Psyllid ID: psy873

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-
Protein Sequence
MDEDLLLENSQKLQAVLPSVKDKSKPSAATSYTIGGVKVEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDASAD
Secondary Structure (PSIPRED)
ccHHHcccccHHHccccccccccccccccEEEEEEEEcccccccccccccHHHHHHHHHHHHcccccEEEEEcccccEEEcccccccccccccccEEEEEEEccccccccccccccEEEEEEEEcccccccEEEEEccccc
Secondary Structure Prediction (SSPRO)
ccHHHHccccHHHHHHHHccccccccEEEHHHHHHHHHHHccccccHcccHHHHHHHHHHHHHHccccccEEcHHHHHHHHHHcccHHcccccccEEEEEEEEccccccccccccEEEEEEEEEcccccccEEEEEccccc
Coil and Loop (DISEMBL)
MDEDLLLENSQKLQAVLpsvkdkskpsaatsytiggvkvefpvkaypsqismMTKESSKYISSMHLSVLCTvdlscpiwfwwgtslinmdirsvpFRIRVRLsrrrnddedsphklytlvtwvpvptfkelqtenvdasad
Flexible Loop (DISEMBL)
MDEDLLLENSQKLQAvlpsvkdkskpsaatsytiggvkvefPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGtslinmdirsvPFRIRVRLsrrrnddedsphklytlvtwvpvptfkelqtenvdasad
Low Complexity Region (SEG)
MDEDLLLENSQKLQAVLPSVKDKSKPSAATSYTIGGVKVEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDASAD
Disordered region (IsUnstruct)
*******************************YTIGGVKVEFPVKAYPSQISM*****SKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRL***********HKLYTLVTWVPVPTFK************
Disordered Region (DISOPRED)
******************************SYTIGGVKVEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRL************KLYTLVTWVPVPTFKELQ*********
Disordered Region (DISEMBL)
MDEDLLLENSQKLQAVL*************SYTIGGVKVEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQ*********
Disordered Region (DISPRO)
***********************SKPSAATSYTIGGVKVEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVD****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDEDLLLENSQKLQAVLPSVKDKSKPSAATSYTIGGVKVEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDASAD
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

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	141	2.2.26 [Sep-21-2011]
Q9XGL4	119	60S ribosomal protein L31	N/A	N/A	0.815	0.966	0.416	2e-17
Q5RBR9	125	60S ribosomal protein L31	yes	N/A	0.347	0.392	0.775	3e-16
P62902	125	60S ribosomal protein L31	yes	N/A	0.347	0.392	0.775	6e-16
P62901	125	60S ribosomal protein L31	yes	N/A	0.347	0.392	0.775	6e-16
P62900	125	60S ribosomal protein L31	yes	N/A	0.347	0.392	0.775	6e-16
Q1KSC7	125	60S ribosomal protein L31	N/A	N/A	0.347	0.392	0.775	6e-16
P62899	125	60S ribosomal protein L31	yes	N/A	0.347	0.392	0.775	6e-16
Q56JX3	125	60S ribosomal protein L31	yes	N/A	0.347	0.392	0.775	6e-16
Q6NUH0	125	60S ribosomal protein L31	N/A	N/A	0.347	0.392	0.734	8e-15
Q90YT7	125	60S ribosomal protein L31	N/A	N/A	0.347	0.392	0.714	8e-15

>sp|Q9XGL4|RL31_CYAPA 60S ribosomal protein L31 OS=Cyanophora paradoxa GN=RPL31 PE=3 SV=1

 Score = 87.4 bits (215), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 52/125 (41%), Positives = 70/125 (56%), Gaps = 10/125 (8%)

Query: 17  LPSVKDKSKPSA---ATSYTIGGVKVEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVD 73
           +P  ++K   +A      YTI   K    V  +  +     KE  K+ S +  +    VD
Sbjct: 1   MPKAENKKSRAAEIVTREYTINLHKRLHGV-GFKKRAPRAVKEIKKFASKIMGTTDVRVD 59

Query: 74  LSCPIWFWWGTSLINMDIRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQT 133
                + W      N  IRSVP+R+RVRL+R+RNDDED+  KLYTLVT+VPV +FK LQT
Sbjct: 60  PRLNKFVW------NQGIRSVPYRVRVRLARKRNDDEDAKEKLYTLVTYVPVTSFKGLQT 113

Query: 134 ENVDA 138
           +NVDA
Sbjct: 114 QNVDA 118

Cyanophora paradoxa (taxid: 2762)

>sp|Q5RBR9|RL31_PONAB 60S ribosomal protein L31 OS=Pongo abelii GN=RPL31 PE=2 SV=1

 Score = 83.6 bits (205), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 77  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDGN 125

Pongo abelii (taxid: 9601)

>sp|P62902|RL31_RAT 60S ribosomal protein L31 OS=Rattus norvegicus GN=Rpl31 PE=2 SV=1

 Score = 82.8 bits (203), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 77  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN 125

Rattus norvegicus (taxid: 10116)

>sp|P62901|RL31_PIG 60S ribosomal protein L31 OS=Sus scrofa GN=RPL31 PE=2 SV=1

 Score = 82.8 bits (203), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 77  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN 125

Sus scrofa (taxid: 9823)

>sp|P62900|RL31_MOUSE 60S ribosomal protein L31 OS=Mus musculus GN=Rpl31 PE=2 SV=1

 Score = 82.8 bits (203), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 77  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN 125

Mus musculus (taxid: 10090)

>sp|Q1KSC7|RL31_MARMO 60S ribosomal protein L31 OS=Marmota monax GN=RPL31 PE=2 SV=1

 Score = 82.8 bits (203), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 77  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN 125

Marmota monax (taxid: 9995)

>sp|P62899|RL31_HUMAN 60S ribosomal protein L31 OS=Homo sapiens GN=RPL31 PE=1 SV=1

 Score = 82.8 bits (203), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 77  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN 125

Homo sapiens (taxid: 9606)

>sp|Q56JX3|RL31_BOVIN 60S ribosomal protein L31 OS=Bos taurus GN=RPL31 PE=2 SV=1

 Score = 82.8 bits (203), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 77  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN 125

Bos taurus (taxid: 9913)

>sp|Q6NUH0|RL31_XENLA 60S ribosomal protein L31 OS=Xenopus laevis GN=rpl31 PE=2 SV=1

 Score = 79.0 bits (193), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 36/49 (73%), Positives = 44/49 (89%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV  +K LQT NVD +
Sbjct: 77  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTNYKGLQTVNVDEN 125

Xenopus laevis (taxid: 8355)

>sp|Q90YT7|RL31_ICTPU 60S ribosomal protein L31 OS=Ictalurus punctatus GN=rpl31 PE=2 SV=1

 Score = 79.0 bits (193), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 35/49 (71%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           +R+VP+R+RVRLSR+RN+DEDSP+KLYTLVT+VPV T+K LQT NVD +
Sbjct: 77  VRNVPYRMRVRLSRKRNEDEDSPNKLYTLVTYVPVTTYKGLQTVNVDEN 125

