Citrus Sinensis ID: 040416

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40-------
Protein Sequence
YAVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES
Secondary Structure (PSIPRED)
ccEEEEEEEEEcccccEEEEcccccccHHHHHHHHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
ccHEEEEEEEEccccccEEEccEEEEccHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
yavrkavgiwgckdsskvkaggaytlNIGSAVTARVTIRRLREQTES
Flexible Loop (DISEMBL)
yavrkavgiwgckdsskvkaggaytlnigsavtarVTIRRLREQTES
Low Complexity Region (SEG)
YAVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES
Disordered region (IsUnstruct)
****KAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIR********
Disordered Region (DISOPRED)
**VRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIR*LRE****
Disordered Region (DISEMBL)
YAVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES
Disordered Region (DISPRO)
YAVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLRE****
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
YAVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES
Positional Conservation
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	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	47	2.2.26 [Sep-21-2011]
Q5QM99	92	60S ribosomal protein L37	yes	no	0.936	0.478	0.818	8e-14
Q9ZRS8	92	60S ribosomal protein L37	N/A	no	0.978	0.5	0.829	8e-14
Q9XHE4	92	60S ribosomal protein L37	N/A	no	1.0	0.510	0.833	1e-13
Q9SRK6	92	Putative 60S ribosomal pr	yes	no	1.0	0.510	0.791	1e-13
Q8RXU5	92	60S ribosomal protein L37	no	no	0.914	0.467	0.813	6e-13
P43209	93	60S ribosomal protein L37	N/A	no	0.914	0.462	0.795	1e-11
A4S6Z4	92	60S ribosomal protein L37	yes	no	0.914	0.467	0.720	2e-10
Q00VK4	92	60S ribosomal protein L37	no	no	0.914	0.467	0.697	6e-10
O61462	92	60S ribosomal protein L37	N/A	no	0.936	0.478	0.590	6e-07
Q751L1	92	60S ribosomal protein L43	yes	no	0.936	0.478	0.545	5e-06

>sp|Q5QM99|RL37A_ORYSJ 60S ribosomal protein L37a OS=Oryza sativa subsp. japonica GN=Os01g0679700 PE=1 SV=1

 Score = 75.9 bits (185), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 36/44 (81%), Positives = 38/44 (86%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          RKAVGIWGCKD  KVKAGGAYT+N  SAVT R TIRRLREQTE+
Sbjct: 49 RKAVGIWGCKDCGKVKAGGAYTMNTASAVTVRSTIRRLREQTEA 92

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9ZRS8|RL37A_PSEMZ 60S ribosomal protein L37a OS=Pseudotsuga menziesii GN=RPL37A PE=3 SV=1

 Score = 75.5 bits (184), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 39/47 (82%), Positives = 40/47 (85%), Gaps = 1/47 (2%)

Query: 1  YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE 46
          +AV RKAVGIWGCKD  KVKAGGAYTLN  SAVT R TIRRLREQTE
Sbjct: 45 FAVKRKAVGIWGCKDCGKVKAGGAYTLNTPSAVTVRSTIRRLREQTE 91

Pseudotsuga menziesii (taxid: 3357)

>sp|Q9XHE4|RL37A_GOSHI 60S ribosomal protein L37a OS=Gossypium hirsutum GN=RPL37A PE=3 SV=1

 Score = 75.5 bits (184), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 40/48 (83%), Positives = 40/48 (83%), Gaps = 1/48 (2%)

Query: 1  YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          YAV RKAVGIWGCK   KVKAGGAYTLN  SAVT R TIRRLREQTES
Sbjct: 45 YAVKRKAVGIWGCKACGKVKAGGAYTLNTASAVTVRSTIRRLREQTES 92

Gossypium hirsutum (taxid: 3635)

>sp|Q9SRK6|R37A1_ARATH Putative 60S ribosomal protein L37a-1 OS=Arabidopsis thaliana GN=RPL37AB PE=3 SV=1

 Score = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 38/48 (79%), Positives = 40/48 (83%), Gaps = 1/48 (2%)

Query: 1  YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          Y+V RK VGIWGCKD  KVKAGGAYT+N  SAVT R TIRRLREQTES
Sbjct: 45 YSVKRKVVGIWGCKDCGKVKAGGAYTMNTASAVTVRSTIRRLREQTES 92

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RXU5|R37A2_ARATH 60S ribosomal protein L37a-2 OS=Arabidopsis thaliana GN=RPL37AC PE=3 SV=1

 Score = 72.8 bits (177), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 35/43 (81%), Positives = 36/43 (83%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE 46
          RKAVGIWGCKD  KVKAGGAYT+N  SAVT R TIRRLREQ E
Sbjct: 49 RKAVGIWGCKDCGKVKAGGAYTMNTASAVTVRSTIRRLREQIE 91

Arabidopsis thaliana (taxid: 3702)

>sp|P43209|RL37A_BRARA 60S ribosomal protein L37a OS=Brassica rapa GN=RPL37A PE=3 SV=2

 Score = 68.2 bits (165), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 35/44 (79%), Positives = 36/44 (81%), Gaps = 1/44 (2%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARV-TIRRLREQTE 46
          RKAVGIWGCKD  KVKAGGAYT+N  SAVT R  TIRRLREQ E
Sbjct: 49 RKAVGIWGCKDCGKVKAGGAYTMNTASAVTVRSHTIRRLREQIE 92

Brassica rapa (taxid: 51350)

>sp|A4S6Z4|RL37A_OSTLU 60S ribosomal protein L37a OS=Ostreococcus lucimarinus (strain CCE9901) GN=RPL37a PE=3 SV=1

 Score = 64.7 bits (156), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 31/43 (72%), Positives = 34/43 (79%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE 46
          RKAVGIW CK  +K KAGGAY+LN G +VT R TIRRLRE TE
Sbjct: 49 RKAVGIWSCKGCNKTKAGGAYSLNTGGSVTVRSTIRRLREATE 91

Ostreococcus lucimarinus (strain CCE9901) (taxid: 436017)

>sp|Q00VK4|RL37A_OSTTA 60S ribosomal protein L37a OS=Ostreococcus tauri GN=RPL37a PE=3 SV=2

 Score = 62.8 bits (151), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 30/43 (69%), Positives = 34/43 (79%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE 46
          R+AVGIW CK  +K KAGGAY+LN G +VT R TIRRLRE TE
Sbjct: 49 RQAVGIWCCKGCNKTKAGGAYSLNTGGSVTVRSTIRRLREATE 91

Ostreococcus tauri (taxid: 70448)

>sp|O61462|RL37A_CRYST 60S ribosomal protein L37a OS=Cryptochiton stelleri GN=RPL37A PE=3 SV=3

 Score = 52.8 bits (125), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 26/44 (59%), Positives = 31/44 (70%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          R+AVGIWGCK   KV AGGA+  +  +AVT R  +RRLRE  ES
Sbjct: 49 RQAVGIWGCKSCRKVVAGGAWVYSTMAAVTVRSAVRRLREMKES 92

Cryptochiton stelleri (taxid: 6655)

>sp|Q751L1|RL43_ASHGO 60S ribosomal protein L43 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=RPL43 PE=3 SV=1

 Score = 49.7 bits (117), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 24/44 (54%), Positives = 27/44 (61%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          R A GIW C    K  AGGAYT +  +A T R TIRRLRE  E+
Sbjct: 49 RGAAGIWNCSSCKKTVAGGAYTFSTAAAATVRSTIRRLREMAEA 92

Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) (taxid: 284811)

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	47
255626231	64	unknown [Glycine max]	1.0	0.734	0.854	3e-13
224126415	92	predicted protein [Populus trichocarpa]	1.0	0.510	0.854	4e-13
413968440	92	60S ribosomal protein L37a [Solanum tube	1.0	0.510	0.854	4e-13
58578274	92	60S ribosomal protein L37a [Capsicum chi	1.0	0.510	0.854	4e-13
388521597	79	unknown [Medicago truncatula]	1.0	0.594	0.854	4e-13
225427377	92	PREDICTED: 60S ribosomal protein L37a-li	1.0	0.510	0.854	4e-13
297742195	99	unnamed protein product [Vitis vinifera]	1.0	0.474	0.854	5e-13
255552928	110	60S ribosomal protein L37a, putative [Ri	1.0	0.427	0.854	6e-13
297829646	92	60S ribosomal protein L37a [Arabidopsis	1.0	0.510	0.833	7e-13
313586497	92	60S ribosomal protein L37aA [Hevea brasi	1.0	0.510	0.833	8e-13

