Citrus Sinensis ID: 035442

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50----
Protein Sequence
MARYLKKHQKRLNARGTCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY
Secondary Structure (PSIPRED)
cHHHHHHHHHHHccccccccccccccccccccccccccEEEEcccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MARYLKKHQKrlnargtcsgtfapkplipqtnsgsefmpficgpknrlkpgrwy
Flexible Loop (DISEMBL)
marylkkhqkrlnargtcsgtfapkplipqtnsgsefmpficgpknrlkpgrwy
Low Complexity Region (SEG)
MARYLKKHQKRLNARGTCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY
Disordered region (IsUnstruct)
***************************************FIC************
Disordered Region (DISOPRED)
***************GTCSGTFAPKPLIPQTNSGSEFMPFICGPKNRL******
Disordered Region (DISEMBL)
*************ARGTCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY
Disordered Region (DISPRO)
*ARYLKKHQKRLNARGTCSGTFAPKPLIP*TNSGSEFMPFICGPKNRLKP****
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MARYLKKHQKRLNARGTCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

No hits with e-value below 0.001 by BLAST

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

No hits with e-value below 0.001 by BLAST

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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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

No confident hit detected by STRING

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	54
PLN00036	261	PLN00036, PLN00036, 40S ribosomal protein S4; Prov	2e-05
PTZ00118	262	PTZ00118, PTZ00118, 40S ribosomal protein S4; Prov	8e-04

>gnl|CDD|177670 PLN00036, PLN00036, 40S ribosomal protein S4; Provisional

 Score = 39.3 bits (92), Expect = 2e-05
 Identities = 24/54 (44%), Positives = 28/54 (51%), Gaps = 6/54 (11%)

Query: 1  MARYLKKHQKRLNAR-----GTCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLK 49
          MAR LKKH KRLNA          G FAPKP     +   E +P +   +NRLK
Sbjct: 1  MARGLKKHLKRLNAPKHWMLDKLGGAFAPKP-SSGPHKKRECLPLLLILRNRLK 53

Length = 261

>gnl|CDD|240277 PTZ00118, PTZ00118, 40S ribosomal protein S4; Provisional

 Score = 34.5 bits (79), Expect = 8e-04
 Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 6/54 (11%)

Query: 1  MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLK 49
          M + +KKH KR+NA          G +APK   P  +   E +P +   +NRLK
Sbjct: 1  MGKGIKKHMKRINAPSHWMLDKLGGQYAPKT-SPGPHKLRECLPLVILLRNRLK 53

Length = 262

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	54
PLN00036	261	40S ribosomal protein S4; Provisional	99.93
PTZ00118	262	40S ribosomal protein S4; Provisional	99.93
PRK04313	237	30S ribosomal protein S4e; Validated	99.89
COG1471	241	RPS4A Ribosomal protein S4E [Translation, ribosoma	99.88
PTZ00223	273	40S ribosomal protein S4; Provisional	99.88
KOG0378	263	consensus 40S ribosomal protein S4 [Translation, r	99.84
PF08071	38	RS4NT: RS4NT (NUC023) domain; InterPro: IPR013843	99.7

>PLN00036 40S ribosomal protein S4; Provisional

Probab=99.93  E-value=7.5e-28  Score=169.54  Aligned_cols=53  Identities=47%  Similarity=0.612  Sum_probs=51.9

Q ss_pred             CcchhhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442            1 MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY   54 (54)
Q Consensus         1 m~~g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~   54 (54)
                      ||||+++|||||+||+     |++++|||+|| ||||+++|||||+|||||+|+||+|+
T Consensus         1 m~~g~kkHlKRl~AP~~W~l~kk~g~~a~rps-pGPH~~~eslPL~i~LRd~LkyA~t~   58 (261)
T PLN00036          1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPS-SGPHKKRECLPLLLILRNRLKYALTY   58 (261)
T ss_pred             CCCCcccccccccCccccccccccCeeccCCC-CCCCccccccccHHHHHhHhhhhccH
Confidence            9999999999999999     99999999999 99999999999999999999999985

>PTZ00118 40S ribosomal protein S4; Provisional

Probab=99.93  E-value=9.8e-28  Score=169.02  Aligned_cols=53  Identities=38%  Similarity=0.553  Sum_probs=51.9

