognition Of The Amber Stop Codon By Release Fact 4e-12
2j01_D276 Structure Of The Thermus Thermophilus 70s Ribosome 4e-12
2b66_D173 50s Ribosomal Subunit From A Crystal Structure Of R 3e-07
1ml5_d178 Crystal Structure Of The Ribosome At 5.5 A Resoluti 9e-06
1s72_A240 Refined Crystal Structure Of The Haloarcula Marismo 2e-05
2otl_A239 Girodazole Bound To The Large Subunit Of Haloarcula 2e-05
3g4s_A237 Co-Crystal Structure Of Tiamulin Bound To The Large 2e-05
3ow2_A237 Crystal Structure Of Enhanced Macrolide Bound To 50 3e-05
1ffk_A239 Crystal Structure Of The Large Ribosomal Subunit Fr 3e-05
4a17_A264 T.Thermophila 60s Ribosomal Subunit In Complex With 3e-05
3izr_B261 Localization Of The Large Subunit Ribosomal Protein 5e-04
>pdb|1NKW|A Chain A, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 275 Back     alignment and structure 
Iteration: 1

 Score = 72.4 bits (176), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 41/87 (47%), Positives = 47/87 (54%), Gaps = 1/87 (1%)
Query: 40  SRYCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPV 99
           S Y +VRL  G  + +   C ATIG V N  H    L KAG+  WLGR+   RG AM PV
Sbjct: 170 SDYVIVRLPSGELRRVHSECYATIGAVGNAEHKNIVLGKAGRSRWLGRKPHQRGSAMNPV 229
Query: 100 DHPHVERSKSSGNNGRCSFTPWGKPCK 126
           DHPH      +   GR   TPWGKP K
Sbjct: 230 DHPHGGGEGRT-GAGRVPVTPWGKPTK 255
>pdb|1PNU|A Chain A, Crystal Structure Of A Streptomycin Dependent Ribosome From Escherichia Coli, 50s Subunit Of 70s Ribosome. This File, 1pnu, Contains Only Molecules Of The 50s Ribosomal Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site Trna Are In The Pdb File 1pns. Length = 270 Back     alignment and structure
>pdb|1NWX|A Chain A, Complex Of The Large Ribosomal Subunit From Deinococcus Radiodurans With Abt-773 Length = 274 Back     alignment and structure
>pdb|2GYA|A Chain A, Structure Of The 50s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 227 Back     alignment and structure
>pdb|2AW4|C Chain C, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli At 3.5 A Resolution. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 273 Back     alignment and structure
>pdb|1P85|A Chain A, Real Space Refined Coordinates Of The 50s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 272 Back     alignment and structure
>pdb|3FIK|C Chain C, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 50s Subunit. Length = 271 Back     alignment and structure
>pdb|3E1B|N Chain N, Structure Of The 50s Subunit Of E. Coli Ribosome In Pre-Accommodation State Length = 270 Back     alignment and structure
>pdb|2J28|C Chain C, Model Of E. Coli Srp Bound To 70s Rncs Length = 267 Back     alignment and structure
>pdb|3BBO|E Chain E, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 269 Back     alignment and structure
>pdb|3FIN|D Chain D, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 50s Subunit. Length = 272 Back     alignment and structure
>pdb|3PYO|C Chain C, Crystal Structure Of A Complex Containing Domain 3 From The Psiv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 50s Subunit Of The First 70s Ribosome. Length = 271 Back     alignment and structure