>gi|255626231|gb|ACU13460.1| unknown [Glycine max]

 Score = 79.0 bits (193), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 41/48 (85%), Positives = 41/48 (85%), Gaps = 1/48 (2%)

Query: 1  YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          YAV RKAVGIWGCKD  KVKAGGAYTLN  SAVT R TIRRLREQTES
Sbjct: 17 YAVKRKAVGIWGCKDCGKVKAGGAYTLNTASAVTVRSTIRRLREQTES 64

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224126415|ref|XP_002329548.1| predicted protein [Populus trichocarpa] gi|224136378|ref|XP_002326845.1| predicted protein [Populus trichocarpa] gi|224138784|ref|XP_002326689.1| predicted protein [Populus trichocarpa] gi|255571073|ref|XP_002526487.1| 60S ribosomal protein L37a, putative [Ricinus communis] gi|356504539|ref|XP_003521053.1| PREDICTED: 60S ribosomal protein L37a-like [Glycine max] gi|356511083|ref|XP_003524259.1| PREDICTED: 60S ribosomal protein L37a [Glycine max] gi|356520742|ref|XP_003529019.1| PREDICTED: 60S ribosomal protein L37a-like [Glycine max] gi|356563414|ref|XP_003549958.1| PREDICTED: 60S ribosomal protein L37a-like [Glycine max] gi|357477067|ref|XP_003608819.1| 60S ribosomal protein L37a [Medicago truncatula] gi|118483026|gb|ABK93424.1| unknown [Populus trichocarpa] gi|118484983|gb|ABK94356.1| unknown [Populus trichocarpa] gi|217071074|gb|ACJ83897.1| unknown [Medicago truncatula] gi|222834011|gb|EEE72488.1| predicted protein [Populus trichocarpa] gi|222835160|gb|EEE73595.1| predicted protein [Populus trichocarpa] gi|222870257|gb|EEF07388.1| predicted protein [Populus trichocarpa] gi|223534162|gb|EEF35878.1| 60S ribosomal protein L37a, putative [Ricinus communis] gi|355509874|gb|AES91016.1| 60S ribosomal protein L37a [Medicago truncatula] gi|388494042|gb|AFK35087.1| unknown [Medicago truncatula] gi|388514345|gb|AFK45234.1| unknown [Medicago truncatula] gi|388520787|gb|AFK48455.1| unknown [Medicago truncatula]

 Score = 78.6 bits (192), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 41/48 (85%), Positives = 41/48 (85%), Gaps = 1/48 (2%)

Query: 1  YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          YAV RKAVGIWGCKD  KVKAGGAYTLN  SAVT R TIRRLREQTES
Sbjct: 45 YAVKRKAVGIWGCKDCGKVKAGGAYTLNTASAVTVRSTIRRLREQTES 92

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413968440|gb|AFW90557.1| 60S ribosomal protein L37a [Solanum tuberosum]

 Score = 78.6 bits (192), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 41/48 (85%), Positives = 41/48 (85%), Gaps = 1/48 (2%)

Query: 1  YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          YAV RKAVGIWGCKD  KVKAGGAYTLN  SAVT R TIRRLREQTES
Sbjct: 45 YAVKRKAVGIWGCKDCGKVKAGGAYTLNTASAVTVRSTIRRLREQTES 92

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|58578274|emb|CAI48073.1| 60S ribosomal protein L37a [Capsicum chinense]

 Score = 78.6 bits (192), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 41/48 (85%), Positives = 41/48 (85%), Gaps = 1/48 (2%)

Query: 1  YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          YAV RKAVGIWGCKD  KVKAGGAYTLN  SAVT R TIRRLREQTES
Sbjct: 45 YAVKRKAVGIWGCKDCGKVKAGGAYTLNTASAVTVRSTIRRLREQTES 92

Source: Capsicum chinense

Species: Capsicum chinense

Genus: Capsicum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388521597|gb|AFK48860.1| unknown [Medicago truncatula]

 Score = 78.6 bits (192), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 41/48 (85%), Positives = 41/48 (85%), Gaps = 1/48 (2%)

Query: 1  YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          YAV RKAVGIWGCKD  KVKAGGAYTLN  SAVT R TIRRLREQTES
Sbjct: 32 YAVKRKAVGIWGCKDCGKVKAGGAYTLNTASAVTVRSTIRRLREQTES 79

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225427377|ref|XP_002282974.1| PREDICTED: 60S ribosomal protein L37a-like [Vitis vinifera] gi|449432368|ref|XP_004133971.1| PREDICTED: 60S ribosomal protein L37a-like [Cucumis sativus] gi|449442329|ref|XP_004138934.1| PREDICTED: 60S ribosomal protein L37a-like [Cucumis sativus] gi|449461277|ref|XP_004148368.1| PREDICTED: 60S ribosomal protein L37a-like [Cucumis sativus] gi|449487554|ref|XP_004157684.1| PREDICTED: 60S ribosomal protein L37a-like [Cucumis sativus] gi|449505246|ref|XP_004162415.1| PREDICTED: 60S ribosomal protein L37a-like [Cucumis sativus] gi|449524647|ref|XP_004169333.1| PREDICTED: 60S ribosomal protein L37a-like [Cucumis sativus]

 Score = 78.6 bits (192), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 41/48 (85%), Positives = 41/48 (85%), Gaps = 1/48 (2%)

Query: 1  YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          YAV RKAVGIWGCKD  KVKAGGAYTLN  SAVT R TIRRLREQTES
Sbjct: 45 YAVKRKAVGIWGCKDCGKVKAGGAYTLNTASAVTVRSTIRRLREQTES 92

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297742195|emb|CBI33982.3| unnamed protein product [Vitis vinifera]

 Score = 78.6 bits (192), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 41/48 (85%), Positives = 41/48 (85%), Gaps = 1/48 (2%)

Query: 1  YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          YAV RKAVGIWGCKD  KVKAGGAYTLN  SAVT R TIRRLREQTES
Sbjct: 52 YAVKRKAVGIWGCKDCGKVKAGGAYTLNTASAVTVRSTIRRLREQTES 99

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255552928|ref|XP_002517507.1| 60S ribosomal protein L37a, putative [Ricinus communis] gi|223543518|gb|EEF45049.1| 60S ribosomal protein L37a, putative [Ricinus communis]

 Score = 78.2 bits (191), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 41/48 (85%), Positives = 41/48 (85%), Gaps = 1/48 (2%)

Query: 1   YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
           YAV RKAVGIWGCKD  KVKAGGAYTLN  SAVT R TIRRLREQTES
Sbjct: 63  YAVKRKAVGIWGCKDCGKVKAGGAYTLNTASAVTVRSTIRRLREQTES 110

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297829646|ref|XP_002882705.1| 60S ribosomal protein L37a [Arabidopsis lyrata subsp. lyrata] gi|297328545|gb|EFH58964.1| 60S ribosomal protein L37a [Arabidopsis lyrata subsp. lyrata]

 Score = 77.8 bits (190), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 40/48 (83%), Positives = 41/48 (85%), Gaps = 1/48 (2%)

Query: 1  YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          YAV RKAVGIWGCKD  KVKAGGAYT+N  SAVT R TIRRLREQTES
Sbjct: 45 YAVKRKAVGIWGCKDCGKVKAGGAYTMNTASAVTVRSTIRRLREQTES 92

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|313586497|gb|ADR71259.1| 60S ribosomal protein L37aA [Hevea brasiliensis]

 Score = 77.8 bits (190), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 40/48 (83%), Positives = 41/48 (85%), Gaps = 1/48 (2%)