Q ss_pred             CcchhhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442            1 MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY   54 (54)
Q Consensus         1 m~~g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~   54 (54)
                      ||||+++|||||+||+     |++++|||+|| ||||+++|||||+|||||+|+||+|+
T Consensus         1 m~~g~kkHlKRl~AP~~W~i~kk~~~~a~rps-pGPHk~~eslPL~i~LRd~LkyA~t~   58 (262)
T PTZ00118          1 MGKGIKKHMKRINAPSHWMLDKLGGQYAPKTS-PGPHKLRECLPLVILLRNRLKYALTY   58 (262)
T ss_pred             CCCCcccccccccCccccccccccceeccCCC-CCCCccccccccHHHHHhhhhhhccH
Confidence            9999999999999999     99999999999 99999999999999999999999985

>PRK04313 30S ribosomal protein S4e; Validated

Probab=99.89  E-value=9.3e-25  Score=152.09  Aligned_cols=49  Identities=24%  Similarity=0.260  Sum_probs=47.1

Q ss_pred             hhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442            5 LKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY   54 (54)
Q Consensus         5 ~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~   54 (54)
                      |++|||||+||+     |++++||++|| ||||+++|||||+|||||+|+||+|+
T Consensus         1 ~~kHlKRl~AP~~W~i~kk~~~~a~kps-pGPH~~~~siPL~iiLRd~L~yA~t~   54 (237)
T PRK04313          1 MMRHLKRLAAPKSWPIPRKEYKWTVKPS-PGPHSIEESIPLLVVLRDVLGYADTA   54 (237)
T ss_pred             CCccccceeCCcccccccccceeccCCC-CCCCCcccccccHHHHHhHhhhhccH
Confidence            579999999999     99999999999 99999999999999999999999984

>COG1471 RPS4A Ribosomal protein S4E [Translation, ribosomal structure and biogenesis]

Probab=99.88  E-value=5.8e-24  Score=149.15  Aligned_cols=51  Identities=31%  Similarity=0.407  Sum_probs=49.5

Q ss_pred             cchhhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCccc
Q 035442            2 ARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRW   53 (54)
Q Consensus         2 ~~g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~   53 (54)
                      |||+++|||||+||+     ||+++|+++|+ ||||++++|+||++++||+|+||++
T Consensus         1 a~g~~~HlKRl~aP~~w~i~rK~~kw~~~P~-pGPH~~~~slPL~~iiRd~LkyAd~   56 (241)
T COG1471           1 ARGPKRHLKRLAAPKSWPIPRKTGKWAVRPS-PGPHKAEESLPLLVIIRDYLKYADN   56 (241)
T ss_pred             CCchhhhhhhccCCceEEeccccceEeccCC-CCCCcccccccEEeeehhHHHhccc
Confidence            579999999999999     99999999999 9999999999999999999999987

>PTZ00223 40S ribosomal protein S4; Provisional

Probab=99.88  E-value=3.9e-24  Score=151.55  Aligned_cols=49  Identities=37%  Similarity=0.450  Sum_probs=47.2

Q ss_pred             hhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442            5 LKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY   54 (54)
Q Consensus         5 ~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~   54 (54)
                      .++|||||+||+     |++++|||+|| ||||+++|||||+|||||+|+||+|+
T Consensus         2 ~kkHlKRl~AP~~W~i~kk~~~~a~rps-pGPH~~~esiPL~iiLRd~LkyA~t~   55 (273)
T PTZ00223          2 AKKHLKRLYAPKDWMLSKLTGVFAPRPR-AGPHKLRECLPLLIIIRNRLKYALNA   55 (273)
T ss_pred             ccchhhhhcCccccccccccceeccCCC-CCCCccccccccHHHHHHHhhhhccH
Confidence            479999999999     99999999999 99999999999999999999999985

>KOG0378 consensus 40S ribosomal protein S4 [Translation, ribosomal structure and biogenesis]

Probab=99.84  E-value=3.9e-22  Score=141.26  Aligned_cols=53  Identities=42%  Similarity=0.432  Sum_probs=52.1

Q ss_pred             CcchhhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442            1 MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY   54 (54)
Q Consensus         1 m~~g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~   54 (54)
                      |++|+++||||++||+     |++|+|||+|| +|||+++||+||++|+||+|+||+||
T Consensus         1 m~~g~k~hlKr~~ap~~wmldk~~G~fa~~ps-~gphk~reclpl~~~~~~~Lkya~~~   58 (263)
T KOG0378|consen    1 MARGPKKHLKRLAAPKHWMLDKLGGVFAPMPS-SGPHKLRECLPLIVFLRNRLKYALNG   58 (263)
T ss_pred             CCcchhhhhhhhcccHhheecccCcEEecCCC-CCCcccccceeEEEEeehhhhhhhcc
Confidence            8999999999999999     99999999999 99999999999999999999999986