>pdb|3MRZ|C Chain C, Recognition Of The Amber Stop Codon By Release Factor Rf1. This Entry 3mrz Contains 50s Ribosomal Subunit. The 30s Ribosomal Subunit Can Be Found In Pdb Entry 3ms0. Molecule A In The Same Asymmetric Unit Is Deposited As 3mr8 (50s) And 3ms1 (30s). Length = 275 Back     alignment and structure
>pdb|2J01|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4). This File Contains The 50s Subunit From Molecule I. Length = 276 Back     alignment and structure
>pdb|2B66|D Chain D, 50s Ribosomal Subunit From A Crystal Structure Of Release Factor Rf1, Trnas And Mrna Bound To The Ribosome. This File Contains The 50s Subunit From A Crystal Structure Of Release Factor Rf1, Trnas And Mrna Bound To The Ribosome And Is Described In Remark 400 Length = 173 Back     alignment and structure
>pdb|1ML5|DD Chain d, Structure Of The E. Coli Ribosomal Termination Complex With Release Factor 2 Length = 178 Back     alignment and structure
>pdb|1S72|A Chain A, Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution Length = 240 Back     alignment and structure
>pdb|2OTL|A Chain A, Girodazole Bound To The Large Subunit Of Haloarcula Marismortui Length = 239 Back     alignment and structure
>pdb|3G4S|A Chain A, Co-Crystal Structure Of Tiamulin Bound To The Large Ribosomal Subunit Length = 237 Back     alignment and structure
>pdb|3OW2|A Chain A, Crystal Structure Of Enhanced Macrolide Bound To 50s Ribosomal Subunit Length = 237 Back     alignment and structure
>pdb|1FFK|A Chain A, Crystal Structure Of The Large Ribosomal Subunit From Haloarcula Marismortui At 2.4 Angstrom Resolution Length = 239 Back     alignment and structure
>pdb|4A17|A Chain A, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 5s Rrna, 5.8s Rrna And Proteins Of Molecule 2. Length = 264 Back     alignment and structure
>pdb|3IZR|B Chain B, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 261 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query129
3r8s_C271 50S ribosomal protein L2; protein biosynthesis, RN 1e-27
3v2d_D276 50S ribosomal protein L2; ribosome associated inhi 2e-26
3bbo_E269 Ribosomal protein L2; large ribosomal subunit, spi 4e-26
1vq8_A240 50S ribosomal protein L2P; ribosome 50S, protein-p 3e-24
4a17_A264 RPL8; eukaryotic ribosome, ribosome, eukaryotic in 2e-23
3iz5_B261 60S ribosomal protein L2 (L2P); eukaryotic ribosom 6e-23
1giy_D178 50S ribosomal protein L2; ribosome assembly, prote 1e-22
3jyw_B243 60S ribosomal protein L2; eukaryotic ribosome, RAC 3e-22
2ftc_B136 Mitochondrial ribosomal protein L2; mitochondrial 3e-09
1rl2_A137 Protein (ribosomal protein L2); RNA-binding domain 1e-04
>3r8s_C 50S ribosomal protein L2; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_C 2wwq_C 3oat_C* 3oas_C* 3ofd_C 3ofc_C 3ofr_C* 3ofz_C* 3og0_C 3ofq_C 3r8t_C 3i1n_C 1vs8_C 1vs6_C 2aw4_C 2awb_C 2vhm_C 2vhn_C 3bbx_C 3df2_C ... Length = 271 Back     alignment and structure
 Score =  101 bits (254), Expect = 1e-27
 Identities = 37/86 (43%), Positives = 45/86 (52%), Gaps = 2/86 (2%)