Query: 1  YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          YAV RKAVGIWGCKD  KVKAGGAYTLN  S+VT R TIRRLREQTES
Sbjct: 45 YAVKRKAVGIWGCKDCGKVKAGGAYTLNTASSVTVRSTIRRLREQTES 92

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

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	47
TAIR|locus:2085532	92	AT3G10950 [Arabidopsis thalian	1.0	0.510	0.791	8.8e-15
TAIR|locus:505006406	92	AT3G60245 [Arabidopsis thalian	0.978	0.5	0.787	4.9e-14
SGD|S000006247	92	RPL43A "Ribosomal 60S subunit	0.936	0.478	0.545	1.8e-07
SGD|S000003855	92	RPL43B "Ribosomal 60S subunit	0.936	0.478	0.545	1.8e-07
UNIPROTKB|F1NDE1	92	RPL37A "60S ribosomal protein	0.851	0.434	0.6	3.8e-07
UNIPROTKB|F2Z4M7	91	RPL37A "60S ribosomal protein	0.851	0.439	0.6	3.8e-07
UNIPROTKB|P32046	92	RPL37A "60S ribosomal protein	0.851	0.434	0.6	3.8e-07
DICTYBASE|DDB_G0281093	91	rpl37A "ribosomal protein" [Di	0.893	0.461	0.558	6.1e-07
WB|WBGene00004456	91	rpl-43 [Caenorhabditis elegans	0.914	0.472	0.558	6.1e-07
UNIPROTKB|Q3MIC0	92	RPL37A "60S ribosomal protein	0.851	0.434	0.575	7.8e-07

TAIR|locus:2085532 AT3G10950 [Arabidopsis thaliana (taxid:3702)]

 Score = 188 (71.2 bits), Expect = 8.8e-15, P = 8.8e-15
 Identities = 38/48 (79%), Positives = 40/48 (83%)

Query:     1 YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
             Y+V RK VGIWGCKD  KVKAGGAYT+N  SAVT R TIRRLREQTES
Sbjct:    45 YSVKRKVVGIWGCKDCGKVKAGGAYTMNTASAVTVRSTIRRLREQTES 92

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

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

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

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:505006406 AT3G60245 [Arabidopsis thaliana (taxid:3702)]

 Score = 181 (68.8 bits), Expect = 4.9e-14, P = 4.9e-14
 Identities = 37/47 (78%), Positives = 38/47 (80%)

Query:     1 YAV-RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE 46
             Y V RKAVGIWGCKD  KVKAGGAYT+N  SAVT R TIRRLREQ E
Sbjct:    45 YGVKRKAVGIWGCKDCGKVKAGGAYTMNTASAVTVRSTIRRLREQIE 91

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

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

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

GO:0005829 "cytosol" evidence=RCA

SGD|S000006247 RPL43A "Ribosomal 60S subunit protein L43A" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 119 (46.9 bits), Expect = 1.8e-07, P = 1.8e-07
 Identities = 24/44 (54%), Positives = 28/44 (63%)

Query:     4 RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
             R A GIW C    K  AGGAYT++  +A T R TIRRLRE  E+
Sbjct:    49 RGAAGIWTCSCCKKTVAGGAYTVSTAAAATVRSTIRRLREMVEA 92

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0002181 "cytoplasmic translation" evidence=TAS

GO:0006412 "translation" evidence=IEA

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

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

GO:0046872 "metal ion binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

SGD|S000003855 RPL43B "Ribosomal 60S subunit protein L43B" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 119 (46.9 bits), Expect = 1.8e-07, P = 1.8e-07
 Identities = 24/44 (54%), Positives = 28/44 (63%)

Query:     4 RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
             R A GIW C    K  AGGAYT++  +A T R TIRRLRE  E+
Sbjct:    49 RGAAGIWTCSCCKKTVAGGAYTVSTAAAATVRSTIRRLREMVEA 92

GO:0002181 "cytoplasmic translation" evidence=TAS

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

GO:0046872 "metal ion binding" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|F1NDE1 RPL37A "60S ribosomal protein L37a" [Gallus gallus (taxid:9031)]

 Score = 116 (45.9 bits), Expect = 3.8e-07, P = 3.8e-07
 Identities = 24/40 (60%), Positives = 27/40 (67%)

Query:     4 RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLRE 43
             RKAVGIW C    K  AGGA+T N  SAVT +  IRRL+E
Sbjct:    49 RKAVGIWHCGSCMKTVAGGAWTYNTTSAVTVKSAIRRLKE 88

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

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|F2Z4M7 RPL37A "60S ribosomal protein L37a" [Gallus gallus (taxid:9031)]

 Score = 116 (45.9 bits), Expect = 3.8e-07, P = 3.8e-07
 Identities = 24/40 (60%), Positives = 27/40 (67%)

Query:     4 RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLRE 43
             RKAVGIW C    K  AGGA+T N  SAVT +  IRRL+E
Sbjct:    48 RKAVGIWHCGSCMKTVAGGAWTYNTTSAVTVKSAIRRLKE 87

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

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|P32046 RPL37A "60S ribosomal protein L37a" [Gallus gallus (taxid:9031)]

 Score = 116 (45.9 bits), Expect = 3.8e-07, P = 3.8e-07
 Identities = 24/40 (60%), Positives = 27/40 (67%)

Query:     4 RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLRE 43
             RKAVGIW C    K  AGGA+T N  SAVT +  IRRL+E
Sbjct:    49 RKAVGIWHCGSCMKTVAGGAWTYNTTSAVTVKSAIRRLKE 88

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

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

DICTYBASE|DDB_G0281093 rpl37A "ribosomal protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 114 (45.2 bits), Expect = 6.1e-07, P = 6.1e-07
 Identities = 24/43 (55%), Positives = 30/43 (69%)

Query:     2 AVRKA-VGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLRE 43
             AVR++ VGIW C    KV AGGA+T++  +  T R TIRRLRE
Sbjct:    46 AVRRSSVGIWKCNGCRKVLAGGAWTMSTAAGATVRSTIRRLRE 88

GO:0006412 "translation" evidence=IEA;ISS

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

GO:0005840 "ribosome" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

WB|WBGene00004456 rpl-43 [Caenorhabditis elegans (taxid:6239)]

 Score = 114 (45.2 bits), Expect = 6.1e-07, P = 6.1e-07
 Identities = 24/43 (55%), Positives = 26/43 (60%)

Query:     4 RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE 46
             RKA GIW C    KV AGGAY     +A T R TIRRLR+  E
Sbjct:    49 RKATGIWNCAKCHKVVAGGAYVYGTVTAATVRSTIRRLRDLKE 91

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

UNIPROTKB|Q3MIC0 RPL37A "60S ribosomal protein L37a" [Bos taurus (taxid:9913)]

 Score = 113 (44.8 bits), Expect = 7.8e-07, P = 7.8e-07
 Identities = 23/40 (57%), Positives = 27/40 (67%)

Query:     4 RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLRE 43
             R+AVGIW C    K  AGGA+T N  SAVT +  IRRL+E
Sbjct:    49 RRAVGIWHCGSCMKTVAGGAWTYNTTSAVTVKSAIRRLKE 88

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

GO:0046872 "metal ion binding" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

---

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)
A4S6Z4	RL37A_OSTLU	No assigned EC number	0.7209	0.9148	0.4673	yes	no
Q5QM99	RL37A_ORYSJ	No assigned EC number	0.8181	0.9361	0.4782	yes	no
Q9SRK6	R37A1_ARATH	No assigned EC number	0.7916	1.0	0.5108	yes	no