>PF08071 RS4NT: RS4NT (NUC023) domain; InterPro: IPR013843 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.70  E-value=4.3e-18  Score=91.61  Aligned_cols=33  Identities=45%  Similarity=0.595  Sum_probs=19.0

Q ss_pred             chhhhhhccccCCC-----ccccccccCCCCCCCCCCCC
Q 035442            3 RYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSE   36 (54)
Q Consensus         3 ~g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~   36 (54)
                      +|+++||||++||+     |++++||++|| ||||+++|
T Consensus         1 ~G~kkHlKRl~AP~~W~i~kk~~~~a~rps-pGPH~~~e   38 (38)
T PF08071_consen    1 RGPKKHLKRLAAPKSWMIDKKTGKFAPRPS-PGPHKLRE   38 (38)
T ss_dssp             -S-----BCCCS-GGGT--SSSSSB------SSSS-CCC
T ss_pred             CCcccccccccCCcccccccccCccccCCC-CCCccCCC
Confidence            58999999999998     99999999999 99999986

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaeal ribosomal proteins can be grouped on the basis of sequence similarities. One of these families includes yeast S7 (YS6); archaeal S4e; and mammalian and plant cytoplasmic S4 []. Two highly similar isoforms of mammalian S4 exist, one coded by a gene on chromosome Y, and the other on chromosome X. These proteins have 233 to 264 amino acids. This entry represents the N-terminal region of these proteins.; PDB: 2XZM_W 2XZN_W 3U5G_E 3U5C_E.

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	54
2xzm_W	260	40S ribosomal protein S4; ribosome, translation; 3	4e-04
3iz6_D	265	40S ribosomal protein S4 (S4E); eukaryotic ribosom	9e-04

>2xzm_W 40S ribosomal protein S4; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_W Length = 260

 Score = 34.7 bits (79), Expect = 4e-04
 Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 6/54 (11%)

Query: 1  MARYLKKHQKRLNARGT-----CSGTFAPKPLIPQTNSGSEFMPFICGPKNRLK 49
          MAR  KKH KR+NA  +       G +A +P     +   E +P     K RL 
Sbjct: 1  MARGPKKHLKRINAPKSWMLNKLGGIWATRPS-QGPHKLRESLPLSVLLKERLN 53

>3iz6_D 40S ribosomal protein S4 (S4E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Length = 265

 Score = 33.9 bits (77), Expect = 9e-04
 Identities = 25/54 (46%), Positives = 28/54 (51%), Gaps = 6/54 (11%)

Query: 1  MARYLKKHQKRLNARGT-----CSGTFAPKPLIPQTNSGSEFMPFICGPKNRLK 49
          MAR LKKH KRLNA          G FAPKP     +   E +P I   +NRLK
Sbjct: 1  MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPS-SGPHKSRECLPLILIIRNRLK 53

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	54
2xzm_W	260	40S ribosomal protein S4; ribosome, translation; 3	99.94
3u5c_E	261	RP5, S7, YS6, 40S ribosomal protein S4-A; translat	99.93
3j20_E	243	30S ribosomal protein S4E; archaea, archaeal, KINK	99.93
3iz6_D	265	40S ribosomal protein S4 (S4E); eukaryotic ribosom	99.93
3kbg_A	213	30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR2	98.37

>2xzm_W 40S ribosomal protein S4; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_W

Probab=99.94  E-value=3.9e-28  Score=169.89  Aligned_cols=53  Identities=34%  Similarity=0.326  Sum_probs=50.8

Q ss_pred             CcchhhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442            1 MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY   54 (54)
Q Consensus         1 m~~g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~   54 (54)
                      ||||+++|||||+||+     |++++|||+|| ||||+++|||||+|||||+|+||+|+
T Consensus         1 marG~kkHlKRl~AP~~W~l~kk~~~~a~rps-pGPH~~~eslPL~i~LRd~LkyA~t~   58 (260)
T 2xzm_W            1 MARGPKKHLKRINAPKSWMLNKLGGIWATRPS-QGPHKLRESLPLSVLLKERLNYALNG   58 (260)
T ss_dssp             -CCSCCCCCBGGGSCGGGTCCSSSCSBCCCCC-SSSSCSSSCEEHHHHHTTTTCSCCSH
T ss_pred             CCCCccccccceeCCccceeccccceEccCCC-CCCCccceeehhHhhhhhhhccccch
Confidence            9999999999999999     89999999999 99999999999999999999999984

>3u5c_E RP5, S7, YS6, 40S ribosomal protein S4-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_D 3u5g_E

Probab=99.93  E-value=4.2e-28  Score=169.80  Aligned_cols=53  Identities=42%  Similarity=0.439  Sum_probs=51.0

Q ss_pred             CcchhhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442            1 MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY   54 (54)
Q Consensus         1 m~~g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~   54 (54)
                      ||||+++|||||+||+     |++++|||+|| ||||+++|||||+|||||+|+||+|+
T Consensus         1 Marg~kkHlKRl~AP~~W~l~kk~~~fa~rps-~GPH~l~eslPL~i~LRd~LkyA~t~   58 (261)
T 3u5c_E            1 MARGPKKHLKRLAAPHHWLLDKLSGCYAPRPS-AGPHKLRESLPLIVFLRNRLKYALNG   58 (261)
T ss_dssp             -CCSCCCCCBTTTSCGGGCCCSSSSSBCCCCC-SSSSCGGGEEEHHHHHHHTTCCCSSS
T ss_pred             CCCCcccccccccCCcccccccccceeccCCC-CCCCcchhheeeHHHhhhhhcccccH
Confidence            9999999999999998     99999999999 99999999999999999999999985

>3j20_E 30S ribosomal protein S4E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=99.93  E-value=1e-27  Score=166.25  Aligned_cols=53  Identities=26%  Similarity=0.282  Sum_probs=49.7

Q ss_pred             Ccc-hhhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442            1 MAR-YLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY   54 (54)
Q Consensus         1 m~~-g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~   54 (54)
                      ||| |+++|||||+||+     |++++|||+|| ||||+++|||||+|||||+|+||+|+
T Consensus         1 Mar~g~kkHlKRl~AP~~W~l~kk~~~~a~rps-~GPH~~~~~lPL~i~LRdrLgyA~t~   59 (243)
T 3j20_E            1 MARKGPKRHLKRLAAPTSWYIERKAYKWAVRPR-PGPHNMRTSIPLLYIVRDYLGYAKTA   59 (243)
T ss_dssp             --CCSCCCCBCSTTSCTTSCCCTTSSSCBCCCC-SCSSCSTTCEEHHHHHHTTSCCCSSH
T ss_pred             CCCcCcccccccccCCcccccccccceeccCCC-CCCCccccceeehhhhhhhhccccCH
Confidence            899 9999999999998     99999999999 99999999999999999999999973

>3iz6_D 40S ribosomal protein S4 (S4E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}

Probab=99.93  E-value=4.3e-28  Score=170.02  Aligned_cols=53  Identities=49%  Similarity=0.627  Sum_probs=15.3

Q ss_pred             CcchhhhhhccccCCC-----ccccccccCCCCCCCCCCCCccceeeeecccccCcccC
Q 035442            1 MARYLKKHQKRLNARG-----TCSGTFAPKPLIPQTNSGSEFMPFICGPKNRLKPGRWY   54 (54)
Q Consensus         1 m~~g~~kHlKRl~AP~-----k~~~~~a~kps~pGPH~~~~slPL~i~lRd~Lk~A~~~   54 (54)
                      ||||+++|||||+||+     |++++|||+|| ||||+++|||||+|||||+|+||+|+
T Consensus         1 Marg~kkHlKRl~AP~~W~l~kk~~~fa~rps-pGPHkl~eslPL~i~LRd~LkyA~t~   58 (265)
T 3iz6_D            1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPS-SGPHKSRECLPLILIIRNRLKYALTY   58 (265)
T ss_dssp             -------------------------------------------CHHHHHHHHHTTSSCS
T ss_pred             CCCCcccccccccCCcccccccccceeccCCC-CCCCcchhheeeHHHhhhhhcccccH
Confidence            9999999999999998     99999999999 99999999999999999999999985

>3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.75A {Thermoplasma acidophilum}

Probab=98.37  E-value=1.7e-08  Score=68.96  Aligned_cols=23  Identities=9%  Similarity=0.021  Sum_probs=20.1

Q ss_pred             CCCCCccceeeeecccccCcccC
Q 035442           32 NSGSEFMPFICGPKNRLKPGRWY   54 (54)
Q Consensus        32 H~~~~slPL~i~lRd~Lk~A~~~   54 (54)
                      |+++|||||+|||||+|+||+|+
T Consensus         2 Hkl~eslPL~i~LRdrLgyA~t~   24 (213)
T 3kbg_A            2 HPKDQSVTLLSIIRDYLKLSDKE   24 (213)
T ss_dssp             --CCSCEEHHHHHHHHHHTTTCG
T ss_pred             CcchhceeeHHHHhhhhcccccH
Confidence            99999999999999999999984

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Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00