Query: 41  RYCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWLGRRAVVRGVAMIPVD 100
            Y  +RLR G  + ++  CRAT+G V N  H  + L KAG   W G R  VRG AM PVD
Sbjct: 169 AYVTLRLRSGEMRKVEADCRATLGEVGNAEHMLRVLGKAGAARWRGVRPTVRGTAMNPVD 228

Query: 101 HPHVERSKSSGNNGRCSFTPWGKPCK 126
           HPH      +   G+   TPWG   K
Sbjct: 229 HPHGGGEGRNF--GKHPVTPWGVQTK 252
>3v2d_D 50S ribosomal protein L2; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_B 2hgj_D 2hgq_D 2hgu_D 1vsa_B 2j03_D 2jl6_D 2jl8_D 2v47_D 2v49_D 2wdi_D 2wdj_D 2wdl_D 2wdn_D 2wh2_D 2wh4_D 2wrj_D 2wrl_D 2wro_D 2wrr_D ... Length = 276 Back     alignment and structure
>3bbo_E Ribosomal protein L2; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 269 Back     alignment and structure
>1vq8_A 50S ribosomal protein L2P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.3 b.40.4.5 PDB: 1vq4_A* 1vq5_A* 1vq6_A* 1vq7_A* 1s72_A* 1vq9_A* 1vqk_A* 1vql_A* 1vqm_A* 1vqn_A* 1vqo_A* 1vqp_A* 1yhq_A* 1yi2_A* 1yij_A* 1yit_A* 1yj9_A* 1yjn_A* 1yjw_A* 2otj_A* ... Length = 240 Back     alignment and structure
>4a17_A RPL8; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_A 4a1c_A 4a1e_A Length = 264 Back     alignment and structure
>3jyw_B 60S ribosomal protein L2; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 3izc_B 3izs_B 3o58_B 3o5h_B 3u5e_A 3u5i_A 1s1i_B Length = 243 Back     alignment and structure
>2ftc_B Mitochondrial ribosomal protein L2; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_B Length = 136 Back     alignment and structure
>1rl2_A Protein (ribosomal protein L2); RNA-binding domain, peptidyltransferease center, X-RAY diffraction; 2.30A {Geobacillus stearothermophilus} SCOP: b.34.5.3 b.40.4.5 PDB: 1c04_A 487d_I Length = 137 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query129
3v2d_D276 50S ribosomal protein L2; ribosome associated inhi 100.0
3r8s_C271 50S ribosomal protein L2; protein biosynthesis, RN 100.0
3bbo_E269 Ribosomal protein L2; large ribosomal subunit, spi 100.0
3j21_B239 50S ribosomal protein L2P; archaea, archaeal, KINK 100.0
1giy_D178 50S ribosomal protein L2; ribosome assembly, prote 100.0
1vq8_A240 50S ribosomal protein L2P; ribosome 50S, protein-p 100.0
3jyw_B243 60S ribosomal protein L2; eukaryotic ribosome, RAC 100.0
3iz5_B261 60S ribosomal protein L2 (L2P); eukaryotic ribosom 100.0
4a17_A264 RPL8; eukaryotic ribosome, ribosome, eukaryotic in 100.0
2ftc_B136 Mitochondrial ribosomal protein L2; mitochondrial 100.0
1rl2_A137 Protein (ribosomal protein L2); RNA-binding domain 99.95
>3v2d_D 50S ribosomal protein L2; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_B 2hgj_D 2hgq_D 2hgu_D 1vsa_B 2j03_D 2jl6_D 2jl8_D 2v47_D 2v49_D 2wdi_D 2wdj_D 2wdl_D 2wdn_D 2wh2_D 2wh4_D 2wrj_D 2wrl_D 2wro_D 2wrr_D ... Back     alignment and structure
Probab=100.00  E-value=1.9e-61  Score=393.20  Aligned_cols=122  Identities=31%  Similarity=0.559  Sum_probs=117.3

Q ss_pred             CccccceEEEeeEeCCCCeeEEecCCCceEEEEecCCCeEEEEecCCceEEecCCCceeEEeeeCCCccceeeccccccc
Q 043842            4 PGRITHMWNDLRVQPSRWEASSSCRDVNQDFEKEPTSRYCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRS   83 (129)
Q Consensus         4 ~~p~Gt~I~nIE~~pg~gg~l~RsAGt~a~ii~~~~~~~~~ikLPSGe~r~v~~~c~AtiG~vsn~~~~~~~~gKAG~~R   83 (129)
                      -||+||.|||||++||+|+||||||||||+|+.+ +++|++|||||||+|+|+++|+||||+|||.+|.+++++|||++|
T Consensus       135 ~IP~GT~IhNIE~~pG~Gg~laRsAGt~A~ii~k-~~~~~~vrLPSGe~r~i~~~c~AtIG~Vsn~~~~~~~lgKAGr~r  213 (276)
T 3v2d_D          135 FIPVGTVVHAVELEPKKGAKLARAAGTSAQIQGR-EGDYVILRLPSGELRKVHGECYATVGAVGNADHKNIVLGKAGRSR  213 (276)
T ss_dssp             GSCTTCEEESEESSTTSCEEESCSTTCCEEEEEE-ETTEEEEECTTSCEEEEETTCEEEESCBSCGGGGGCCCCSHHHHH
T ss_pred             hCCCCCEEEEEEecCCCCceEEEeCCCeEEEEEe-cCCEEEEECCCCCeEEEcccCeEEEEeecCcchhhcEeccCcccc
Confidence            3899999999999999999999999999999988 689999999999999999999999999999999999999999999