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:
	estExt_Genewise1_v1.C_1180211	SubName- Full=Putative uncharacterized protein; (93 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	estExt_fgenesh4_pm.C_LG_VIII0253	RecName- Full=60S acidic ribosomal protein P0; (323 aa)			•	•	•	•	•		0.621
	estExt_fgenesh4_pg.C_LG_X1707	RecName- Full=60S acidic ribosomal protein P0; (321 aa)			•	•	•	•	•		0.618
	estExt_fgenesh4_kg.C_LG_XVII0009	SubName- Full=Putative uncharacterized protein; (144 aa)				•		•	•		0.569
	gw1.1845.1.1	60S ribosomal protein L4/L1 (RPL4D) (408 aa)				•	•		•		0.567
	estExt_Genewise1_v1.C_280409	SubName- Full=Putative uncharacterized protein; (408 aa)				•	•		•		0.566
	eugene3.00041113	hypothetical protein (144 aa)				•		•	•		0.555
	gw1.XVI.1998.1	SubName- Full=Putative uncharacterized protein; (204 aa)				•		•	•		0.541
	eugene3.00061162	SubName- Full=Putative uncharacterized protein; (208 aa)				•		•	•		0.534
	estExt_Genewise1_v1.C_LG_XVI2622	60S ribosomal protein L4/L1 (RPL4D) (407 aa)				•	•		•		0.518
	estExt_fgenesh4_pm.C_LG_VIII0284	hypothetical protein (343 aa)			•	•		•			0.513

---

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	47
pfam01780	90	pfam01780, Ribosomal_L37ae, Ribosomal L37ae protei	6e-12
PTZ00255	90	PTZ00255, PTZ00255, 60S ribosomal protein L37a; Pr	1e-11
TIGR00280	92	TIGR00280, L37a, ribosomal protein L37a	4e-05
COG1997	89	COG1997, RPL43A, Ribosomal protein L37AE/L43A [Tra	7e-05

>gnl|CDD|216695 pfam01780, Ribosomal_L37ae, Ribosomal L37ae protein family

 Score = 53.8 bits (130), Expect = 6e-12
 Identities = 25/43 (58%), Positives = 27/43 (62%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE 46
          RKAVGIW C+   K  AGGAYT    +  T R TIRRLRE  E
Sbjct: 48 RKAVGIWKCRKCGKTFAGGAYTPETPAGKTVRRTIRRLRELKE 90

This ribosomal protein is found in archaebacteria and eukaryotes. It contains four conserved cysteine residues that may bind to zinc. Length = 90

>gnl|CDD|240332 PTZ00255, PTZ00255, 60S ribosomal protein L37a; Provisional

 Score = 53.2 bits (128), Expect = 1e-11
 Identities = 24/41 (58%), Positives = 29/41 (70%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQ 44
          R+AVGIW CK   K  AGGA+TL+  +A T R TIRRLR+ 
Sbjct: 49 RQAVGIWRCKGCKKTVAGGAWTLSTPAASTVRSTIRRLRKL 89

Length = 90

>gnl|CDD|232904 TIGR00280, L37a, ribosomal protein L37a

 Score = 36.4 bits (84), Expect = 4e-05
 Identities = 19/43 (44%), Positives = 23/43 (53%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE 46
          R + GIW C+      AGGAYT    +  T R TIRR+ E  E
Sbjct: 49 RGSTGIWTCRKCGAKFAGGAYTPVTPAGKTVRKTIRRIVEMKE 91

This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 92

>gnl|CDD|224908 COG1997, RPL43A, Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]

 Score = 35.8 bits (83), Expect = 7e-05
 Identities = 17/42 (40%), Positives = 20/42 (47%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQT 45
          R A GIW C+      AGGAYT    +    + TIRR  E  
Sbjct: 48 RIATGIWKCRKCGAKFAGGAYTPVTPAGKAVKRTIRREVEMK 89

Length = 89

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	47
PF01780	90	Ribosomal_L37ae: Ribosomal L37ae protein family; I	99.92
TIGR00280	91	L37a ribosomal protein L37a. This model finds euka	99.92
PTZ00255	90	60S ribosomal protein L37a; Provisional	99.9
PRK03976	90	rpl37ae 50S ribosomal protein L37Ae; Reviewed	99.89
KOG0402	92	consensus 60S ribosomal protein L37 [Translation,	99.87
COG1997	89	RPL43A Ribosomal protein L37AE/L43A [Translation,	99.83
cd00729	34	rubredoxin_SM Rubredoxin, Small Modular nonheme ir	88.5
COG1592	166	Rubrerythrin [Energy production and conversion]	86.51
PF00096	23	zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR0070	85.94
PF13894	24	zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP	84.63
cd00350	33	rubredoxin_like Rubredoxin_like; nonheme iron bind	84.42
COG1998	51	RPS31 Ribosomal protein S27AE [Translation, riboso	82.95

>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.92  E-value=1.1e-25  Score=134.98  Aligned_cols=45  Identities=51%  Similarity=0.738  Sum_probs=42.1

Q ss_pred             ceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHHHHHHHhhhh
Q 040416            2 AVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE   46 (47)
Q Consensus         2 ~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~irrl~e~~e   46 (47)
                      |+|+++|||+|++|+++||||||+|+||++.+|+++|+||+|++|
T Consensus        46 vkR~a~GIW~C~~C~~~~AGGAy~~~T~~~~t~~~~i~rl~e~~e   90 (90)
T PF01780_consen   46 VKRVATGIWKCKKCGKKFAGGAYTPSTPAAKTVKRAIRRLRELKE   90 (90)
T ss_dssp             EEEEETTEEEETTTTEEEE-BSSSSS-HHHHHHHHHHHHHHHHHH
T ss_pred             eEEeeeEEeecCCCCCEEeCCCccccchHHHHHHHHHHHHHHhcC
Confidence            799999999999999999999999999999999999999999987

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 [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....

>TIGR00280 L37a ribosomal protein L37a

Probab=99.92  E-value=2.6e-25  Score=133.66  Aligned_cols=46  Identities=41%  Similarity=0.637  Sum_probs=44.7

Q ss_pred             ceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHHHHHHHhhhhC
Q 040416            2 AVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES   47 (47)
Q Consensus         2 ~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~irrl~e~~e~   47 (47)
                      |+|.++|||+|++||++||||||+|+||++.++.++|+||+|++|+
T Consensus        46 vkR~a~GIW~C~~C~~~~AGGAy~p~T~~~~t~~~~irrl~e~~~~   91 (91)
T TIGR00280        46 VKRGSTGIWTCRKCGAKFAGGAYTPVTPAGKTVRKTIRRIVEMKEA   91 (91)
T ss_pred             eEEEeeEEEEcCCCCCEEeCCccccccchhHHHHHHHHHHHHhhcC
Confidence            7999999999999999999999999999999999999999999874

This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.

>PTZ00255 60S ribosomal protein L37a; Provisional

Probab=99.90  E-value=3.4e-24  Score=128.55  Aligned_cols=44  Identities=55%  Similarity=0.841  Sum_probs=42.7

Q ss_pred             ceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHHHHHHHhhh
Q 040416            2 AVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQT   45 (47)
Q Consensus         2 ~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~irrl~e~~   45 (47)
                      |+|.++|||+|++|+++||||||+|+||+++++.++|+||+|++
T Consensus        47 vkR~a~GIW~C~~C~~~~AGGAy~~~T~~~~t~~~~irr~~e~~   90 (90)
T PTZ00255         47 VKRQAVGIWRCKGCKKTVAGGAWTLSTPAASTVRSTIRRLRKLK   90 (90)
T ss_pred             eeeeeeEEEEcCCCCCEEeCCccccccchhHHHHHHHHHHHhcC
Confidence            79999999999999999999999999999999999999999974

>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed

Probab=99.89  E-value=9e-24  Score=126.70  Aligned_cols=43  Identities=37%  Similarity=0.596  Sum_probs=41.9

Q ss_pred             ceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHHHHHHHhh
Q 040416            2 AVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQ   44 (47)
Q Consensus         2 ~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~irrl~e~   44 (47)
                      |+|.++|||+|++|+++||||||+|+||++.++.++|+||+|.
T Consensus        47 vkR~a~GIW~C~~C~~~~AGGAy~~~T~~~~t~~~~irr~~~~   89 (90)
T PRK03976         47 VKRVGTGIWECRKCGAKFAGGAYTPETPAGKTVTRAIRRAVEE   89 (90)
T ss_pred             eEEEEEEEEEcCCCCCEEeCCccccccchhhhHHHHHHHHhhc
Confidence            7999999999999999999999999999999999999999985

>KOG0402 consensus 60S ribosomal protein L37 [Translation, ribosomal structure and biogenesis]