Ictalurus punctatus (taxid: 7998)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	141
110671500	122	putative ribosomal protein L31e [Diaphor	0.361	0.418	0.980	2e-21
187127218	124	ribosomal protein L31 [Acyrthosiphon pis	0.574	0.653	0.540	2e-17
121543821	122	ribosomal protein L31-like protein [Maco	0.645	0.745	0.463	2e-16
14423905	119	RecName: Full=60S ribosomal protein L31	0.815	0.966	0.416	2e-15
158187882	123	ribosomal protein rpl31 [Eurythoe compla	0.560	0.642	0.517	1e-14
197098762	125	60S ribosomal protein L31 [Pongo abelii]	0.347	0.392	0.775	2e-14
297287320	149	PREDICTED: 60S ribosomal protein L31-lik	0.347	0.328	0.795	3e-14
82898755	124	PREDICTED: 60S ribosomal protein L31-lik	0.347	0.395	0.775	3e-14
431902451	125	60S ribosomal protein L31 [Pteropus alec	0.347	0.392	0.775	3e-14
291411675	124	PREDICTED: ribosomal protein L31-like [O	0.347	0.395	0.775	3e-14

>gi|110671500|gb|ABG82001.1| putative ribosomal protein L31e [Diaphorina citri]

 Score =  107 bits (267), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 50/51 (98%), Positives = 51/51 (100%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDASAD 141
           I+SVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDASAD
Sbjct: 72  IKSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDASAD 122

Source: Diaphorina citri

Species: Diaphorina citri

Genus: Diaphorina

Family: Psyllidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|187127218|ref|NP_001119660.1| ribosomal protein L31 [Acyrthosiphon pisum] gi|89473742|gb|ABD72683.1| ribosomal protein L31-like [Acyrthosiphon pisum] gi|239788173|dbj|BAH70778.1| ACYPI000033 [Acyrthosiphon pisum]

 Score = 93.6 bits (231), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 47/87 (54%), Positives = 58/87 (66%), Gaps = 6/87 (6%)

Query: 55  KESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRLSRRRNDDEDSPH 114
           KE  K+ +    +    +D     + W      +  IRSVPFRIRV+L+RRRNDDEDSPH
Sbjct: 44  KEIRKFATQQMGTQDVRIDTRLNKFVW------SKGIRSVPFRIRVQLARRRNDDEDSPH 97

Query: 115 KLYTLVTWVPVPTFKELQTENVDASAD 141
           KLYTLVTWV VPTFK+L TENVD + +
Sbjct: 98  KLYTLVTWVNVPTFKKLGTENVDGTEE 124

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|121543821|gb|ABM55575.1| ribosomal protein L31-like protein [Maconellicoccus hirsutus]

 Score = 90.5 bits (223), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 45/97 (46%), Positives = 62/97 (63%), Gaps = 6/97 (6%)

Query: 45  AYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRLSR 104
            +  +     KE  K+ +    +    +D     + W      +  IRSVPFRIRV+LSR
Sbjct: 32  GFKKRAPRAVKEIRKFATQQMGTNDVRIDTRLNKFIW------SKGIRSVPFRIRVQLSR 85

Query: 105 RRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDASAD 141
           RRN+DEDSP+KLYTLV+WVPVP+FK+L TENV+++ D
Sbjct: 86  RRNEDEDSPNKLYTLVSWVPVPSFKKLGTENVESTQD 122

Source: Maconellicoccus hirsutus

Species: Maconellicoccus hirsutus

Genus: Maconellicoccus

Family: Pseudococcidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|14423905|sp|Q9XGL4.1|RL31_CYAPA RecName: Full=60S ribosomal protein L31 gi|5123727|emb|CAB45375.1| ribosomal protein L31 [Cyanophora paradoxa]

 Score = 87.4 bits (215), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 52/125 (41%), Positives = 70/125 (56%), Gaps = 10/125 (8%)

Query: 17  LPSVKDKSKPSA---ATSYTIGGVKVEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVD 73
           +P  ++K   +A      YTI   K    V  +  +     KE  K+ S +  +    VD
Sbjct: 1   MPKAENKKSRAAEIVTREYTINLHKRLHGV-GFKKRAPRAVKEIKKFASKIMGTTDVRVD 59

Query: 74  LSCPIWFWWGTSLINMDIRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQT 133
                + W      N  IRSVP+R+RVRL+R+RNDDED+  KLYTLVT+VPV +FK LQT
Sbjct: 60  PRLNKFVW------NQGIRSVPYRVRVRLARKRNDDEDAKEKLYTLVTYVPVTSFKGLQT 113

Query: 134 ENVDA 138
           +NVDA
Sbjct: 114 QNVDA 118

Source: Cyanophora paradoxa

Species: Cyanophora paradoxa

Genus: Cyanophora

Family: Cyanophoraceae

Class: Glaucocystophyceae

Superkingdom: Eukaryota

>gi|158187882|gb|ABW23230.1| ribosomal protein rpl31 [Eurythoe complanata]

 Score = 84.7 bits (208), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 44/85 (51%), Positives = 55/85 (64%), Gaps = 6/85 (7%)

Query: 55  KESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRLSRRRNDDEDSPH 114
           KE  K+   M  +    VD       W      +  IR+VP+R+RVRL+R+RN+DEDSPH
Sbjct: 44  KEIRKFAEKMMGTPDVRVDTRLNKHMW------SKGIRNVPYRVRVRLARKRNEDEDSPH 97

Query: 115 KLYTLVTWVPVPTFKELQTENVDAS 139
           KLYTLVT+VPV TFK  QT NVD+S
Sbjct: 98  KLYTLVTYVPVATFKGTQTVNVDSS 122

Source: Eurythoe complanata

Species: Eurythoe complanata

Genus: Eurythoe

Family: Amphinomidae

Order: Eunicida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|197098762|ref|NP_001125448.1| 60S ribosomal protein L31 [Pongo abelii] gi|75055087|sp|Q5RBR9.1|RL31_PONAB RecName: Full=60S ribosomal protein L31 gi|55728078|emb|CAH90791.1| hypothetical protein [Pongo abelii]

 Score = 83.6 bits (205), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 77  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDGN 125

Source: Pongo abelii

Species: Pongo abelii

Genus: Pongo

Family: Hominidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|297287320|ref|XP_001103204.2| PREDICTED: 60S ribosomal protein L31-like isoform 4 [Macaca mulatta]

 Score = 83.6 bits (205), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 39/49 (79%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IRSVP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 101 IRSVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN 149

Source: Macaca mulatta

Species: Macaca mulatta

Genus: Macaca

Family: Cercopithecidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|82898755|ref|XP_922988.1| PREDICTED: 60S ribosomal protein L31-like isoform 1 [Mus musculus]

 Score = 83.6 bits (205), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 76  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN 124

Source: Mus musculus

Species: Mus musculus

Genus: Mus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|431902451|gb|ELK08950.1| 60S ribosomal protein L31 [Pteropus alecto]

 Score = 83.6 bits (205), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 77  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN 125

Source: Pteropus alecto

Species: Pteropus alecto

Genus: Pteropus

Family: Pteropodidae

Order: Chiroptera

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|291411675|ref|XP_002722113.1| PREDICTED: ribosomal protein L31-like [Oryctolagus cuniculus]

 Score = 83.2 bits (204), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 76  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN 124