Q ss_pred             ccCCCceeeEEEeeceeCCCC-CCCCCCCCCCCCCCCCCCcccCCC
Q 043842           84 WLGRRAVVRGVAMIPVDHPHV-ERSKSSGNNGRCSFTPWGKPCKSG  128 (129)
Q Consensus        84 ~~G~RP~VRGvamNpvdHPhG-G~~k~~g~~gr~~~spwG~~~kg~  128 (129)
                      |+|+||+|||||||||||||| |++++++  |++|+||||++|||+
T Consensus       214 w~g~rP~VRGVAMNPVDHPHGGGeGr~~~--g~~p~spwG~~~kG~  257 (276)
T 3v2d_D          214 WLGRRPHVRGAAMNPVDHPHGGGEGRAPR--GRPPASPWGWQTKGL  257 (276)
T ss_dssp             HTTBCCCCCGGGSCTTTCTTCCCSSCCCC--CSSCBCTTSCBCSSC
T ss_pred             cCCCCCccCeEecCCccCCCcCcCCCCCC--CCCCcCcccccccCC
Confidence            999999999999999999999 6888864  699999999999996
>3r8s_C 50S ribosomal protein L2; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_C 3j19_C 2wwq_C 3oat_C* 3oas_C* 3ofd_C 3ofc_C 3ofr_C* 3ofz_C* 3og0_C 3ofq_C 3r8t_C 3i1n_C 1vs8_C 1vs6_C 2aw4_C 2awb_C 2vhm_C 2vhn_C 3bbx_C ... Back     alignment and structure
>3bbo_E Ribosomal protein L2; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>3j21_B 50S ribosomal protein L2P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>1vq8_A 50S ribosomal protein L2P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.3 b.40.4.5 PDB: 1vq4_A* 1vq5_A* 1vq6_A* 1vq7_A* 1s72_A* 1vq9_A* 1vqk_A* 1vql_A* 1vqm_A* 1vqn_A* 1vqo_A* 1vqp_A* 1yhq_A* 1yi2_A* 1yij_A* 1yit_A* 1yj9_A* 1yjn_A* 1yjw_A* 2otj_A* ... Back     alignment and structure
>3jyw_B 60S ribosomal protein L2; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 3izc_B 3izs_B 3o58_B 3o5h_B 3u5e_A 3u5i_A 4b6a_A 1s1i_B Back     alignment and structure
>4a17_A RPL8; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_A 4a1c_A 4a1e_A Back     alignment and structure
>2ftc_B Mitochondrial ribosomal protein L2; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_B Back     alignment and structure
>1rl2_A Protein (ribosomal protein L2); RNA-binding domain, peptidyltransferease center, X-RAY diffraction; 2.30A {Geobacillus stearothermophilus} SCOP: b.34.5.3 b.40.4.5 PDB: 1c04_A 487d_I Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 129
d1vqoa1147 b.34.5.3 (A:91-237) C-terminal domain of ribosomal 5e-17
d2qamc1145 b.34.5.3 (C:125-269) C-terminal domain of ribosoma 4e-16
d2j01d1147 b.34.5.3 (D:127-273) C-terminal domain of ribosoma 6e-15
d1rl2a170 b.34.5.3 (A:126-195) C-terminal domain of ribosoma 6e-05
>d1vqoa1 b.34.5.3 (A:91-237) C-terminal domain of ribosomal protein L2 {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 147 Back     information, alignment and structure

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: C-terminal domain of ribosomal protein L2
domain: C-terminal domain of ribosomal protein L2
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 69.8 bits (171), Expect = 5e-17
 Identities = 30/93 (32%), Positives = 38/93 (40%), Gaps = 7/93 (7%)

Query: 41  RYCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRSWL-----GRRAVVRGVA 95
              +V+L  G  K +DP+CRATIG V+      K   KAG +         +   VRGVA
Sbjct: 44  NVAVVKLPSGEMKRLDPQCRATIGVVAGGGRTDKPFVKAGNKHHKMKARGTKWPNVRGVA 103