Probab=99.87  E-value=6.9e-23  Score=123.59  Aligned_cols=47  Identities=57%  Similarity=0.856  Sum_probs=45.2

Q ss_pred             CceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHHHHHHHhhhhC
Q 040416            1 YAVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES   47 (47)
Q Consensus         1 ~~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~irrl~e~~e~   47 (47)
                      +|+|.|+|||.|++|+++||||||+++|++|.+++++||||||++|+
T Consensus        46 ~vKR~AvGiW~C~~C~kv~agga~~~~t~aa~t~rs~irrlre~~e~   92 (92)
T KOG0402|consen   46 TVKRKAVGIWKCGSCKKVVAGGAYTVTTAAAATVRSTIRRLRELVEQ   92 (92)
T ss_pred             hhhhhceeEEecCCccceeccceEEeccchhHHHHHHHHHHHHHhcC
Confidence            47999999999999999999999999999999999999999999885

>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]

Probab=99.83  E-value=3.3e-21  Score=115.90  Aligned_cols=45  Identities=38%  Similarity=0.532  Sum_probs=43.0

Q ss_pred             CceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHHHHHHHhhh
Q 040416            1 YAVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQT   45 (47)
Q Consensus         1 ~~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~irrl~e~~   45 (47)
                      .|+|.++|||.|++||++||||||+|.|+++++++++|+|+.|.+
T Consensus        45 ~VkR~a~GIW~C~kCg~~fAGgay~P~t~~~k~~~~~i~r~~e~k   89 (89)
T COG1997          45 TVKRIATGIWKCRKCGAKFAGGAYTPVTPAGKAVKRTIRREVEMK   89 (89)
T ss_pred             ceeeeccCeEEcCCCCCeeccccccccchHHHHHHHHHHHHhccC
Confidence            489999999999999999999999999999999999999999864

>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase

Probab=88.50  E-value=0.38  Score=23.76  Aligned_cols=15  Identities=20%  Similarity=0.665  Sum_probs=13.0

Q ss_pred             EEeeCCCCeeEEccc
Q 040416            9 IWGCKDSSKVKAGGA   23 (47)
Q Consensus         9 IW~C~~C~~~~AGGA   23 (47)
                      +|.|..||+++-|..
T Consensus         2 ~~~C~~CG~i~~g~~   16 (34)
T cd00729           2 VWVCPVCGYIHEGEE   16 (34)
T ss_pred             eEECCCCCCEeECCc
Confidence            699999999998753

In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>COG1592 Rubrerythrin [Energy production and conversion]

Probab=86.51  E-value=0.34  Score=31.63  Aligned_cols=13  Identities=23%  Similarity=0.708  Sum_probs=12.6

Q ss_pred             EEeeCCCCeeEEc
Q 040416            9 IWGCKDSSKVKAG   21 (47)
Q Consensus         9 IW~C~~C~~~~AG   21 (47)
                      +|.|+.||+++.|
T Consensus       134 ~~vC~vCGy~~~g  146 (166)
T COG1592         134 VWVCPVCGYTHEG  146 (166)
T ss_pred             EEEcCCCCCcccC
Confidence            8999999999998

>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=85.94  E-value=0.69  Score=19.88  Aligned_cols=11  Identities=18%  Similarity=0.323  Sum_probs=9.6

Q ss_pred             EeeCCCCeeEE
Q 040416           10 WGCKDSSKVKA   20 (47)
Q Consensus        10 W~C~~C~~~~A   20 (47)
                      +.|..|++.|.
T Consensus         1 y~C~~C~~~f~   11 (23)
T PF00096_consen    1 YKCPICGKSFS   11 (23)
T ss_dssp             EEETTTTEEES
T ss_pred             CCCCCCCCccC
Confidence            68999999985

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....

>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A

Probab=84.63  E-value=0.74  Score=19.16  Aligned_cols=11  Identities=18%  Similarity=0.259  Sum_probs=7.7

Q ss_pred             EeeCCCCeeEE
Q 040416           10 WGCKDSSKVKA   20 (47)
Q Consensus        10 W~C~~C~~~~A   20 (47)
                      |.|..|+++|.
T Consensus         1 ~~C~~C~~~~~   11 (24)
T PF13894_consen    1 FQCPICGKSFR   11 (24)
T ss_dssp             EE-SSTS-EES
T ss_pred             CCCcCCCCcCC
Confidence            78999999875

...

>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center

Probab=84.42  E-value=0.58  Score=22.69  Aligned_cols=14  Identities=14%  Similarity=0.278  Sum_probs=11.8

Q ss_pred             EEeeCCCCeeEEcc
Q 040416            9 IWGCKDSSKVKAGG   22 (47)
Q Consensus         9 IW~C~~C~~~~AGG   22 (47)
                      +|.|+.||++.-+.
T Consensus         1 ~~~C~~CGy~y~~~   14 (33)
T cd00350           1 KYVCPVCGYIYDGE   14 (33)
T ss_pred             CEECCCCCCEECCC
Confidence            59999999988764

The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]

Probab=82.95  E-value=0.64  Score=25.73  Aligned_cols=10  Identities=20%  Similarity=0.840  Sum_probs=8.8

Q ss_pred             EeeCCCCeeE
Q 040416           10 WGCKDSSKVK   19 (47)
Q Consensus        10 W~C~~C~~~~   19 (47)
                      |.|.+||+|-
T Consensus        38 ~~CGkCgyTe   47 (51)
T COG1998          38 WACGKCGYTE   47 (51)
T ss_pred             eEeccccceE
Confidence            9999999873

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	47
3izr_m	92	Localization Of The Large Subunit Ribosomal Protein		6e-15
1ysh_D	73	Localization And Dynamic Behavior Of Ribosomal Prot		2e-09
3zf7_o	93	High-resolution Cryo-electron Microscopy Structure		9e-08
3izs_m	92	Localization Of The Large Subunit Ribosomal Protein		2e-06
1s1i_9	91	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		2e-06
2zkr_z	92	Structure Of A Mammalian Ribosomal 60s Subunit With		4e-06
4a17_Y	103	T.Thermophila 60s Ribosomal Subunit In Complex With		9e-06

>pdb|3IZR|MM Chain m, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 92

Iteration: 1
 Score = 75.9 bits (185), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 36/44 (81%), Positives = 38/44 (86%)
Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          RKAVGIWGCKD  KVKAGGAYT+N  SAVT R TIRRLREQTE+
Sbjct: 49 RKAVGIWGCKDCGKVKAGGAYTMNTASAVTVRSTIRRLREQTEA 92

>pdb|1YSH|D Chain D, Localization And Dynamic Behavior Of Ribosomal Protein L30e Length = 73

Iteration: 1
 Score = 57.0 bits (136), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 27/34 (79%), Positives = 28/34 (82%)
Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVT 37
          RKAVGIWGCKD  KVKAGGAYT+N  SAVT R T
Sbjct: 40 RKAVGIWGCKDCGKVKAGGAYTMNTASAVTVRST 73

>pdb|3ZF7|OO Chain o, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 93

Iteration: 1
 Score = 52.0 bits (123), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 26/44 (59%), Positives = 30/44 (68%)
Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          RKAVGIW C   SK  AGGAYTL+  +  T R T+RRLRE  +S
Sbjct: 49 RKAVGIWRCDGCSKTVAGGAYTLSTPNNTTVRSTVRRLRELKQS 92

>pdb|3IZS|MM Chain m, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 92

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/44 (54%), Positives = 28/44 (63%)
Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          R A GIW C    K  AGGAYT++  +A T R TIRRLRE  E+
Sbjct: 49 RGAAGIWTCSCCKKTVAGGAYTVSTAAAATVRSTIRRLREMVEA 92

>pdb|1S1I|9 Chain 9, 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 = 91

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/44 (54%), Positives = 28/44 (63%)
Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES 47
          R A GIW C    K  AGGAYT++  +A T R TIRRLRE  E+
Sbjct: 48 RGAAGIWTCSCCKKTVAGGAYTVSTAAAATVRSTIRRLREMVEA 91

>pdb|2ZKR|ZZ Chain z, 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 = 92

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 23/40 (57%), Positives = 27/40 (67%)
Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLRE 43
          R+AVGIW C    K  AGGA+T N  SAVT +  IRRL+E
Sbjct: 49 RRAVGIWHCGSCMKTVAGGAWTYNTTSAVTVKSAIRRLKE 88

>pdb|4A17|Y Chain Y, 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 = 103

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 21/40 (52%), Positives = 27/40 (67%)
Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLRE 43
          R AVGIW CK   K+ AGGA+ L    AVTA+ T+ RL++
Sbjct: 49 RAAVGIWKCKPCKKIIAGGAWELTTPPAVTAKTTMNRLKK 88

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	47
3iz5_m	92	60S ribosomal protein L43 (L37AE); eukaryotic ribo	5e-12
1vq8_Z	83	50S ribosomal protein L37AE; ribosome 50S, protein	3e-11
3cc2_Z	116	50S ribosomal protein L37AE, 50S ribosomal protein	6e-11
3izc_m	92	60S ribosomal protein RPL43 (L37AE); eukaryotic ri	1e-10
4a17_Y	103	RPL37A, 60S ribosomal protein L32; eukaryotic ribo	7e-10
1ffk_W	73	Ribosomal protein L37AE; ribosome assembly, RNA-RN	1e-07
3jyw_9	72	60S ribosomal protein L43; eukaryotic ribosome, RA	2e-06

>1vq8_Z 50S ribosomal protein L37AE; 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: g.41.8.1 PDB: 1vq4_Z* 1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z* 1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z* 1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ... Length = 83

 Score = 51.3 bits (123), Expect = 3e-11
 Identities = 13/43 (30%), Positives = 17/43 (39%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE 46
          R+  GIW C        GG+Y        T R +IR    + E
Sbjct: 40 RQGTGIWQCSYCDYKFTGGSYKPETPGGKTVRRSIRAALSEDE 82

>3cc2_Z 50S ribosomal protein L37AE, 50S ribosomal protein L32E; genomic sequnece for R-proteins, ribonucleoprotein, ribosoma protein, RNA-binding; HET: 1MA OMU OMG UR3 PSU; 2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 3cc4_Z* 3cc7_Z* 3cce_Z* 3ccj_Z* 3ccl_Z* 3ccm_Z* 3ccq_Z* 3ccr_Z* 3ccs_Z* 3ccu_Z* 3ccv_Z* 3cd6_Z* 3cma_Z* 3cme_Z* 3i55_Z* 3i56_Z* 3cpw_Y* 4adx_Z Length = 116

 Score = 51.5 bits (123), Expect = 6e-11
 Identities = 13/43 (30%), Positives = 17/43 (39%)

Query: 4   RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE 46
           R+  GIW C        GG+Y        T R +IR    + E
Sbjct: 73  RQGTGIWQCSYCDYKFTGGSYKPETPGGKTVRRSIRAALSEDE 115

>4a17_Y RPL37A, 60S ribosomal protein L32; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_Y 4a1c_Y 4a1e_Y Length = 103

 Score = 48.4 bits (115), Expect = 7e-10
 Identities = 22/43 (51%), Positives = 28/43 (65%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE 46
          R AVGIW CK   K+ AGGA+ L    AVTA+ T+ RL++  E
Sbjct: 49 RAAVGIWKCKPCKKIIAGGAWELTTPPAVTAKTTMNRLKKLQE 91

>1ffk_W Ribosomal protein L37AE; ribosome assembly, RNA-RNA, protein-RNA, protein-protein; 2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1jj2_Y 1k73_1* 1k8a_1* 1k9m_1* 1kc8_1* 1kd1_1* 1kqs_Y* 1m1k_1* 1m90_1* 1n8r_1* 1nji_1* 1q7y_1* 1q81_1* 1q82_1* 1q86_1* 1qvf_Y 1qvg_Y 1w2b_Y 3cxc_Y* Length = 73

 Score = 41.7 bits (98), Expect = 1e-07
 Identities = 10/32 (31%), Positives = 12/32 (37%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTAR 35
          R +  IW C       AGGAYT    +     
Sbjct: 40 RASTSIWVCGHCGYKIAGGAYTPETVAGKAVM 71

>3jyw_9 60S ribosomal protein L43; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} Length = 72

 Score = 39.0 bits (91), Expect = 2e-06
 Identities = 17/34 (50%), Positives = 20/34 (58%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVT 37
          R A GIW C    K  AGGAYT++  +A T R T
Sbjct: 39 RGAAGIWTCSCCKKTVAGGAYTVSTAAAATVRST 72

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	47
3iz5_m	92	60S ribosomal protein L43 (L37AE); eukaryotic ribo	99.93
3izc_m	92	60S ribosomal protein RPL43 (L37AE); eukaryotic ri	99.93
4a17_Y	103	RPL37A, 60S ribosomal protein L32; eukaryotic ribo	99.93
3cc2_Z	116	50S ribosomal protein L37AE, 50S ribosomal protein	99.88
1vq8_Z	83	50S ribosomal protein L37AE; ribosome 50S, protein	99.87
3j21_i	83	50S ribosomal protein L37AE; archaea, archaeal, KI	99.81
3jyw_9	72	60S ribosomal protein L43; eukaryotic ribosome, RA	99.81
1ffk_W	73	Ribosomal protein L37AE; ribosome assembly, RNA-RN	99.78
3j21_g	51	50S ribosomal protein L40E; archaea, archaeal, KIN	96.93
2kvh_A	27	Zinc finger and BTB domain-containing protein 32;	83.45
3a43_A	139	HYPD, hydrogenase nickel incorporation protein HYP	80.87
3ga8_A	78	HTH-type transcriptional regulator MQSA (YGIT/B30;	80.83

>4a17_Y RPL37A, 60S ribosomal protein L32; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_Y 4a1c_Y 4a1e_Y

Probab=99.93  E-value=8.8e-27  Score=141.77  Aligned_cols=46  Identities=48%  Similarity=0.788  Sum_probs=44.5

Q ss_pred             ceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHHHHHHHhhhhC
Q 040416            2 AVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES   47 (47)
Q Consensus         2 ~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~irrl~e~~e~   47 (47)
                      |+|.++|||+|++||++||||||+|+||++.+|+++|+||+|++|+
T Consensus        47 vKR~a~GIW~C~kCg~~~AGGAy~~~T~~a~tv~~~irrl~e~~~~   92 (103)
T 4a17_Y           47 VKRAAVGIWKCKPCKKIIAGGAWELTTPPAVTAKTTMNRLKKLQEE   92 (103)
T ss_dssp             EEEEETTEEEETTTTEEEECCSSCSSCHHHHHHHHHHHHHHHHHHH
T ss_pred             eeecCcceEEcCCCCCEEeCCcccCCCcHHHHHHHHHHHHHHHHHH
Confidence            7999999999999999999999999999999999999999999873

>3cc2_Z 50S ribosomal protein L37AE, 50S ribosomal protein L32E; genomic sequnece for R-proteins, ribonucleoprotein, ribosoma protein, RNA-binding; HET: 1MA OMU OMG UR3 PSU; 2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 3cc4_Z* 3cc7_Z* 3cce_Z* 3ccj_Z* 3ccl_Z* 3ccm_Z* 3ccq_Z* 3ccr_Z* 3ccs_Z* 3ccu_Z* 3ccv_Z* 3cd6_Z* 3cma_Z* 3cme_Z* 3i55_Z* 3i56_Z* 3cpw_Y* 4adx_Z

Probab=99.88  E-value=3.9e-24  Score=132.07  Aligned_cols=46  Identities=28%  Similarity=0.476  Sum_probs=35.5

Q ss_pred             ceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHHHHHHHhhhhC
Q 040416            2 AVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES   47 (47)
Q Consensus         2 ~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~irrl~e~~e~   47 (47)
                      |+|.++|||+|++|+++||||||+|+||++.+++++|+||+|++|+
T Consensus        71 vKR~avGIW~C~~Cgk~fAGGAy~~~T~~~~t~~~~irrl~e~~~~  116 (116)
T 3cc2_Z           71 VDRQGTGIWQCSYCDYKFTGGSYKPETPGGKTVRRSIRAALSEDEE  116 (116)
T ss_dssp             EEEEETTEEEETTTCCEEECCSSSSSCHHHHHHHHC----------
T ss_pred             eEecCceeEECCCCCCEEECCCcccccchhhhHHHHHHHHHHhccC
Confidence            7899999999999999999999999999999999999999999875

>1vq8_Z 50S ribosomal protein L37AE; 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: g.41.8.1 PDB: 1vq4_Z* 1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z* 1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z* 1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ...

Probab=99.87  E-value=3e-23  Score=121.04  Aligned_cols=46  Identities=28%  Similarity=0.476  Sum_probs=35.2

Q ss_pred             ceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHHHHHHHhhhhC
Q 040416            2 AVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTES   47 (47)
Q Consensus         2 ~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~irrl~e~~e~   47 (47)
                      +.|.++|||+|++||++||||||+|+||++.+++++|+||+|++|+
T Consensus        38 v~r~atGiW~C~~Cg~~~aggay~~~t~~~~~~~~~i~r~~~~~~~   83 (83)
T 1vq8_Z           38 VDRQGTGIWQCSYCDYKFTGGSYKPETPGGKTVRRSIRAALSEDEE   83 (83)
T ss_dssp             EEEEETTEEEETTTCCEEECCSSSSSCHHHHHHHHC----------
T ss_pred             eeccCCCeEECCCCCCEecCCEecccchHHHHHHHHHHHHHHhccC
Confidence            6899999999999999999999999999999999999999999875

>3j21_i 50S ribosomal protein L37AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=99.81  E-value=2.8e-21  Score=113.66  Aligned_cols=37  Identities=30%  Similarity=0.506  Sum_probs=35.4

Q ss_pred             ceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHHH
Q 040416            2 AVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVTI   38 (47)
Q Consensus         2 ~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~i   38 (47)
                      |+|.++|||+|++||++||||||+|+||+++++.++|
T Consensus        46 vkR~a~GIW~C~kCg~~~AGGAy~~~T~~~~t~~r~~   82 (83)
T 3j21_i           46 VKRISTGIWQCQKCGATFAGGAYLPVTPAGKAVRRIT   82 (83)
T ss_dssp             EEEEETTEEEETTTCCEEECCSSSSSCHHHHHHHHSC
T ss_pred             eEecCcCeEEcCCCCCEEeCCccccCccHhhhhhhcc
Confidence            7999999999999999999999999999999998865

>3jyw_9 60S ribosomal protein L43; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus}

Probab=99.81  E-value=5.4e-22  Score=114.28  Aligned_cols=36  Identities=47%  Similarity=0.756  Sum_probs=34.4

Q ss_pred             ceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHH
Q 040416            2 AVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVT   37 (47)
Q Consensus         2 ~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~   37 (47)
                      |+|.++|||+|++||++||||||+|+||++.+|+++
T Consensus        37 vkR~a~GIW~C~~C~~~~AGGAy~~~T~~~~tv~s~   72 (72)
T 3jyw_9           37 VKRGAAGIWTCSCCKKTVAGGAYTVSTAAAATVRST   72 (72)
T ss_dssp             BSBCSSSCBCCSSSCCCCCCSSSSSCCHHHHHHTTC
T ss_pred             eEecCCCeEECCCCCCEEeCCccccCCccceeeecC
Confidence            799999999999999999999999999999999863

>1ffk_W Ribosomal protein L37AE; ribosome assembly, RNA-RNA, protein-RNA, protein-protein; 2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1jj2_Y 1k73_1* 1k8a_1* 1k9m_1* 1kc8_1* 1kd1_1* 1kqs_Y* 1m1k_1* 1m90_1* 1n8r_1* 1nji_1* 1q7y_1* 1q81_1* 1q82_1* 1q86_1* 1qvf_Y 1qvg_Y 1w2b_Y 3cxc_Y*

Probab=99.78  E-value=1.7e-20  Score=107.95  Aligned_cols=35  Identities=29%  Similarity=0.415  Sum_probs=33.5

Q ss_pred             ceeeEEEEEeeCCCCeeEEcccccccccHHHHHHH
Q 040416            2 AVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARV   36 (47)
Q Consensus         2 ~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~   36 (47)
                      |+|.++|||+|++|+++||||||+|+||++.++++
T Consensus        38 vkR~a~GIW~C~~C~~~~AGGAy~~~T~~~~t~~~   72 (73)
T 1ffk_W           38 LKRASTSIWVCGHCGYKIAGGAYTPETVAGKAVMK   72 (73)
T ss_pred             eEEEEeEEEECCCCCcEEECCCccccccceEEEec
Confidence            78999999999999999999999999999999875

>3j21_g 50S ribosomal protein L40E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=96.93  E-value=8.5e-05  Score=39.87  Aligned_cols=15  Identities=13%  Similarity=0.244  Sum_probs=13.6

Q ss_pred             eeEEEEEeeCCCCee
Q 040416            4 RKAVGIWGCKDSSKV   18 (47)
Q Consensus         4 R~avGIW~C~~C~~~   18 (47)
                      |.++|||+|++||++
T Consensus        23 ~~~~gaw~CrKCG~~   37 (51)
T 3j21_g           23 TNPWGAKKCRKCGYK   37 (51)
T ss_dssp             EECTTCSSCSSSSSC
T ss_pred             cCCCCceecCCCCCc
Confidence            578999999999987

>2kvh_A Zinc finger and BTB domain-containing protein 32; protein/DNA, metal-binding, transcription; NMR {Mus musculus}

Probab=83.45  E-value=0.59  Score=18.61  Aligned_cols=11  Identities=9%  Similarity=0.338  Sum_probs=9.6

Q ss_pred             EeeCCCCeeEE
Q 040416           10 WGCKDSSKVKA   20 (47)
Q Consensus        10 W~C~~C~~~~A   20 (47)
                      +.|..|++.|.
T Consensus         4 ~~C~~C~k~f~   14 (27)
T 2kvh_A            4 FSCSLCPQRSR   14 (27)
T ss_dssp             EECSSSSCEES
T ss_pred             ccCCCcChhhC
Confidence            68999999885

>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE] hydrogenase maturation, zinc-finger, nickel binding, metal-binding; HET: FME; 2.30A {Pyrococcus kodakaraensis} PDB: 3a44_A*

Probab=80.87  E-value=0.79  Score=27.47  Aligned_cols=17  Identities=6%  Similarity=0.163  Sum_probs=14.8

Q ss_pred             EEEEeeCCCCeeEEccc
Q 040416            7 VGIWGCKDSSKVKAGGA   23 (47)
Q Consensus         7 vGIW~C~~C~~~~AGGA   23 (47)
                      -+.|.|..||+.|.+..
T Consensus        68 p~~~~C~~CG~~~~~~~   84 (139)
T 3a43_A           68 EAVFKCRNCNYEWKLKE   84 (139)
T ss_dssp             CCEEEETTTCCEEEGGG
T ss_pred             CCcEECCCCCCEEeccc
Confidence            46899999999999866

>3ga8_A HTH-type transcriptional regulator MQSA (YGIT/B30; helix-turn-helix, Zn-binding protein, DNA-binding, transcrip transcription regulation; HET: PE4; 1.70A {Escherichia coli k-12} PDB: 3hi2_A

Probab=80.83  E-value=2.5  Score=22.58  Aligned_cols=34  Identities=6%  Similarity=0.061  Sum_probs=23.1

Q ss_pred             EEEEeeCCCCeeEEcccccccccHHHHHHHHHHHHHhhhh
Q 040416            7 VGIWGCKDSSKVKAGGAYTLNIGSAVTARVTIRRLREQTE   46 (47)
Q Consensus         7 vGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~irrl~e~~e   46 (47)
                      +=-|.|..||..+..      ...+.-+...+..|+...+
T Consensus        34 Vp~~~C~~CGE~~~~------~e~~~~~~~~~~~f~~~vd   67 (78)
T 3ga8_A           34 IHGLYCVHCEESIMN------KEESDAFMAQVKAFRASVN   67 (78)
T ss_dssp             EEEEEETTTCCEECC------HHHHHHHHHHHHHHHHHHH
T ss_pred             ceeEECCCCCCEEEC------HHHHHHHHHHHHHHHHHHh
Confidence            445999999998754      4455556666666666543

---

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	47
d1vqoz1	73	g.41.8.1 (Z:10-82) Ribosomal protein L37ae {Archae	5e-07
d1jj2y_	73	g.41.8.1 (Y:) Ribosomal protein L37ae {Archaeon Ha	7e-07

>d1vqoz1 g.41.8.1 (Z:10-82) Ribosomal protein L37ae {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 73

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L37ae
domain: Ribosomal protein L37ae
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 39.3 bits (92), Expect = 5e-07
 Identities = 10/34 (29%), Positives = 13/34 (38%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVT 37
          R+  GIW C        GG+Y        T R +
Sbjct: 40 RQGTGIWQCSYCDYKFTGGSYKPETPGGKTVRRS 73

>d1jj2y_ g.41.8.1 (Y:) Ribosomal protein L37ae {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 73

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L37ae
domain: Ribosomal protein L37ae
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 38.9 bits (91), Expect = 7e-07
 Identities = 9/34 (26%), Positives = 10/34 (29%)

Query: 4  RKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVT 37
          R   GIW C       AGG Y     +       
Sbjct: 40 RAGTGIWMCGHCGYKIAGGCYQPETVAGKAVMKA 73

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	47
d1jj2y_	73	Ribosomal protein L37ae {Archaeon Haloarcula maris	99.83
d1vqoz1	73	Ribosomal protein L37ae {Archaeon Haloarcula maris	99.83
d1lkoa2	44	Rubrerythrin, C-terminal domain {Desulfovibrio vul	92.72
d1nnqa2	37	Rubrerythrin, C-terminal domain {Archaeon Pyrococc	91.21
d1yuza2	36	Nigerythrin, C-terminal domain {Desulfovibrio vulg	90.36
d1x6ha1	37	Transcriptional repressor CTCF {Human (Homo sapien	86.93
d1x6ea2	26	Zinc finger protein 24 {Human (Homo sapiens) [TaxI	83.0

>d1jj2y_ g.41.8.1 (Y:) Ribosomal protein L37ae {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L37ae
domain: Ribosomal protein L37ae
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.83  E-value=4.3e-22  Score=113.80  Aligned_cols=37  Identities=24%  Similarity=0.388  Sum_probs=35.1

Q ss_pred             CceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHH
Q 040416            1 YAVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVT   37 (47)
Q Consensus         1 ~~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~   37 (47)
                      .|+|+++|||+|++|+++||||||+|+||++++|+++
T Consensus        37 ~vkR~a~GIW~C~kC~~~~AGgAy~p~T~a~~tv~~~   73 (73)
T d1jj2y_          37 KLKRAGTGIWMCGHCGYKIAGGCYQPETVAGKAVMKA   73 (73)
T ss_dssp             CEEEEETTEEEETTTCCEEECCSSSSSCHHHHHHHHC
T ss_pred             ceEEEEEEEEECCCCCCEEeCccceecchHHhhhccC
Confidence            3799999999999999999999999999999999974

>d1vqoz1 g.41.8.1 (Z:10-82) Ribosomal protein L37ae {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L37ae
domain: Ribosomal protein L37ae
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.83  E-value=4.6e-22  Score=113.70  Aligned_cols=37  Identities=27%  Similarity=0.482  Sum_probs=35.1

Q ss_pred             CceeeEEEEEeeCCCCeeEEcccccccccHHHHHHHH
Q 040416            1 YAVRKAVGIWGCKDSSKVKAGGAYTLNIGSAVTARVT   37 (47)
Q Consensus         1 ~~~R~avGIW~C~~C~~~~AGGAy~~~T~~a~tvk~~   37 (47)
                      .|+|+++|||+|++|+++||||||+|+||++++|+++
T Consensus        37 ~vkR~a~GIW~C~kC~~~~AGGAy~p~T~~~~tvrrt   73 (73)
T d1vqoz1          37 RVDRQGTGIWQCSYCDYKFTGGSYKPETPGGKTVRRS   73 (73)
T ss_dssp             CEEEEETTEEEETTTCCEEECCSSSSSCTTHHHHHHC
T ss_pred             eeEEEEEEEEECCCCCCEEeCCeeeeccchhheeecC
Confidence            3899999999999999999999999999999999874

>d1lkoa2 g.41.5.1 (A:148-191) Rubrerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=92.72  E-value=0.059  Score=26.74  Aligned_cols=20  Identities=25%  Similarity=0.699  Sum_probs=17.3

Q ss_pred             eeeEEEEEeeCCCCeeEEcc
Q 040416            3 VRKAVGIWGCKDSSKVKAGG   22 (47)
Q Consensus         3 ~R~avGIW~C~~C~~~~AGG   22 (47)
                      +|...-+|.|..||+..-|-
T Consensus         2 kk~~~~~W~C~~CGyi~~g~   21 (44)
T d1lkoa2           2 LREQATKWRCRNCGYVHEGT   21 (44)
T ss_dssp             EEEEEEEEEETTTCCEEEEE
T ss_pred             CCCCCeEEEcCCCCcEEECC
Confidence            57788899999999999873

>d1nnqa2 g.41.5.1 (A:135-171) Rubrerythrin, C-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=91.21  E-value=0.059  Score=25.75  Aligned_cols=15  Identities=7%  Similarity=0.138  Sum_probs=13.3

Q ss_pred             EEEeeCCCCeeEEcc
Q 040416            8 GIWGCKDSSKVKAGG   22 (47)
Q Consensus         8 GIW~C~~C~~~~AGG   22 (47)
                      -+|.|.-||+++.|-
T Consensus         4 ~~~~C~vCG~i~~g~   18 (37)
T d1nnqa2           4 KVYICPICGYTAVDE   18 (37)
T ss_dssp             CEEECTTTCCEEESC
T ss_pred             cEEECCCCCCEecCC
Confidence            379999999999984

>d1yuza2 g.41.5.1 (A:167-202) Nigerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Nigerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=90.36  E-value=0.08  Score=25.20  Aligned_cols=15  Identities=13%  Similarity=0.209  Sum_probs=13.3

Q ss_pred             EEEeeCCCCeeEEcc
Q 040416            8 GIWGCKDSSKVKAGG   22 (47)
Q Consensus         8 GIW~C~~C~~~~AGG   22 (47)
                      -+|.|..||++..|-
T Consensus         4 ~~~vC~vCGyi~~g~   18 (36)
T d1yuza2           4 KFHLCPICGYIHKGE   18 (36)
T ss_dssp             CEEECSSSCCEEESS
T ss_pred             CEEECCCCCCEeeCC
Confidence            479999999999984

>d1x6ha1 g.37.1.1 (A:44-80) Transcriptional repressor CTCF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Transcriptional repressor CTCF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.93  E-value=0.11  Score=25.00  Aligned_cols=11  Identities=18%  Similarity=0.407  Sum_probs=9.7

Q ss_pred             EeeCCCCeeEE
Q 040416           10 WGCKDSSKVKA   20 (47)
Q Consensus        10 W~C~~C~~~~A   20 (47)
                      ..|.+|+|+|.
T Consensus         5 fvcskcgktft   15 (37)
T d1x6ha1           5 FVCSKCGKTFT   15 (37)
T ss_dssp             EECSSSCCEES
T ss_pred             eeecccccchh
Confidence            57999999995

>d1x6ea2 g.37.1.1 (A:41-66) Zinc finger protein 24 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein 24
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.00  E-value=0.27  Score=21.72  Aligned_cols=13  Identities=15%  Similarity=0.414  Sum_probs=10.5

Q ss_pred             EeeCCCCeeEEcc
Q 040416           10 WGCKDSSKVKAGG   22 (47)
Q Consensus        10 W~C~~C~~~~AGG   22 (47)
                      .+|..|||.|.-.
T Consensus         3 y~C~eCgK~F~~~   15 (26)
T d1x6ea2           3 YKCLECGKAFSQN   15 (26)
T ss_dssp             EECSSSCCEESSH
T ss_pred             ccCCCCcCeeccC
Confidence            4799999998643