Source: Oryctolagus cuniculus

Species: Oryctolagus cuniculus

Genus: Oryctolagus

Family: Leporidae

Order: Lagomorpha

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

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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)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	141
FB|FBgn0025286	124	RpL31 "Ribosomal protein L31"	0.361	0.411	0.803	3.2e-17
UNIPROTKB|Q56JX3	125	RPL31 "60S ribosomal protein L	0.333	0.376	0.808	7.7e-16
UNIPROTKB|E2R8G3	125	LOC607833 "Uncharacterized pro	0.333	0.376	0.808	7.7e-16
UNIPROTKB|J9NYL5	130	LOC608123 "Uncharacterized pro	0.333	0.361	0.808	7.7e-16
UNIPROTKB|J9P252	125	J9P252 "Uncharacterized protei	0.333	0.376	0.808	7.7e-16
UNIPROTKB|J9P3J8	128	LOC607833 "Uncharacterized pro	0.333	0.367	0.808	7.7e-16
UNIPROTKB|P62899	125	RPL31 "60S ribosomal protein L	0.333	0.376	0.808	7.7e-16
UNIPROTKB|P62901	125	RPL31 "60S ribosomal protein L	0.333	0.376	0.808	7.7e-16
RGD|2319106	125	Rpl31l4 "ribosomal protein L31	0.333	0.376	0.808	7.7e-16
RGD|621202	125	Rpl31 "ribosomal protein L31"	0.333	0.376	0.808	7.7e-16

FB|FBgn0025286 RpL31 "Ribosomal protein L31" [Drosophila melanogaster (taxid:7227)]

 Score = 211 (79.3 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 41/51 (80%), Positives = 46/51 (90%)

Query:    91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDASAD 141
             IRS PFRIRVRL+RRRNDDEDSP+KLYT VT+VPV TFK LQTENV++S D
Sbjct:    74 IRSTPFRIRVRLARRRNDDEDSPNKLYTYVTYVPVSTFKNLQTENVESSDD 124

GO:0003735 "structural constituent of ribosome" evidence=ISS;IDA;NAS

GO:0022625 "cytosolic large ribosomal subunit" evidence=ISS;NAS

GO:0006412 "translation" evidence=ISS;NAS

GO:0005840 "ribosome" evidence=IDA

GO:0000022 "mitotic spindle elongation" evidence=IMP

GO:0007052 "mitotic spindle organization" evidence=IMP

UNIPROTKB|Q56JX3 RPL31 "60S ribosomal protein L31" [Bos taurus (taxid:9913)]

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 38/47 (80%), Positives = 44/47 (93%)

Query:    91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVD 137
             IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD
Sbjct:    77 IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVD 123

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

UNIPROTKB|E2R8G3 LOC607833 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 38/47 (80%), Positives = 44/47 (93%)

Query:    91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVD 137
             IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD
Sbjct:    77 IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVD 123

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

UNIPROTKB|J9NYL5 LOC608123 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 38/47 (80%), Positives = 44/47 (93%)

Query:    91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVD 137
             IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD
Sbjct:    82 IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVD 128

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

UNIPROTKB|J9P252 J9P252 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 38/47 (80%), Positives = 44/47 (93%)

Query:    91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVD 137
             IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD
Sbjct:    77 IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVD 123

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

UNIPROTKB|J9P3J8 LOC607833 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 38/47 (80%), Positives = 44/47 (93%)

Query:    91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVD 137
             IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD
Sbjct:    80 IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVD 126

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

UNIPROTKB|P62899 RPL31 "60S ribosomal protein L31" [Homo sapiens (taxid:9606)]

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 38/47 (80%), Positives = 44/47 (93%)

Query:    91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVD 137
             IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD
Sbjct:    77 IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVD 123

GO:0006412 "translation" evidence=NAS;TAS

GO:0003735 "structural constituent of ribosome" evidence=NAS

GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA

GO:0003723 "RNA binding" evidence=TAS

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006413 "translational initiation" evidence=TAS

GO:0006414 "translational elongation" evidence=TAS

GO:0006415 "translational termination" evidence=TAS

GO:0006614 "SRP-dependent cotranslational protein targeting to membrane" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0019058 "viral infectious cycle" evidence=TAS

GO:0019083 "viral transcription" evidence=TAS

GO:0044267 "cellular protein metabolic process" evidence=TAS

UNIPROTKB|P62901 RPL31 "60S ribosomal protein L31" [Sus scrofa (taxid:9823)]

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 38/47 (80%), Positives = 44/47 (93%)

Query:    91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVD 137
             IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD
Sbjct:    77 IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVD 123

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

RGD|2319106 Rpl31l4 "ribosomal protein L31-like 4" [Rattus norvegicus (taxid:10116)]

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 38/47 (80%), Positives = 44/47 (93%)

Query:    91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVD 137
             IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD
Sbjct:    77 IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVD 123

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

RGD|621202 Rpl31 "ribosomal protein L31" [Rattus norvegicus (taxid:10116)]

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 38/47 (80%), Positives = 44/47 (93%)

Query:    91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVD 137
             IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD
Sbjct:    77 IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVD 123

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0022625 "cytosolic large ribosomal subunit" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9V597	RL31_DROME	No assigned EC number	0.8039	0.3617	0.4112	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	141
pfam01198	83	pfam01198, Ribosomal_L31e, Ribosomal protein L31e	6e-09
PTZ00193	188	PTZ00193, PTZ00193, 60S ribosomal protein L31; Pro	1e-05
cd00463	83	cd00463, Ribosomal_L31e, Eukaryotic/archaeal ribos	6e-04

>gnl|CDD|216358 pfam01198, Ribosomal_L31e, Ribosomal protein L31e

 Score = 49.5 bits (119), Expect = 6e-09
 Identities = 16/25 (64%), Positives = 19/25 (76%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHK 115
           IR+ P R+RVR SR+RNDDED   K
Sbjct: 59  IRNPPSRVRVRASRKRNDDEDGKVK 83

Length = 83

>gnl|CDD|140220 PTZ00193, PTZ00193, 60S ribosomal protein L31; Provisional

 Score = 42.7 bits (100), Expect = 1e-05
 Identities = 18/48 (37%), Positives = 29/48 (60%), Gaps = 1/48 (2%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHK-LYTLVTWVPVPTFKELQTENVD 137
           ++ VP R+RV + R+    E    K  YT+++ VPV +FK L T+ V+
Sbjct: 140 VKGVPGRVRVLVERKSETLEGGKRKHFYTVISNVPVASFKNLTTKVVE 187

Length = 188

>gnl|CDD|199209 cd00463, Ribosomal_L31e, Eukaryotic/archaeal ribosomal protein L31

 Score = 36.0 bits (84), Expect = 6e-04
 Identities = 11/24 (45%), Positives = 16/24 (66%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPH 114
           I   P R+RVR+SR+R + ED+  
Sbjct: 60  IEKPPRRVRVRVSRKREETEDAVL 83

Ribosomal protein L31e, which is present in archaea and eukaryotes, binds the 23S rRNA and is one of six protein components encircling the polypeptide exit tunnel. It is a component of the eukaryotic 60S (large) ribosomal subunit, and the archaeal 50S (large) ribosomal subunit. Length = 83

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	141
PTZ00193	188	60S ribosomal protein L31; Provisional	100.0
KOG0893|consensus	125		100.0
PF01198	83	Ribosomal_L31e: Ribosomal protein L31e; InterPro:	99.96
PRK01192	89	50S ribosomal protein L31e; Reviewed	99.94
COG2097	89	RPL31A Ribosomal protein L31E [Translation, riboso	99.91
KOG1132|consensus	945		92.91
PF01781	69	Ribosomal_L38e: Ribosomal L38e protein family; Int	83.91
KOG3499|consensus	69		83.84

>PTZ00193 60S ribosomal protein L31; Provisional

Probab=100.00  E-value=7.7e-44  Score=284.95  Aligned_cols=113  Identities=26%  Similarity=0.376  Sum_probs=106.1

Q ss_pred             hhcccccCCCCCCceEEEEEcCcc----CCCCCCChHHHHHHHHHHHHHHhcCCCcceEEecCCChhhhhhhhccccccc
Q psy873           15 AVLPSVKDKSKPSAATSYTIGGVK----VEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMD   90 (141)
Q Consensus        15 ~~~~~~~~~~~~~vt~eYTI~l~k----v~f~~krap~Aik~irkf~~k~mks~~~~V~id~~lN~~iW~~~~tsl~akG   90 (141)
                      |-|-.-+.+.++++|+||||||||    ++|+++ ||+||++|++|++|||++  ++|+||++||++||        ++|
T Consensus        71 ~~~~~~~~~~~e~VTREyTINLHKriHgv~fKKR-APrAIKeIRkFA~K~MgT--~DVRIDtrLNkaIW--------srG  139 (188)
T PTZ00193         71 ASLRKRTGRKPDNISMEATIHLSKLLKKKTFHKR-APIAIKRIKAFVGRLMKT--KDNRIDASLNTYIW--------HKG  139 (188)
T ss_pred             HHHHHhhccCCCcceeEEEEeeeehhcCCCcccc-CHHHHHHHHHHHHHhcCC--CcEEECHHHHHHHH--------Hcc
Confidence            444455668899999999999998    899998 999999999999999999  59999999999999        999


Q ss_pred             cccCCeeEEEEEeeccCCCCCCCCc-eeEEEEEEecCCCCCceeEEecC
Q psy873           91 IRSVPFRIRVRLSRRRNDDEDSPHK-LYTLVTWVPVPTFKELQTENVDA  138 (141)
Q Consensus        91 IrnvP~rIRVr~sRk~nededs~~K-lytlVt~VpV~tFKgLqT~~v~~  138 (141)
                      |+|||+|||||++|++||||||+|| |||+|+||||++||||||++|++
T Consensus       140 IRnvP~RIRVRlsRKrNedEDs~~KklYTlVtyVpV~sFKgLqT~~Vdq  188 (188)
T PTZ00193        140 VKGVPGRVRVLVERKSETLEGGKRKHFYTVISNVPVASFKNLTTKVVEQ  188 (188)
T ss_pred             CcCCCceEEEEEEeecCccccCcccceEEEEEEEEcCCccCceEEeccC
Confidence            9999999999999999999999997 99999999999999999999975

>KOG0893|consensus

Probab=100.00  E-value=1.1e-33  Score=215.38  Aligned_cols=103  Identities=41%  Similarity=0.595  Sum_probs=97.0

Q ss_pred             cCCCCCCceEEEEEcCcc----CCCCCCChHHHHHHHHHHHHHHhcCCCcceEEecCCChhhhhhhhccccccccccCCe
Q psy873           21 KDKSKPSAATSYTIGGVK----VEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPF   96 (141)
Q Consensus        21 ~~~~~~~vt~eYTI~l~k----v~f~~krap~Aik~irkf~~k~mks~~~~V~id~~lN~~iW~~~~tsl~akGIrnvP~   96 (141)
                      ..++.+.++++||||+|+    |.|+++ ||+|+++|+||++++||+  .||++|++||++||        ++||+|+|+
T Consensus        13 ~s~ine~vtre~tinihk~~h~v~fkK~-ap~alkeI~kFA~keMgt--~dv~~Dt~lnkavw--------akgirnv~~   81 (125)
T KOG0893|consen   13 HSAINEVVTREYTINIHKRIHGVGFKKR-APRALKEIWKFAMKEMGT--PDVHVDTRLNKAVW--------EKGIRNVPY   81 (125)
T ss_pred             ccchhhhhhhheecccccchhccchhhh-hHHHHHHHHHHHHHHhCC--ccceecchhhHHHH--------HhcccCCcc
Confidence            346788999999999998    899988 999999999999999999  49999999999999        999999999


Q ss_pred             eEEEEEeeccCCCCCCCCceeEEEEEEecCCCCCceeE
Q psy873           97 RIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTE  134 (141)
Q Consensus        97 rIRVr~sRk~nededs~~KlytlVt~VpV~tFKgLqT~  134 (141)
                      +||||++|++|+|||++++|||+++||||++|+++|..
T Consensus        82 ~irvrlsrk~n~~e~~~~~l~t~~t~v~~~~~~~~~~~  119 (125)
T KOG0893|consen   82 RIRVRLSRKRNEDEDSPNKLYTQVTYVPVSHGKNPQGK  119 (125)
T ss_pred             hhhcccccccccccccchhheeeEEEEeecccccccce
Confidence            99999999999999999999999999999999995443

>PF01198 Ribosomal_L31e: Ribosomal protein L31e; InterPro: IPR000054 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.96  E-value=7.9e-31  Score=187.18  Aligned_cols=80  Identities=35%  Similarity=0.515  Sum_probs=72.3

Q ss_pred             CCCceEEEEEcCcc---CCCCCCChHHHHHHHHHHHHHHhcCCCcceEEecCCChhhhhhhhccccccccccCCeeEEEE
Q psy873           25 KPSAATSYTIGGVK---VEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVR  101 (141)
Q Consensus        25 ~~~vt~eYTI~l~k---v~f~~krap~Aik~irkf~~k~mks~~~~V~id~~lN~~iW~~~~tsl~akGIrnvP~rIRVr  101 (141)
                      ++++||+|||||++   ++|+++ ||+||++|++|+++||+++  +|+||++||++||        ++||++||++|||+
T Consensus         1 ~~~v~re~TInL~k~~~~~~~kR-A~rAvk~Ir~f~~k~mkt~--dV~iD~~lN~~IW--------srGi~~pP~rIRVr   69 (83)
T PF01198_consen    1 KEVVTREYTINLRKVHGVPFKKR-APRAVKEIRKFAQKHMKTE--DVKIDPELNKAIW--------SRGIRKPPRRIRVR   69 (83)
T ss_dssp             TSSEEEEEEEECHHHCCSSGGGH-HHHHHHHHHHHHHHHHTTS--CEEE-HHHHHHHH--------TTTSSS--SEEEEE
T ss_pred             CCceeEEEEEechhhcCCCCccc-CHHHHHHHHHHHHHHhCCC--ceEEchHHHHHHH--------hcccCCCCceEEEE
Confidence            47899999999998   566666 9999999999999999995  9999999999999        99999999999999


Q ss_pred             EeeccCCCCCCCCc
Q psy873          102 LSRRRNDDEDSPHK  115 (141)
Q Consensus       102 ~sRk~nededs~~K  115 (141)
                      ++|++++|||+++|
T Consensus        70 ~~r~~~~~e~~~~~   83 (83)
T PF01198_consen   70 VSRKEEEDEDAKEK   83 (83)
T ss_dssp             EEEETTTTEEEEEE
T ss_pred             EEEcccCCCCCCCC
Confidence            99999999999876

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 archaebacterial large subunit ribosomal proteins can be grouped on the basis of sequence similarities. These proteins have 87 to 128 amino-acid residues. This family consists of: Yeast L34 Archaeal L31 [] Plants L31 Mammalian L31 [] ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3G6E_X 3I56_X 1YIT_X 1NJI_Y 3CC4_X 1VQM_X 1KC8_Y 1VQ9_X 1VQN_X 1M1K_Y ....

>PRK01192 50S ribosomal protein L31e; Reviewed

Probab=99.94  E-value=1e-27  Score=173.34  Aligned_cols=73  Identities=16%  Similarity=0.218  Sum_probs=68.2

Q ss_pred             CCCceEEEEEcCcc---CCCCCCChHHHHHHHHHHHHHHhcCCCcceEEecCCChhhhhhhhccccccccccCCeeEEEE
Q psy873           25 KPSAATSYTIGGVK---VEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVR  101 (141)
Q Consensus        25 ~~~vt~eYTI~l~k---v~f~~krap~Aik~irkf~~k~mks~~~~V~id~~lN~~iW~~~~tsl~akGIrnvP~rIRVr  101 (141)
                      .+.+|++|||||++   ++|++| ||+||++|++|+++||+++.++|+||++||++||        ++||+|||+|||||
T Consensus         3 ~~~~~r~yTInLrk~~~~~~~kR-A~rAik~Ir~f~~k~mkt~~~~V~iD~~lN~~IW--------~rGi~~~P~riRVr   73 (89)
T PRK01192          3 KEVEERIYTIPLRDVKKVPRTKR-ADRAVKLVREFLARHFKADEDKVKIDPSINEKIW--------ERGREKPPSKVRVR   73 (89)
T ss_pred             CcceEEEEEEeCeeccCCCcccc-CHHHHHHHHHHHHHHhCCCCCcEEEChHHHHHHH--------HccCCCCCceEEEE
Confidence            46789999999998   678877 9999999999999999996679999999999999        99999999999999


Q ss_pred             Eeecc
Q psy873          102 LSRRR  106 (141)
Q Consensus       102 ~sRk~  106 (141)
                      ++|+.
T Consensus        74 ~~rk~   78 (89)
T PRK01192         74 VAKKG   78 (89)
T ss_pred             EEEec
Confidence            99974

>COG2097 RPL31A Ribosomal protein L31E [Translation, ribosomal structure and biogenesis]

Probab=99.91  E-value=7e-25  Score=159.12  Aligned_cols=76  Identities=24%  Similarity=0.337  Sum_probs=69.3

Q ss_pred             CCceEEEEEcCcc---CCCCCCChHHHHHHHHHHHHHHhcCCCcceEEecCCChhhhhhhhccccccccccCCeeEEEEE
Q psy873           26 PSAATSYTIGGVK---VEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRL  102 (141)
Q Consensus        26 ~~vt~eYTI~l~k---v~f~~krap~Aik~irkf~~k~mks~~~~V~id~~lN~~iW~~~~tsl~akGIrnvP~rIRVr~  102 (141)
                      .+.|++||||||+   +++++| ||+|+++|++|+++||+++  .|+||++||++||        ++||++||++|||++
T Consensus         5 ~~~er~ytI~LR~~~~v~r~kR-A~rAVk~ir~fv~rHmk~e--~V~id~~lNe~iW--------~rG~ekpP~klRVrv   73 (89)
T COG2097           5 VVVERIYTIPLRRAKKVPRTKR-APRAVKIIRKFVARHMKAE--EVRIDPSLNEKIW--------ERGIEKPPSKLRVRV   73 (89)
T ss_pred             ccceEEEEEEchhhccCCcccc-chHHHHHHHHHHHHHhCCc--eEEECHHHhHHHH--------HhhccCCCceEEEEE
Confidence            7899999999998   677777 9999999999999999995  9999999999999        999999999999999


Q ss_pred             eeccCCCCCCCCce
Q psy873          103 SRRRNDDEDSPHKL  116 (141)
Q Consensus       103 sRk~nededs~~Kl  116 (141)
                      +++    ||.....
T Consensus        74 ~k~----edg~~~v   83 (89)
T COG2097          74 SKF----EDGTVEV   83 (89)
T ss_pred             EEe----cCCeEEE
Confidence            997    5554443

>KOG1132|consensus

Probab=92.91  E-value=0.043  Score=53.74  Aligned_cols=54  Identities=35%  Similarity=0.624  Sum_probs=46.1

Q ss_pred             EEEEEc-CccCCCCCCChHHHHHHHHHHHHHHhcCCC------------cceEEecCCChhhhhhhhccccccc
Q psy873           30 TSYTIG-GVKVEFPVKAYPSQISMMTKESSKYISSMH------------LSVLCTVDLSCPIWFWWGTSLINMD   90 (141)
Q Consensus        30 ~eYTI~-l~kv~f~~krap~Aik~irkf~~k~mks~~------------~~V~id~~lN~~iW~~~~tsl~akG   90 (141)
                      -+++|+ |..|.||..+||.|+.+|.+.+..++..++            +.++|++       ||||.++.++-
T Consensus         6 ~~~~i~~Gv~V~fP~qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~-------LAW~q~~k~~~   72 (945)
T KOG1132|consen    6 PKIVINIGVPVEFPFQPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCST-------LAWQQHLKSRK   72 (945)
T ss_pred             cceEeccCceeeccCCcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHH-------HHHHHHhhccc
Confidence            457777 889999999999999999999999887665            5678888       99999998543

>PF01781 Ribosomal_L38e: Ribosomal L38e protein family; InterPro: IPR002675 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=83.91  E-value=2.1  Score=30.16  Aligned_cols=46  Identities=30%  Similarity=0.247  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHHHHHhcCCCcceEEecCCChhhhhhhhccccccccccCCeeEEEEEeeccCCCCCCCCceeEEE
Q psy873           47 PSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRLSRRRNDDEDSPHKLYTLV  120 (141)
Q Consensus        47 p~Aik~irkf~~k~mks~~~~V~id~~lN~~iW~~~~tsl~akGIrnvP~rIRVr~sRk~nededs~~KlytlV  120 (141)
                      |++|..|++|+....+.+...|+|-.                 .-.+. .+..||.+|          -|||+|
T Consensus         1 Pkqi~~iK~FL~~arrkDAksv~iKk-----------------~~~~~-tKFKvRcsr----------yLYTLv   46 (69)
T PF01781_consen    1 PKQIKDIKDFLETARRKDAKSVKIKK-----------------NKDNG-TKFKVRCSR----------YLYTLV   46 (69)
T ss_dssp             -THHHHHHHHHHHHCSS-EEEEEEEC-----------------ESSST-EEEEEECSS-----------EEEES
T ss_pred             CcchhhHHHHHHHHhhCCCceEEEEe-----------------cCCCe-eEEEEEecc----------eEEEEE
Confidence            78999999999998887655555542                 11111 777888888          488876

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 [, ]. Ribosomal protein L38e forms part of the 60S ribosomal subunit []. This family is found in eukaryotes.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZS_n 3IZR_n 4A1D_P 4A19_P 4A18_P 4A1B_P.

>KOG3499|consensus

Probab=83.84  E-value=3.9  Score=28.81  Aligned_cols=26  Identities=19%  Similarity=-0.012  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHhcCCCcceEEec
Q psy873           47 PSQISMMTKESSKYISSMHLSVLCTV   72 (141)
Q Consensus        47 p~Aik~irkf~~k~mks~~~~V~id~   72 (141)
                      |++|.+|+.|+...-..+...++|-.
T Consensus         2 pr~i~eiK~FL~~arR~Da~s~kiKk   27 (69)
T KOG3499|consen    2 PRQITEIKDFLLTARRKDAKSVKIKK   27 (69)
T ss_pred             cchHHHHHHHHHHHHhcccceeEEEe
Confidence            88999999999998888666666654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	141
2zkr_x	125	Structure Of A Mammalian Ribosomal 60s Subunit With		6e-17
4a17_W	111	T.Thermophila 60s Ribosomal Subunit In Complex With		3e-06
2ww9_M	113	Cryo-Em Structure Of The Active Yeast Ssh1 Complex		2e-05
1s1i_W	112	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		2e-05
3zf7_h	188	High-resolution Cryo-electron Microscopy Structure		3e-05

>pdb|2ZKR|XX Chain x, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 125

Iteration: 1
 Score = 82.8 bits (203), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)
Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS 139
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD +
Sbjct: 77  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN 125

>pdb|4A17|W Chain W, 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 = 111

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 34/59 (57%), Gaps = 5/59 (8%)
Query: 80  FWWGTSLINMDIRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDA 138
           F W        IR++P R+RVRL +R+N++E +  + YTLV  + V ++  L TE   A
Sbjct: 57  FIWSNG-----IRNIPRRVRVRLCKRKNEEEGAQSQFYTLVQHLQVDSYHGLLTEKTKA 110

>pdb|2WW9|M Chain M, Cryo-Em Structure Of The Active Yeast Ssh1 Complex Bound To The Yeast 80s Ribosome Length = 113

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 28/90 (31%), Positives = 49/90 (54%), Gaps = 12/90 (13%)
Query: 54  TKESSKYISSMHLS---VLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRLSRRRNDDE 110
            KE  K+ + +H+    V    +L+  IW           ++ V +R+R+R+SR+RN++E
Sbjct: 33  VKEIKKF-AKLHMGTDDVRLAPELNQAIW--------KRGVKGVEYRLRLRISRKRNEEE 83
Query: 111 DSPHKLYTLVTWVPVPTFKELQTENVDASA 140
           D+ + L++ V  V V + K LQT  V+  A
Sbjct: 84  DAKNPLFSYVEPVLVASAKGLQTVVVEEDA 113

>pdb|1S1I|W Chain W, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is In File 1s1h Length = 112

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 52/99 (52%), Gaps = 12/99 (12%)
Query: 45  AYPSQISMMTKESSKYISSMHLS---VLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVR 101
           ++  +     KE  K+ + +H+    V    +L+  IW           ++ V +R+R+R
Sbjct: 23  SFKKRAPRAVKEIKKF-AKLHMGTDDVRLAPELNQAIW--------KRGVKGVEYRLRLR 73
Query: 102 LSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDASA 140
           +SR+RN++ED+ + L++ V  V V + K LQT  V+  A
Sbjct: 74  ISRKRNEEEDAKNPLFSYVEPVLVASAKGLQTVVVEEDA 112

>pdb|3ZF7|HH Chain h, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 188

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 21/67 (31%), Positives = 37/67 (55%), Gaps = 7/67 (10%)
Query: 72  VDLSCPIWFWWGTSLINMDIRSVPFRIRVRLSRRRNDDEDSPHK-LYTLVTWVPVPTFKE 130
           +D S   + W      +  ++ VP R+RVR+ R+    E    K  YT+++ +PVP+FK 
Sbjct: 127 IDASLNTFIW------HKGVKGVPGRVRVRVERKSETMEGGKRKHFYTVISHIPVPSFKN 180
Query: 131 LQTENVD 137
           L T+ ++
Sbjct: 181 LTTKVIE 187

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	141
3u5e_D	297	60S ribosomal protein L5; translation, ribosome, r	2e-24
4a17_W	111	RPL31, 60S ribosomal protein L31; eukaryotic ribos	3e-24
2zkr_x	125	60S ribosomal protein L31; protein-RNA complex, 60	7e-24
3iz5_G	219	60S ribosomal protein L6 (L6E); eukaryotic ribosom	2e-21
1vq8_X	92	50S ribosomal protein L31E; ribosome 50S, protein-	8e-05

>3u5e_D 60S ribosomal protein L5; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_D 3izc_Q 3izs_Q 3o58_E 3o5h_E 3jyw_E 1s1i_E Length = 297

 Score = 89.9 bits (223), Expect = 2e-24
 Identities = 7/50 (14%), Positives = 11/50 (22%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDASA 140
           I S      V L+   + +       + L  W        L         
Sbjct: 64  IISSTITGDVVLAAAYSHELPRYGITHGLTNWAAAYATGLLIARRTLQKL 113

>4a17_W RPL31, 60S ribosomal protein L31; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_W 4a1c_W 4a1e_W Length = 111

 Score = 89.1 bits (221), Expect = 3e-24
 Identities = 20/48 (41%), Positives = 32/48 (66%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDA 138
           IR++P R+RVRL +R+N++E +  + YTLV  + V ++  L TE   A
Sbjct: 63  IRNIPRRVRVRLCKRKNEEEGAQSQFYTLVQHLQVDSYHGLLTEKTKA 110

>2zkr_x 60S ribosomal protein L31; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 125

 Score = 88.4 bits (219), Expect = 7e-24
 Identities = 38/47 (80%), Positives = 44/47 (93%)

Query: 91  IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVD 137
           IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD
Sbjct: 77  IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVD 123

>1vq8_X 50S ribosomal protein L31E; 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: d.29.1.1 PDB: 1vq4_X* 1vq5_X* 1vq6_X* 1vq7_X* 1s72_X* 1vq9_X* 1vqk_X* 1vql_X* 1vqm_X* 1vqn_X* 1vqo_X* 1vqp_X* 1yhq_X* 1yi2_X* 1yij_X* 1yit_X* 1yj9_X* 1yjn_X* 1yjw_X* 2otj_X* ... Length = 92

 Score = 38.2 bits (89), Expect = 8e-05
 Identities = 7/21 (33%), Positives = 11/21 (52%)

Query: 91  IRSVPFRIRVRLSRRRNDDED 111
             + P +IRVR +R   + E 
Sbjct: 64  RANTPSKIRVRAARFEEEGEA 84

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	141
3u5e_d	113	L34, YL28, 60S ribosomal protein L31-A; translatio	100.0
4a17_W	111	RPL31, 60S ribosomal protein L31; eukaryotic ribos	100.0
2zkr_x	125	60S ribosomal protein L31; protein-RNA complex, 60	100.0
3iz5_g	123	60S ribosomal protein L31 (L31E); eukaryotic ribos	100.0
3j21_a	95	50S ribosomal protein L31E; archaea, archaeal, KIN	99.97
1vq8_X	92	50S ribosomal protein L31E; ribosome 50S, protein-	99.96

>3u5e_d L34, YL28, 60S ribosomal protein L31-A; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_M 2ww9_M 3izc_g 3izs_g 2wwb_M 3o5h_a 3o58_a 3u5i_d 4b6a_d 1s1i_W 3jyw_W

Probab=100.00  E-value=2.6e-49  Score=295.63  Aligned_cols=107  Identities=30%  Similarity=0.453  Sum_probs=101.8

Q ss_pred             CCCCCCceEEEEEcCcc----CCCCCCChHHHHHHHHHHHHHHhcCCCcceEEecCCChhhhhhhhccccccccccCCee
Q psy873           22 DKSKPSAATSYTIGGVK----VEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFR   97 (141)
Q Consensus        22 ~~~~~~vt~eYTI~l~k----v~f~~krap~Aik~irkf~~k~mks~~~~V~id~~lN~~iW~~~~tsl~akGIrnvP~r   97 (141)
                      .++.+++||||||||||    ++|++| ||+|+++|++|++||||++  ||+||++||++||        ++||+|||+|
T Consensus         2 sa~~evvtreyTInlhK~ihgv~fkKr-AprAlkeIrkFa~K~Mgt~--dV~ID~~LNk~vW--------akGirnvP~r   70 (113)
T 3u5e_d            2 AGLKDVVTREYTINLHKRLHGVSFKKR-APRAVKEIKKFAKLHMGTD--DVRLAPELNQAIW--------KRGVKGVEYR   70 (113)
T ss_dssp             --CCCCEEEEEEEEHHHHHTTCCTTTH-HHHHHHHHHHHHHHHHCCS--CEEECHHHHHHHH--------TTCTTCCCSE
T ss_pred             CcccCceeeEEEEeCcceeccCCCccc-CHHHHHHHHHHHHHHcCCC--ceEECcHHHHHHH--------hccccCCCce
Confidence            46788999999999998    789988 9999999999999999994  9999999999999        9999999999


Q ss_pred             EEEEEeeccCCCCCCCCceeEEEEEEecCCCCCceeEEecCC
Q psy873           98 IRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS  139 (141)
Q Consensus        98 IRVr~sRk~nededs~~KlytlVt~VpV~tFKgLqT~~v~~~  139 (141)
                      ||||++|++||||||+|||||+||||||+|||||||++|+++
T Consensus        71 IrVrlsRk~nededs~~klytlvt~v~v~tfk~L~t~~v~~~  112 (113)
T 3u5e_d           71 LRLRISRKRNEEEDAKNPLFSYVEPVLVASAKGLQTVVVEED  112 (113)
T ss_dssp             EEEEEEEEECCSSCCSSSEEEEEEECCCSCCSSCCCEEECCC
T ss_pred             EEEEEEEecCCCCCCccccEEEEEEEEcCCccCceEEEeccC
Confidence            999999999999999999999999999999999999999975

>4a17_W RPL31, 60S ribosomal protein L31; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_W 4a1c_W 4a1e_W

Probab=100.00  E-value=7e-49  Score=292.53  Aligned_cols=105  Identities=30%  Similarity=0.483  Sum_probs=101.0

Q ss_pred             CCCCceEEEEEcCcc----CCCCCCChHHHHHHHHHHHHHHhcCCCcceEEecCCChhhhhhhhccccccccccCCeeEE
Q psy873           24 SKPSAATSYTIGGVK----VEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIR   99 (141)
Q Consensus        24 ~~~~vt~eYTI~l~k----v~f~~krap~Aik~irkf~~k~mks~~~~V~id~~lN~~iW~~~~tsl~akGIrnvP~rIR   99 (141)
                      +.+++||||||||||    ++|++| ||+|+++|++|++||||++  ||+||++||++||        ++||+|||+|||
T Consensus         3 ~~~vvtreyTInlhK~ihgv~fkKr-AprAlkeIrkFa~K~Mgt~--dV~ID~~LNk~vW--------akGirnvP~rIr   71 (111)
T 4a17_W            3 KQEEKSIDTTVNLHKQCHKISFKKK-APRAIREIVAIAKKTMGTD--DVRIDTELNKFIW--------SNGIRNIPRRVR   71 (111)
T ss_dssp             CCCCCEEEEEEEHHHHTTTCCGGGH-HHHHHHHHHHHHHHHHCCS--CEEECHHHHHHHH--------TTCSSSCCSEEE
T ss_pred             CCcceEEEEEEECeeeeecCCcccc-CHHHHHHHHHHHHHHcCCC--ceEECcHHHHHHH--------hccccCCCcEEE
Confidence            568999999999998    788888 9999999999999999994  9999999999999        999999999999


Q ss_pred             EEEeeccCCCCCCCCceeEEEEEEecCCCCCceeEEecCC
Q psy873          100 VRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS  139 (141)
Q Consensus       100 Vr~sRk~nededs~~KlytlVt~VpV~tFKgLqT~~v~~~  139 (141)
                      ||++|++||||||+|||||+|+||||+|||||||++|+++
T Consensus        72 VrlsRk~nededs~~klytlvt~v~v~tfk~L~t~~v~~~  111 (111)
T 4a17_W           72 VRLCKRKNEEEGAQSQFYTLVQHLQVDSYHGLLTEKTKAE  111 (111)
T ss_dssp             EEEEEEECCCSSCSSSEEEEEEEECCSCGGGCCCEECCCC
T ss_pred             EEEEEecCCCCCCCCCcEEEEEEEEcCCcccceEEEeccC
Confidence            9999999999999999999999999999999999999864

>2zkr_x 60S ribosomal protein L31; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=100.00  E-value=1.7e-47  Score=289.96  Aligned_cols=107  Identities=47%  Similarity=0.696  Sum_probs=74.1

Q ss_pred             CCCCCCceEEEEEcCcc----CCCCCCChHHHHHHHHHHHHHHhcCCCcceEEecCCChhhhhhhhccccccccccCCee
Q psy873           22 DKSKPSAATSYTIGGVK----VEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFR   97 (141)
Q Consensus        22 ~~~~~~vt~eYTI~l~k----v~f~~krap~Aik~irkf~~k~mks~~~~V~id~~lN~~iW~~~~tsl~akGIrnvP~r   97 (141)
                      .++.+++|+||||||||    ++|++| ||+||++|++|++||||++  ||+||++||++||        ++||+|||+|
T Consensus        15 s~~~evvtreyTInL~K~ihgv~fkKR-AprAik~IrkFa~K~Mgt~--dVrID~~LNk~IW--------skGirnvP~r   83 (125)
T 2zkr_x           15 SAINEVVTREYTINIHKRIHGVGFKKR-APRALKEIRKFAMKEMGTP--DVRIDTRLNKAVW--------AKGIRNVPYR   83 (125)
T ss_dssp             -------CEEEEEECHHHHSSBSSSBH-HHHHHHHHHHHHHHHHTCS--SCCCCHHHHHHHH--------TTCSSCCCSE
T ss_pred             cccccceeeEEEeccccccccCCCCcc-CHHHHHHHHHHHHHhcCCC--cEEECHHHHHHHH--------hccCCCCCce
Confidence            56789999999999996    789888 9999999999999999994  9999999999999        9999999999


Q ss_pred             EEEEEeeccCCCCCCCCceeEEEEEEecCCCCCceeEEecCC
Q psy873           98 IRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDAS  139 (141)
Q Consensus        98 IRVr~sRk~nededs~~KlytlVt~VpV~tFKgLqT~~v~~~  139 (141)
                      ||||++|++||||||+|||||+|+||||++||||||++|+++
T Consensus        84 IRVrlsRk~nededs~~klytlv~~v~v~~fk~L~t~~v~~~  125 (125)
T 2zkr_x           84 IRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN  125 (125)
T ss_dssp             EEEEEEEETTTTEEEEEC------------------------
T ss_pred             EEEEEEEeccCCCCCccccEEEEEEEEcCcccCceEEEeecC
Confidence            999999999999999999999999999999999999999864

>3j21_a 50S ribosomal protein L31E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=99.97  E-value=1.7e-31  Score=194.36  Aligned_cols=78  Identities=17%  Similarity=0.267  Sum_probs=74.7

Q ss_pred             CCCceEEEEEcCcc----CCCCCCChHHHHHHHHHHHHHHhcCCCcceEEecCCChhhhhhhhccccccccccCCeeEEE
Q psy873           25 KPSAATSYTIGGVK----VEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRV  100 (141)
Q Consensus        25 ~~~vt~eYTI~l~k----v~f~~krap~Aik~irkf~~k~mks~~~~V~id~~lN~~iW~~~~tsl~akGIrnvP~rIRV  100 (141)
                      ++.+|++|||||||    ++|+++ ||+|+++|++|++||||++  ||+||++||++||        ++||+|||+||||
T Consensus         4 ~e~vtreyTInlhK~~hgv~fkKr-AprAlkeIrkFa~K~mgt~--dV~ID~~LNk~vW--------akGirnvP~rIrV   72 (95)
T 3j21_a            4 KAGEEVIFTVPIKKIKKIVPRWKR-APRAVKFVREFVARHAKAQ--EVIIDPKVNEKIW--------ERGIEKPPSKLRV   72 (95)
T ss_dssp             CCSSCEEEEEECTTHHHHBCSGGG-HHHHHHHHHHHHHHHHTCS--SCEECHHHHHHHH--------TTCSSCCCSEEEE
T ss_pred             CCCceEEEEEEChheecCCCcccc-CHHHHHHHHHHHHHhcCCC--cEEEChHHHHHHH--------hccccCCCCeEEE
Confidence            68899999999999    899988 9999999999999999995  9999999999999        9999999999999


Q ss_pred             EEeeccCCCCCCC
Q psy873          101 RLSRRRNDDEDSP  113 (141)
Q Consensus       101 r~sRk~nededs~  113 (141)
                      |++|++||||+..
T Consensus        73 rlsRk~ne~e~~~   85 (95)
T 3j21_a           73 KVKVEEEKREGEE   85 (95)
T ss_dssp             EEEEECCCSSSCS
T ss_pred             EEEEeccCCCCCc
Confidence            9999999999765

>1vq8_X 50S ribosomal protein L31E; 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: d.29.1.1 PDB: 1vq4_X* 1vq5_X* 1vq6_X* 1vq7_X* 1s72_X* 1vq9_X* 1vqk_X* 1vql_X* 1vqm_X* 1vqn_X* 1vqo_X* 1vqp_X* 1yhq_X* 1yi2_X* 1yij_X* 1yit_X* 1yj9_X* 1yjn_X* 1yjw_X* 2otj_X* ...

Probab=99.96  E-value=6.5e-31  Score=190.11  Aligned_cols=78  Identities=17%  Similarity=0.139  Sum_probs=68.4

Q ss_pred             CCCCceEEEEEcCcc---CCCCCCChHHHHHHHHHHHHHHhcCCCcceEEecCCChhhhhhhhccccccccccCCeeEEE
Q psy873           24 SKPSAATSYTIGGVK---VEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRV  100 (141)
Q Consensus        24 ~~~~vt~eYTI~l~k---v~f~~krap~Aik~irkf~~k~mks~~~~V~id~~lN~~iW~~~~tsl~akGIrnvP~rIRV  100 (141)
                      ..+.+|++|||||||   ++|++| ||+||++|++|++||||+++++|+||++||++||        ++||+|||+||||
T Consensus         3 ~~~~vtreyTInl~ki~~~~~kkR-AprAik~Irkfa~k~m~t~~~dVriD~~LNk~iW--------~rGir~vP~rIRV   73 (92)
T 1vq8_X            3 ASDFEERVVTIPLRDARAEPNHKR-ADKAMILIREHLAKHFSVDEDAVRLDPSINEAAW--------ARGRANTPSKIRV   73 (92)
T ss_dssp             -----CEEEEEECGGGGGSCGGGH-HHHHHHHHHHHHHHHTTCCGGGEEECHHHHHHHT--------TTCSSCCCSEEEE
T ss_pred             cccceeEEEEEEhHHhcCCCcccc-CHHHHHHHHHHHHHHhCCCcccEEECcHHHHHHH--------hcccCCCCceEEE
Confidence            457899999999999   688777 9999999999999999997679999999999999        9999999999999


Q ss_pred             EEeeccCCCC
Q psy873          101 RLSRRRNDDE  110 (141)
Q Consensus       101 r~sRk~nede  110 (141)
                      |++|+++|+|
T Consensus        74 r~sR~~edGe   83 (92)
T 1vq8_X           74 RAARFEEEGE   83 (92)
T ss_dssp             EEEEETTTTE
T ss_pred             EEEEEccCCc
Confidence            9999966554

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	141
d1vqox1	82	d.29.1.1 (X:7-88) Ribosomal protein L31e {Archaeon	2e-05

>d1vqox1 d.29.1.1 (X:7-88) Ribosomal protein L31e {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L31e
superfamily: Ribosomal protein L31e
family: Ribosomal protein L31e
domain: Ribosomal protein L31e
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 38.5 bits (90), Expect = 2e-05
 Identities = 7/21 (33%), Positives = 11/21 (52%)

Query: 91  IRSVPFRIRVRLSRRRNDDED 111
             + P +IRVR +R   + E 
Sbjct: 57  RANTPSKIRVRAARFEEEGEA 77

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	141
d1vqox1	82	Ribosomal protein L31e {Archaeon Haloarcula marism	99.95

>d1vqox1 d.29.1.1 (X:7-88) Ribosomal protein L31e {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L31e
superfamily: Ribosomal protein L31e
family: Ribosomal protein L31e
domain: Ribosomal protein L31e
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.95  E-value=1.4e-29  Score=178.34  Aligned_cols=75  Identities=17%  Similarity=0.146  Sum_probs=69.2

Q ss_pred             eEEEEEcCcc---CCCCCCChHHHHHHHHHHHHHHhcCCCcceEEecCCChhhhhhhhccccccccccCCeeEEEEEeec
Q psy873           29 ATSYTIGGVK---VEFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIRVRLSRR  105 (141)
Q Consensus        29 t~eYTI~l~k---v~f~~krap~Aik~irkf~~k~mks~~~~V~id~~lN~~iW~~~~tsl~akGIrnvP~rIRVr~sRk  105 (141)
                      +|+|||||++   ++|++| ||+||++|++|++||||++++.|+||++||++||        ++|++|||+||||+++|+
T Consensus         1 Er~yTI~Lr~~~~~~~~kR-A~rAik~Ir~f~~khmkt~d~~V~ID~~lN~~IW--------srGi~~pP~rIRVr~~r~   71 (82)
T d1vqox1           1 ERVVTIPLRDARAEPNHKR-ADKAMILIREHLAKHFSVDEDAVRLDPSINEAAW--------ARGRANTPSKIRVRAARF   71 (82)
T ss_dssp             CEEEEEECGGGGGSCGGGH-HHHHHHHHHHHHHHHTTCCGGGEEECHHHHHHHT--------TTCTTCCCSEEEEEEEEE
T ss_pred             CeEEEEEcHHhhCCCcccc-cHHHHHHHHHHHHHHhCCCCCeEEECcHHHHHHH--------hccCcCCCCeEEEEEEEe
Confidence            6899999998   677766 9999999999999999997556999999999999        999999999999999999


Q ss_pred             cCCCCCC
Q psy873          106 RNDDEDS  112 (141)
Q Consensus       106 ~nededs  112 (141)
                      ++|+|+.
T Consensus        72 ~ee~e~~   78 (82)
T d1vqox1          72 EEEGEAI   78 (82)
T ss_dssp             TTTTEEE
T ss_pred             ccCCcee
Confidence            9988764