Query: 96  MIPVDHPH--VERSKSSGNNGRCSFTPWGKPCK 126
           M  VDHP     R             P G+   
Sbjct: 104 MNAVDHPFGGGGRQHPGKPKSISRNAPPGRKVG 136
>d2qamc1 b.34.5.3 (C:125-269) C-terminal domain of ribosomal protein L2 {Escherichia coli [TaxId: 562]} Length = 145 Back     information, alignment and structure
>d2j01d1 b.34.5.3 (D:127-273) C-terminal domain of ribosomal protein L2 {Thermus thermophilus [TaxId: 274]} Length = 147 Back     information, alignment and structure
>d1rl2a1 b.34.5.3 (A:126-195) C-terminal domain of ribosomal protein L2 {Bacillus stearothermophilus [TaxId: 1422]} Length = 70 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query129
d2qamc1145 C-terminal domain of ribosomal protein L2 {Escheri 100.0
d2j01d1147 C-terminal domain of ribosomal protein L2 {Thermus 100.0
d1vqoa1147 C-terminal domain of ribosomal protein L2 {Archaeo 100.0
d1rl2a170 C-terminal domain of ribosomal protein L2 {Bacillu 99.96
>d2qamc1 b.34.5.3 (C:125-269) C-terminal domain of ribosomal protein L2 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: C-terminal domain of ribosomal protein L2
domain: C-terminal domain of ribosomal protein L2
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.5e-63  Score=372.60  Aligned_cols=122  Identities=31%  Similarity=0.545  Sum_probs=116.6

Q ss_pred             CccccceEEEeeEeCCCCeeEEecCCCceEEEEecCCCeEEEEecCCceEEecCCCceeEEeeeCCCccceeeccccccc
Q 043842            4 PGRITHMWNDLRVQPSRWEASSSCRDVNQDFEKEPTSRYCLVRLRCGNEKVIDPRCRATIGTVSNPSHGAKKLSKAGQRS   83 (129)
Q Consensus         4 ~~p~Gt~I~nIE~~pg~gg~l~RsAGt~a~ii~~~~~~~~~ikLPSGe~r~v~~~c~AtiG~vsn~~~~~~~~gKAG~~R   83 (129)
                      -||+||+|||||+.||+|++|||||||||+|+.+ +++|++|||||||+|+|+.+|+||||+|||.+|.+++|+|||++|
T Consensus         9 ~IP~Gt~I~NIE~~pg~Ggkl~RsAGt~a~vi~k-~~~~~~vkLPSGe~r~i~~~c~ATiG~vsn~~~~~~~~gKAG~~r   87 (145)
T d2qamc1           9 NIPVGSTVHNVEMKPGKGGQLARSAGTYVQIVAR-DGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHMLRVLGKAGAAR   87 (145)
T ss_dssp             TSCSSCCCCSBCSSTTSCCCBSCSTTCCCEEEEE-ETTEEEEECTTSCEEEECSSCBCCSSCBSCCGGGGCCCCSHHHHH
T ss_pred             hCCCCCeEEEEeccCCCCccEeeecccEEEEEEe-cCCEEEEEecCcceEEeccccceEeccccchhhhcchhchhhHHH
Confidence            4899999999999999999999999999999988 799999999999999999999999999999999999999999999


Q ss_pred             ccCCCceeeEEEeeceeCCCCCCCCCCCCCCCCCCCCCCcccCCC
Q 043842           84 WLGRRAVVRGVAMIPVDHPHVERSKSSGNNGRCSFTPWGKPCKSG  128 (129)
Q Consensus        84 ~~G~RP~VRGvamNpvdHPhGG~~k~~g~~gr~~~spwG~~~kg~  128 (129)
                      |+|+||+|||||||||||||||+++++  +|++|+||||++|||.
T Consensus        88 ~~g~rP~VRGvaMNpvdHPhGGg~~~~--~g~~p~tpwG~~~kg~  130 (145)
T d2qamc1          88 WRGVRPTVRGTAMNPVDHPHGGGEGRN--FGKHPVTPWGVQTKGK  130 (145)
T ss_dssp             TTTCCCCCCGGGSCGGGCTTCCCSSSC--CCSCCBCTTSCBSSSC
T ss_pred             hCCCCCceeeeeccCccCCCCCCCCCC--CCCCCCCCCcccCCCC
Confidence            999999999999999999999776665  3689999999999986
>d2j01d1 b.34.5.3 (D:127-273) C-terminal domain of ribosomal protein L2 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1vqoa1 b.34.5.3 (A:91-237) C-terminal domain of ribosomal protein L2 {Archaeon Haloarcula marismortui [TaxId: 2238]} Back     information, alignment and structure
>d1rl2a1 b.34.5.3 (A:126-195) C-terminal domain of ribosomal protein L2 {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure