Citrus Sinensis ID: 037395

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-
Protein Sequence
MKLRRQSKEAPGKGQMDEGIDSRSEVVSVDRDESRVPSICSCANRITPHAFDHGFILSGFAEKDDQEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccEEEEcccccccccccccccccccccccccEEEccccccccccccccccccccHHHHHHHHHHHHHccccccEEEEEEEEEEEEEcccccccccccc
Secondary Structure Prediction (SSPRO)
cccHcccccccccccccccccccccEEEEcccccccccHcccHcccccccccccEEEccccccccccccccccccccHHHHHHHHHHHHHHccHHHHHHHHHEEEEEEcccccccEEcccc
Coil and Loop (DISEMBL)
mklrrqskeapgkgqmdegidsrsevvsvdrdesrvpsicscanritphafdhgfilsgfaekddqegmncwkpfvnpaLMFYFVFACVAWGSWNYKYAIKRKVVGIWSckycgkvkagga
Flexible Loop (DISEMBL)
mklrrqskeapgkgqmdegidsrsevvsvdrdesrVPSICSCANRITPHAFDHGFILSGFAEKDDQEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA
Low Complexity Region (SEG)
MKLRRQSKEAPGKGQMDEGIDSRSEVVSVDRDESRVPSICSCANRITPHAFDHGFILSGFAEKDDQEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA
Disordered region (IsUnstruct)
************************************PSICSCANRITPHAFDHGFILSGFAEKDDQEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKV*****
Disordered Region (DISOPRED)
**************************VSVDRDESRVPSICSCANRITPHAFDHGFILSGFAEKDDQEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKA***
Disordered Region (DISEMBL)
************************************PSICSCANRITPHAFDHGFILSGFAEKDDQEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA
Disordered Region (DISPRO)
*********************************SRVPSICSCANRITPHAFDHGFILSGFAEKDDQEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKA***
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKLRRQSKEAPGKGQMDEGIDSRSEVVSVDRDESRVPSICSCANRITPHAFDHGFILSGFAEKDDQEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA
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	121	2.2.26 [Sep-21-2011]
Q9XHE4	92	60S ribosomal protein L37	N/A	no	0.206	0.271	0.84	4e-05
Q9SRK6	92	Putative 60S ribosomal pr	yes	no	0.206	0.271	0.84	4e-05
Q9ZRS8	92	60S ribosomal protein L37	N/A	no	0.206	0.271	0.8	0.0002
Q5QM99	92	60S ribosomal protein L37	yes	no	0.206	0.271	0.8	0.0002
P43209	93	60S ribosomal protein L37	N/A	no	0.206	0.268	0.8	0.0003
Q8RXU5	92	60S ribosomal protein L37	no	no	0.206	0.271	0.8	0.0003

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

 Score = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 21/25 (84%), Positives = 22/25 (88%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           KYA+KRK VGIW CK CGKVKAGGA
Sbjct: 44  KYAVKRKAVGIWGCKACGKVKAGGA 68

Gossypium hirsutum (taxid: 3635)

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

 Score = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 21/25 (84%), Positives = 23/25 (92%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           KY++KRKVVGIW CK CGKVKAGGA
Sbjct: 44  KYSVKRKVVGIWGCKDCGKVKAGGA 68

Arabidopsis thaliana (taxid: 3702)

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

 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/25 (80%), Positives = 22/25 (88%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           K+A+KRK VGIW CK CGKVKAGGA
Sbjct: 44  KFAVKRKAVGIWGCKDCGKVKAGGA 68

Pseudotsuga menziesii (taxid: 3357)

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

 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/25 (80%), Positives = 22/25 (88%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           K+A+KRK VGIW CK CGKVKAGGA
Sbjct: 44  KFAVKRKAVGIWGCKDCGKVKAGGA 68

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/25 (80%), Positives = 21/25 (84%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           KY +KRK VGIW CK CGKVKAGGA
Sbjct: 44  KYGVKRKAVGIWGCKDCGKVKAGGA 68

Brassica rapa (taxid: 51350)

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

 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/25 (80%), Positives = 21/25 (84%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           KY +KRK VGIW CK CGKVKAGGA
Sbjct: 44  KYGVKRKAVGIWGCKDCGKVKAGGA 68

Arabidopsis thaliana (taxid: 3702)

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	121
7576200	1606	protein synthesis initiation factor-like	0.206	0.015	0.8	0.0002
224067552	92	predicted protein [Populus trichocarpa]	0.206	0.271	0.88	0.0007

>gi|7576200|emb|CAB87861.1| protein synthesis initiation factor-like [Arabidopsis thaliana]

 Score = 49.7 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/25 (80%), Positives = 21/25 (84%)

Query: 97   KYAIKRKVVGIWSCKYCGKVKAGGA 121
            KY +KRK VGIW CK CGKVKAGGA
Sbjct: 1558 KYGVKRKAVGIWGCKDCGKVKAGGA 1582

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224067552|ref|XP_002302504.1| predicted protein [Populus trichocarpa] gi|118483173|gb|ABK93491.1| unknown [Populus trichocarpa] gi|222844230|gb|EEE81777.1| predicted protein [Populus trichocarpa]

 Score = 48.1 bits (113), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 22/25 (88%), Positives = 23/25 (92%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           KYA+KRK VGIWSCK CGKVKAGGA
Sbjct: 44  KYAVKRKAVGIWSCKDCGKVKAGGA 68

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

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	121
TAIR|locus:2085532	92	AT3G10950 [Arabidopsis thalian	0.206	0.271	0.84	1.4e-07
TAIR|locus:505006406	92	AT3G60245 [Arabidopsis thalian	0.206	0.271	0.8	4.8e-07
FB|FBgn0261608	92	RpL37A "Ribosomal protein L37A	0.206	0.271	0.64	0.00073
WB|WBGene00004456	91	rpl-43 [Caenorhabditis elegans	0.206	0.274	0.64	0.00073

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

 Score = 120 (47.3 bits), Expect = 1.4e-07, P = 1.4e-07
 Identities = 21/25 (84%), Positives = 23/25 (92%)

Query:    97 KYAIKRKVVGIWSCKYCGKVKAGGA 121
             KY++KRKVVGIW CK CGKVKAGGA
Sbjct:    44 KYSVKRKVVGIWGCKDCGKVKAGGA 68

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 = 115 (45.5 bits), Expect = 4.8e-07, P = 4.8e-07
 Identities = 20/25 (80%), Positives = 21/25 (84%)

Query:    97 KYAIKRKVVGIWSCKYCGKVKAGGA 121
             KY +KRK VGIW CK CGKVKAGGA
Sbjct:    44 KYGVKRKAVGIWGCKDCGKVKAGGA 68

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

FB|FBgn0261608 RpL37A "Ribosomal protein L37A" [Drosophila melanogaster (taxid:7227)]

 Score = 85 (35.0 bits), Expect = 0.00073, P = 0.00072
 Identities = 16/25 (64%), Positives = 19/25 (76%)

Query:    97 KYAIKRKVVGIWSCKYCGKVKAGGA 121
             K ++KR VVGIWSCK C +  AGGA
Sbjct:    44 KDSMKRAVVGIWSCKRCKRTVAGGA 68

GO:0006412 "translation" evidence=ISS

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

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

GO:0000022 "mitotic spindle elongation" evidence=IMP

GO:0007052 "mitotic spindle organization" evidence=IMP

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

 Score = 85 (35.0 bits), Expect = 0.00073, P = 0.00072
 Identities = 16/25 (64%), Positives = 18/25 (72%)

Query:    97 KYAIKRKVVGIWSCKYCGKVKAGGA 121
             K A+KRK  GIW+C  C KV AGGA
Sbjct:    44 KEAMKRKATGIWNCAKCHKVVAGGA 68


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.322   0.137   0.456    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      121       121   0.00091  102 3  11 22  0.48    30
                                                     29  0.49    32


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  4
  No. of states in DFA:  601 (64 KB)
  Total size of DFA:  153 KB (2091 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  12.74u 0.10s 12.84t   Elapsed:  00:00:01
  Total cpu time:  12.74u 0.10s 12.84t   Elapsed:  00:00:01
  Start:  Sat May 11 12:05:16 2013   End:  Sat May 11 12:05:17 2013

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

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

No confident hit detected by STRING

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	121
pfam01780	90	pfam01780, Ribosomal_L37ae, Ribosomal L37ae protei	9e-08
PTZ00255	90	PTZ00255, PTZ00255, 60S ribosomal protein L37a; Pr	2e-06
PRK03976	90	PRK03976, rpl37ae, 50S ribosomal protein L37Ae; Re	4e-04

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

 Score = 46.1 bits (110), Expect = 9e-08
 Identities = 17/25 (68%), Positives = 19/25 (76%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           K A+KRK VGIW C+ CGK  AGGA
Sbjct: 43  KDAVKRKAVGIWKCRKCGKTFAGGA 67

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 = 42.4 bits (100), Expect = 2e-06
 Identities = 16/25 (64%), Positives = 19/25 (76%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           K+A+KR+ VGIW CK C K  AGGA
Sbjct: 44  KHAVKRQAVGIWRCKGCKKTVAGGA 68

Length = 90

>gnl|CDD|235183 PRK03976, rpl37ae, 50S ribosomal protein L37Ae; Reviewed

 Score = 36.5 bits (85), Expect = 4e-04
 Identities = 12/25 (48%), Positives = 15/25 (60%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           +  +KR   GIW C+ CG   AGGA
Sbjct: 44  RPKVKRVGTGIWECRKCGAKFAGGA 68

Length = 90

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	121
PRK03976	90	rpl37ae 50S ribosomal protein L37Ae; Reviewed	99.83
PF01780	90	Ribosomal_L37ae: Ribosomal L37ae protein family; I	99.83
TIGR00280	91	L37a ribosomal protein L37a. This model finds euka	99.83
PTZ00255	90	60S ribosomal protein L37a; Provisional	99.83
KOG0402	92	consensus 60S ribosomal protein L37 [Translation,	99.76
COG1997	89	RPL43A Ribosomal protein L37AE/L43A [Translation,	99.67
PF12760	46	Zn_Tnp_IS1595: Transposase zinc-ribbon domain; Int	96.83
TIGR03655	53	anti_R_Lar restriction alleviation protein, Lar fa	96.34
PRK00432	50	30S ribosomal protein S27ae; Validated	94.96
PF07282	69	OrfB_Zn_ribbon: Putative transposase DNA-binding d	94.68
PRK00398	46	rpoP DNA-directed RNA polymerase subunit P; Provis	93.24
PRK09710	64	lar restriction alleviation and modification prote	93.2
PHA00626	59	hypothetical protein	92.94
PF08271	43	TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013	92.9
COG0675	364	Transposase and inactivated derivatives [DNA repli	92.7
smart00661	52	RPOL9 RNA polymerase subunit 9.	92.19
PF08273	40	Prim_Zn_Ribbon: Zinc-binding domain of primase-hel	92.18
PF08646	146	Rep_fac-A_C: Replication factor-A C terminal domai	91.02
PF14354	61	Lar_restr_allev: Restriction alleviation protein L	90.12
PHA02942	383	putative transposase; Provisional	89.49
COG1998	51	RPS31 Ribosomal protein S27AE [Translation, riboso	88.0
PRK14892	99	putative transcription elongation factor Elf1; Pro	87.05
COG4888	104	Uncharacterized Zn ribbon-containing protein [Gene	86.53
PF06689	41	zf-C4_ClpX: ClpX C4-type zinc finger; InterPro: IP	86.26
COG3677	129	Transposase and inactivated derivatives [DNA repli	86.1
PF11781	36	RRN7: RNA polymerase I-specific transcription init	85.69
cd04476	166	RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds cor	85.05
PF05129	81	Elf1: Transcription elongation factor Elf1 like; I	84.36
TIGR03831	46	YgiT_finger YgiT-type zinc finger domain. This dom	84.27
PRK12366	637	replication factor A; Reviewed	84.0
smart00834	41	CxxC_CXXC_SSSS Putative regulatory protein. CxxC_C	83.62
PF09538	108	FYDLN_acid: Protein of unknown function (FYDLN_aci	82.64
PF03811	36	Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR0	81.2
COG1571	421	Predicted DNA-binding protein containing a Zn-ribb	80.88
TIGR01384	104	TFS_arch transcription factor S, archaeal. There h	80.17

>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed

Probab=99.83  E-value=9.1e-22  Score=139.52  Aligned_cols=53  Identities=26%  Similarity=0.346  Sum_probs=51.0

Q ss_pred             ccccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           65 DQEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        65 ~~~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      -.-|.++||+++++|.-||++    |+|||||+++|||.++|||+|++|+++|||||
T Consensus        16 ~RYG~slRK~v~kie~~q~a~----y~CpfCgk~~vkR~a~GIW~C~~C~~~~AGGA   68 (90)
T PRK03976         16 ARYGRKIRKRVADIEEKMRAK----HVCPVCGRPKVKRVGTGIWECRKCGAKFAGGA   68 (90)
T ss_pred             CccCHHHHHHHHHHHHHHhcC----ccCCCCCCCceEEEEEEEEEcCCCCCEEeCCc
Confidence            356999999999999999999    99999999999999999999999999999998

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

Probab=99.83  E-value=6e-22  Score=140.44  Aligned_cols=52  Identities=33%  Similarity=0.438  Sum_probs=48.7

Q ss_pred             cccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           66 QEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        66 ~~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      .-|+++||+++++|..||.+    |+|||||+++|||+++|||+|++|+++|||||
T Consensus        16 RYG~slRK~vkkie~~q~~k----y~Cp~Cgk~~vkR~a~GIW~C~~C~~~~AGGA   67 (90)
T PF01780_consen   16 RYGASLRKRVKKIEISQHAK----YTCPFCGKTSVKRVATGIWKCKKCGKKFAGGA   67 (90)
T ss_dssp             SSTHHHHHHHHHHHHHHHS-----BEESSSSSSEEEEEETTEEEETTTTEEEE-BS
T ss_pred             CcCHHHHHHHHHHHHHHhCC----CcCCCCCCceeEEeeeEEeecCCCCCEEeCCC
Confidence            56999999999999999999    99999999999999999999999999999998

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=99.83  E-value=1.2e-21  Score=139.31  Aligned_cols=53  Identities=26%  Similarity=0.432  Sum_probs=51.0

Q ss_pred             ccccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           65 DQEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        65 ~~~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      ..-|.++||.++++|..||++    |+|||||+++|||.++|||+|++|+++|||||
T Consensus        15 ~RYG~slRK~v~kie~~q~a~----y~CpfCgk~~vkR~a~GIW~C~~C~~~~AGGA   67 (91)
T TIGR00280        15 PRYGLKLRRQVKKIEIQQKAK----YVCPFCGKKTVKRGSTGIWTCRKCGAKFAGGA   67 (91)
T ss_pred             CccCHHHHHHHHHHHHHHhcC----ccCCCCCCCceEEEeeEEEEcCCCCCEEeCCc
Confidence            356999999999999999999    99999999999999999999999999999998

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=99.83  E-value=1.4e-21  Score=138.50  Aligned_cols=53  Identities=34%  Similarity=0.490  Sum_probs=50.9

Q ss_pred             ccccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           65 DQEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        65 ~~~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      ..-|.++||+++++|.-||++    |+|||||+++|||.++|||+|++|+++|||||
T Consensus        16 ~RYG~slRK~v~kie~~q~a~----y~CpfCgk~~vkR~a~GIW~C~~C~~~~AGGA   68 (90)
T PTZ00255         16 TRYGASLRKQIKKIEISQHAK----YFCPFCGKHAVKRQAVGIWRCKGCKKTVAGGA   68 (90)
T ss_pred             CccCHHHHHHHHHHHHHHhCC----ccCCCCCCCceeeeeeEEEEcCCCCCEEeCCc
Confidence            356999999999999999999    99999999999999999999999999999997

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

Probab=99.76  E-value=5.6e-20  Score=132.32  Aligned_cols=52  Identities=37%  Similarity=0.458  Sum_probs=50.4

Q ss_pred             cccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           66 QEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        66 ~~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      .-|.||+|+.++++.-||++    |+|+||||..|||.|||||.|++|++++||||
T Consensus        17 rYGaSLrk~vKkiei~Qhak----y~CsfCGK~~vKR~AvGiW~C~~C~kv~agga   68 (92)
T KOG0402|consen   17 RYGASLRKMVKKIEIQQHAK----YTCSFCGKKTVKRKAVGIWKCGSCKKVVAGGA   68 (92)
T ss_pred             hhhHHHHHHHHHHHHHHhhh----hhhhhcchhhhhhhceeEEecCCccceeccce
Confidence            46899999999999999999    99999999999999999999999999999997

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

Probab=99.67  E-value=9.4e-18  Score=119.93  Aligned_cols=52  Identities=25%  Similarity=0.389  Sum_probs=49.9

Q ss_pred             cccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           66 QEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        66 ~~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      .-|+.+++..+.+|.-++.+    |.||+||++.|||.++|||.|++||++|||||
T Consensus        16 RYG~~~Rrrv~~ie~~~~~~----~~Cp~C~~~~VkR~a~GIW~C~kCg~~fAGga   67 (89)
T COG1997          16 RYGSKLRRRVKEIEAQQRAK----HVCPFCGRTTVKRIATGIWKCRKCGAKFAGGA   67 (89)
T ss_pred             ccchHHHHHHHHHHHHHhcC----CcCCCCCCcceeeeccCeEEcCCCCCeecccc
Confidence            46899999999999999999    99999999999999999999999999999997

>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc

Probab=96.83  E-value=0.00096  Score=40.66  Aligned_cols=32  Identities=19%  Similarity=0.101  Sum_probs=25.9

Q ss_pred             hhcceeecccCCCcceEEeEE-EEeeeCCCCce
Q 037395           85 VFACVAWGSWNYKYAIKRKVV-GIWSCKYCGKV  116 (121)
Q Consensus        85 ~~~~~htCPFCGK~kVKR~AV-GIWkCkkCgkt  116 (121)
                      ...--.+||.||...+.+... +.|+|+.|+++
T Consensus        14 RW~~g~~CP~Cg~~~~~~~~~~~~~~C~~C~~q   46 (46)
T PF12760_consen   14 RWPDGFVCPHCGSTKHYRLKTRGRYRCKACRKQ   46 (46)
T ss_pred             cCCCCCCCCCCCCeeeEEeCCCCeEECCCCCCc
Confidence            333446799999998888877 99999999874

It may be a zinc-binding beta ribbon domain that could bind DNA.

>TIGR03655 anti_R_Lar restriction alleviation protein, Lar family

Probab=96.34  E-value=0.0032  Score=39.32  Aligned_cols=27  Identities=15%  Similarity=0.268  Sum_probs=21.7

Q ss_pred             ecccCCCcce-EE------eEEEEeeeCCCCceE
Q 037395           91 WGSWNYKYAI-KR------KVVGIWSCKYCGKVK  117 (121)
Q Consensus        91 tCPFCGK~kV-KR------~AVGIWkCkkCgktf  117 (121)
                      .|||||...+ .|      ...|+|.|..|+...
T Consensus         3 PCPfCGg~~~~~~~~~~~~~~~~~~~C~~Cga~~   36 (53)
T TIGR03655         3 PCPFCGGADVYLRRGFDPLDLSHYFECSTCGASG   36 (53)
T ss_pred             CCCCCCCcceeeEeccCCCCCEEEEECCCCCCCc
Confidence            6999998865 55      467899999999764

Restriction alleviation proteins provide a countermeasure to host cell restriction enzyme defense against foreign DNA such as phage or plasmids. This family consists of homologs to the phage antirestriction protein Lar, and most members belong to phage genomes or prophage regions of bacterial genomes.

>PRK00432 30S ribosomal protein S27ae; Validated

Probab=94.96  E-value=0.013  Score=37.36  Aligned_cols=27  Identities=15%  Similarity=0.341  Sum_probs=22.6

Q ss_pred             eecccCCCcceEEeEEEEeeeCCCCceE
Q 037395           90 AWGSWNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCPFCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      -.||.||.. +-....+.|+|.+||++.
T Consensus        21 ~fCP~Cg~~-~m~~~~~r~~C~~Cgyt~   47 (50)
T PRK00432         21 KFCPRCGSG-FMAEHLDRWHCGKCGYTE   47 (50)
T ss_pred             CcCcCCCcc-hheccCCcEECCCcCCEE
Confidence            379999997 666666999999999985

>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins

Probab=94.68  E-value=0.024  Score=35.77  Aligned_cols=28  Identities=18%  Similarity=0.219  Sum_probs=25.0

Q ss_pred             eecccCCCcceEEeEEEEeeeCCCCceE
Q 037395           90 AWGSWNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCPFCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      -+||.||....++....+|.|..||.++
T Consensus        29 q~C~~CG~~~~~~~~~r~~~C~~Cg~~~   56 (69)
T PF07282_consen   29 QTCPRCGHRNKKRRSGRVFTCPNCGFEM   56 (69)
T ss_pred             cCccCcccccccccccceEEcCCCCCEE
Confidence            5899999998888888999999999874

More information about these proteins can be found at Protein of the Month: Transposase [].

>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional

Probab=93.24  E-value=0.065  Score=32.38  Aligned_cols=29  Identities=14%  Similarity=-0.019  Sum_probs=22.4

Q ss_pred             eeecccCCCcceEEeEEEEeeeCCCCceE
Q 037395           89 VAWGSWNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        89 ~htCPFCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      .|.|+-||.....-..++.++|..||..+
T Consensus         3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~   31 (46)
T PRK00398          3 EYKCARCGREVELDEYGTGVRCPYCGYRI   31 (46)
T ss_pred             EEECCCCCCEEEECCCCCceECCCCCCeE
Confidence            48899999986555555588999998754

>PRK09710 lar restriction alleviation and modification protein; Reviewed

Probab=93.20  E-value=0.066  Score=36.71  Aligned_cols=28  Identities=11%  Similarity=0.065  Sum_probs=20.2

Q ss_pred             eecccCCCcceEEeEEE---EeeeCCCCceE
Q 037395           90 AWGSWNYKYAIKRKVVG---IWSCKYCGKVK  117 (121)
Q Consensus        90 htCPFCGK~kVKR~AVG---IWkCkkCgktf  117 (121)
                      -.|||||...+.=.+.+   +|.|.+|+...
T Consensus         7 KPCPFCG~~~~~v~~~~g~~~v~C~~CgA~~   37 (64)
T PRK09710          7 KPCPFCGCPSVTVKAISGYYRAKCNGCESRT   37 (64)
T ss_pred             cCCCCCCCceeEEEecCceEEEEcCCCCcCc
Confidence            46999999975544443   46799998753

>PHA00626 hypothetical protein

Probab=92.94  E-value=0.078  Score=36.23  Aligned_cols=29  Identities=14%  Similarity=0.071  Sum_probs=23.2

Q ss_pred             ecccCCCcceEEeE-----EEEeeeCCCCceEec
Q 037395           91 WGSWNYKYAIKRKV-----VGIWSCKYCGKVKAG  119 (121)
Q Consensus        91 tCPFCGK~kVKR~A-----VGIWkCkkCgktfAG  119 (121)
                      .||.||...+.|-+     ..-+.|+.||+.++-
T Consensus         2 ~CP~CGS~~Ivrcg~cr~~snrYkCkdCGY~ft~   35 (59)
T PHA00626          2 SCPKCGSGNIAKEKTMRGWSDDYVCCDCGYNDSK   35 (59)
T ss_pred             CCCCCCCceeeeeceecccCcceEcCCCCCeech
Confidence            59999997666633     478999999999864

>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=92.90  E-value=0.051  Score=32.50  Aligned_cols=29  Identities=17%  Similarity=0.081  Sum_probs=22.8

Q ss_pred             eecccCCCcc-eEEeEEEEeeeCCCCceEe
Q 037395           90 AWGSWNYKYA-IKRKVVGIWSCKYCGKVKA  118 (121)
Q Consensus        90 htCPFCGK~k-VKR~AVGIWkCkkCgktfA  118 (121)
                      ++||.||... +--.+.|-..|+.||.++.
T Consensus         1 m~Cp~Cg~~~~~~D~~~g~~vC~~CG~Vl~   30 (43)
T PF08271_consen    1 MKCPNCGSKEIVFDPERGELVCPNCGLVLE   30 (43)
T ss_dssp             ESBTTTSSSEEEEETTTTEEEETTT-BBEE
T ss_pred             CCCcCCcCCceEEcCCCCeEECCCCCCEee
Confidence            5799999986 4455789999999998764

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. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.

>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]

Probab=92.70  E-value=0.076  Score=38.86  Aligned_cols=23  Identities=17%  Similarity=0.224  Sum_probs=19.7

Q ss_pred             eecccCCCcceEEeEEEEeeeCCCCceE
Q 037395           90 AWGSWNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCPFCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      -+||-||.     ...+.|.|..||.++
T Consensus       310 ~~C~~cg~-----~~~r~~~C~~cg~~~  332 (364)
T COG0675         310 KTCPCCGH-----LSGRLFKCPRCGFVH  332 (364)
T ss_pred             ccccccCC-----ccceeEECCCCCCee
Confidence            57999999     667889999999864

>smart00661 RPOL9 RNA polymerase subunit 9

Probab=92.19  E-value=0.11  Score=30.94  Aligned_cols=28  Identities=14%  Similarity=0.258  Sum_probs=21.4

Q ss_pred             ecccCCCcceEEeEEE--EeeeCCCCceEe
Q 037395           91 WGSWNYKYAIKRKVVG--IWSCKYCGKVKA  118 (121)
Q Consensus        91 tCPFCGK~kVKR~AVG--IWkCkkCgktfA  118 (121)
                      .||.||.....+..-+  .|.|..||+.+.
T Consensus         2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~~   31 (52)
T smart00661        2 FCPKCGNMLIPKEGKEKRRFVCRKCGYEEP   31 (52)
T ss_pred             CCCCCCCccccccCCCCCEEECCcCCCeEE
Confidence            5999999876654432  899999998764

>PF08273 Prim_Zn_Ribbon: Zinc-binding domain of primase-helicase; InterPro: IPR013237 This entry is represented by bacteriophage T7 Gp4

Probab=92.18  E-value=0.1  Score=32.38  Aligned_cols=26  Identities=19%  Similarity=0.412  Sum_probs=14.3

Q ss_pred             eecccCCCc-ceE----EeEEEEeeeCCCCc
Q 037395           90 AWGSWNYKY-AIK----RKVVGIWSCKYCGK  115 (121)
Q Consensus        90 htCPFCGK~-kVK----R~AVGIWkCkkCgk  115 (121)
                      -.||.||-. ..+    +...|-|.|+.|+.
T Consensus         4 ~pCP~CGG~DrFri~~d~~~~G~~~C~~C~~   34 (40)
T PF08273_consen    4 GPCPICGGKDRFRIFDDKDGRGTWICRQCGG   34 (40)
T ss_dssp             E--TTTT-TTTEEEETT----S-EEETTTTB
T ss_pred             CCCCCCcCccccccCcCcccCCCEECCCCCC
Confidence            479999755 455    34569999999965

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a zinc binding domain found in the N-terminal region of the bacteriophage T7 Gp4 and P4 alpha protein. P4 is a multifunctional protein with origin recognition, helicase and primase activities [, , ].; GO: 0003896 DNA primase activity, 0004386 helicase activity, 0008270 zinc ion binding; PDB: 1NUI_B.

>PF08646 Rep_fac-A_C: Replication factor-A C terminal domain; InterPro: IPR013955 Replication factor A (RP-A) binds and subsequently stabilises single-stranded DNA intermediates and thus prevents complementary DNA from reannealing

Probab=91.02  E-value=0.12  Score=36.60  Aligned_cols=27  Identities=19%  Similarity=0.254  Sum_probs=19.5

Q ss_pred             eecc--cCCCcceEEeEEEEeeeCCCCceE
Q 037395           90 AWGS--WNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCP--FCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      .-||  .|+|. |...+.|.|.|.+|++.+
T Consensus        19 ~aC~~~~C~kK-v~~~~~~~y~C~~C~~~~   47 (146)
T PF08646_consen   19 PACPNEKCNKK-VTENGDGSYRCEKCNKTV   47 (146)
T ss_dssp             EE-TSTTTS-B--EEETTTEEEETTTTEEE
T ss_pred             CCCCCccCCCE-eecCCCcEEECCCCCCcC
Confidence            5699  99886 444477899999999886

It also plays an essential role in several cellular processes in DNA metabolism including replication, recombination and repair of DNA []. Replication factor-A protein is also known as Replication protein A 70 kDa DNA-binding subunit. This entry is found at the C terminus of Replication factor A.; PDB: 1L1O_F 3U50_C.

>PF14354 Lar_restr_allev: Restriction alleviation protein Lar

Probab=90.12  E-value=0.18  Score=31.18  Aligned_cols=26  Identities=15%  Similarity=0.296  Sum_probs=16.3

Q ss_pred             eecccCCCcceEEeE-EE------Ee-eeCCCCc
Q 037395           90 AWGSWNYKYAIKRKV-VG------IW-SCKYCGK  115 (121)
Q Consensus        90 htCPFCGK~kVKR~A-VG------IW-kCkkCgk  115 (121)
                      ..|||||...+.-.. .+      .+ .|..||.
T Consensus         4 kPCPFCG~~~~~~~~~~~~~~~~~~~V~C~~Cga   37 (61)
T PF14354_consen    4 KPCPFCGSADVLIRQDEGFDYGMYYYVECTDCGA   37 (61)
T ss_pred             cCCCCCCCcceEeecccCCCCCCEEEEEcCCCCC
Confidence            469999987643332 22      11 2888886

>PHA02942 putative transposase; Provisional

Probab=89.49  E-value=0.19  Score=42.05  Aligned_cols=27  Identities=11%  Similarity=0.052  Sum_probs=21.4

Q ss_pred             eecccCCCcceEEeEEEEeeeCCCCceE
Q 037395           90 AWGSWNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCPFCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      -+||.||... ++.+..+|.|..||.+.
T Consensus       326 q~Cs~CG~~~-~~l~~r~f~C~~CG~~~  352 (383)
T PHA02942        326 VSCPKCGHKM-VEIAHRYFHCPSCGYEN  352 (383)
T ss_pred             ccCCCCCCcc-CcCCCCEEECCCCCCEe
Confidence            5799999764 45566789999999864

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

Probab=88.00  E-value=0.25  Score=32.91  Aligned_cols=28  Identities=14%  Similarity=0.285  Sum_probs=17.3

Q ss_pred             eecccCCCcceEEeEEEEeeeCCCCceE
Q 037395           90 AWGSWNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCPFCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      -.||.||--.+==.----|.|.+||+|-
T Consensus        20 ~~CPrCG~gvfmA~H~dR~~CGkCgyTe   47 (51)
T COG1998          20 RFCPRCGPGVFMADHKDRWACGKCGYTE   47 (51)
T ss_pred             ccCCCCCCcchhhhcCceeEeccccceE
Confidence            5799999422110001139999999984

>PRK14892 putative transcription elongation factor Elf1; Provisional

Probab=87.05  E-value=0.42  Score=34.38  Aligned_cols=39  Identities=23%  Similarity=0.307  Sum_probs=25.2

Q ss_pred             ccccchhhhhhhhhcceeecccCCCcce----EEeEEEEeeeCCCCce
Q 037395           73 KPFVNPALMFYFVFACVAWGSWNYKYAI----KRKVVGIWSCKYCGKV  116 (121)
Q Consensus        73 k~~~~~~lm~~~~~~~~htCPFCGK~kV----KR~AVGIWkCkkCgkt  116 (121)
                      |+.++..+--.-.    .+||+||..+|    .| .++.=.|..||.-
T Consensus         9 k~~~k~k~klpt~----f~CP~Cge~~v~v~~~k-~~~h~~C~~CG~y   51 (99)
T PRK14892          9 KKIIRPKPKLPKI----FECPRCGKVSISVKIKK-NIAIITCGNCGLY   51 (99)
T ss_pred             CCCcccccCCCcE----eECCCCCCeEeeeecCC-CcceEECCCCCCc
Confidence            3444444433333    68999996554    23 6778889999964

>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]

Probab=86.53  E-value=0.77  Score=34.20  Aligned_cols=30  Identities=17%  Similarity=0.115  Sum_probs=23.5

Q ss_pred             eeecccCCCcce-----E-EeEEEEeeeCCCCceEe
Q 037395           89 VAWGSWNYKYAI-----K-RKVVGIWSCKYCGKVKA  118 (121)
Q Consensus        89 ~htCPFCGK~kV-----K-R~AVGIWkCkkCgktfA  118 (121)
                      ..+|||||+.++     | -...|.=.|+.||..+.
T Consensus        22 ~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls~e   57 (104)
T COG4888          22 TFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLSFE   57 (104)
T ss_pred             eEecCccCCeeeeEEEEEecCceeEEEcccCcceEE
Confidence            368999999863     3 44788899999998764

>PF06689 zf-C4_ClpX: ClpX C4-type zinc finger; InterPro: IPR010603 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=86.26  E-value=0.15  Score=30.94  Aligned_cols=25  Identities=20%  Similarity=0.392  Sum_probs=13.1

Q ss_pred             eeecccCCCcc--eEEeEE---EEeeeCCC
Q 037395           89 VAWGSWNYKYA--IKRKVV---GIWSCKYC  113 (121)
Q Consensus        89 ~htCPFCGK~k--VKR~AV---GIWkCkkC  113 (121)
                      +..|+||||..  +.+.-.   |+.-|..|
T Consensus         1 ~~~CSFCgr~~~~v~~li~g~~~~~IC~~C   30 (41)
T PF06689_consen    1 EKRCSFCGRPESEVGRLISGPNGAYICDEC   30 (41)
T ss_dssp             --B-TTT--BTTTSSSEEEES-SEEEEHHH
T ss_pred             CCCccCCCCCHHHHhceecCCCCcEECHHH
Confidence            46899999984  666554   34666655

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 ClpX heat shock protein of Escherichia coli is a member of the universally conserved Hsp100 family of proteins, and possesses a putative zinc finger motif of the C4 type []. This presumed zinc binding domain (ZBD) is found at the N terminus of the ClpX protein. ClpX is an ATPase which functions both as a substrate specificity component of the ClpXP protease and as a molecular chaperone. ZBD is a member of the treble clef zinc finger family, a motif known to facilitate protein-ligand, protein-DNA, and protein-protein interactions and forms a constitutive dimer that is essential for the degradation of some, but not all, ClpX substrates []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0016887 ATPase activity, 0046983 protein dimerization activity, 0006200 ATP catabolic process, 0019538 protein metabolic process; PDB: 2DS8_B 2DS6_B 2DS5_A 1OVX_A 2DS7_A.

>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]

Probab=86.10  E-value=0.43  Score=34.95  Aligned_cols=36  Identities=11%  Similarity=0.097  Sum_probs=25.8

Q ss_pred             hhhhcce-eecccCCCcceEEeE-----EEEeeeCCCCceEe
Q 037395           83 YFVFACV-AWGSWNYKYAIKRKV-----VGIWSCKYCGKVKA  118 (121)
Q Consensus        83 ~~~~~~~-htCPFCGK~kVKR~A-----VGIWkCkkCgktfA  118 (121)
                      ++.++.. -.||+|+...++|.+     .-=|.|++|+++|.
T Consensus        23 ~~~~~~~~~~cP~C~s~~~~k~g~~~~~~qRyrC~~C~~tf~   64 (129)
T COG3677          23 AIRMQITKVNCPRCKSSNVVKIGGIRRGHQRYKCKSCGSTFT   64 (129)
T ss_pred             HHhhhcccCcCCCCCccceeeECCccccccccccCCcCccee
Confidence            3444444 789999988865554     33589999999984

>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[]

Probab=85.69  E-value=0.5  Score=28.39  Aligned_cols=26  Identities=15%  Similarity=0.105  Sum_probs=22.7

Q ss_pred             ecccCCCcceEEeEEEEeeeCCCCceE
Q 037395           91 WGSWNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        91 tCPFCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      .|+.||.. .-+..-|-|.|..||.+.
T Consensus        10 ~C~~C~~~-~~~~~dG~~yC~~cG~~~   35 (36)
T PF11781_consen   10 PCPVCGSR-WFYSDDGFYYCDRCGHQS   35 (36)
T ss_pred             cCCCCCCe-EeEccCCEEEhhhCceEc
Confidence            39999999 888889999999999753

>cd04476 RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds corresponding to the C-terminal OB fold, the ssDNA-binding domain (DBD)-C, of human RPA1 (also called RPA70)

Probab=85.05  E-value=0.4  Score=34.45  Aligned_cols=27  Identities=19%  Similarity=0.204  Sum_probs=19.8

Q ss_pred             eecccCCCcceEEeEEEEeeeCCCCceE
Q 037395           90 AWGSWNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCPFCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      .-||-|.|.. .-...|.|.|.+|++++
T Consensus        35 ~aC~~C~kkv-~~~~~~~~~C~~C~~~~   61 (166)
T cd04476          35 PACPGCNKKV-VEEGNGTYRCEKCNKSV   61 (166)
T ss_pred             ccccccCccc-EeCCCCcEECCCCCCcC
Confidence            3488898864 33333899999999875

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-C, RPA1 contains three other OB folds: DBD-A, DBD-B, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in DNA binding and trimerization. It contains two structural insertions not found to date in other OB-folds: a zinc ribbon and a three-helix bundle. RPA1 DBD-C also contains a Cys4-type zinc-binding motif, which plays a role in the ssDNA binding fun

>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines

Probab=84.36  E-value=1.6  Score=29.86  Aligned_cols=29  Identities=24%  Similarity=0.478  Sum_probs=16.4

Q ss_pred             eecccCC-Ccc--eE---EeEEEEeeeCCCCceEe
Q 037395           90 AWGSWNY-KYA--IK---RKVVGIWSCKYCGKVKA  118 (121)
Q Consensus        90 htCPFCG-K~k--VK---R~AVGIWkCkkCgktfA  118 (121)
                      .+||||+ +.+  ++   ...+|+=.|+.|+..+.
T Consensus        23 F~CPfC~~~~sV~v~idkk~~~~~~~C~~Cg~~~~   57 (81)
T PF05129_consen   23 FDCPFCNHEKSVSVKIDKKEGIGILSCRVCGESFQ   57 (81)
T ss_dssp             ---TTT--SS-EEEEEETTTTEEEEEESSS--EEE
T ss_pred             EcCCcCCCCCeEEEEEEccCCEEEEEecCCCCeEE
Confidence            5799999 544  22   24799999999998763

; PDB: 1WII_A.

>TIGR03831 YgiT_finger YgiT-type zinc finger domain

Probab=84.27  E-value=0.75  Score=26.29  Aligned_cols=15  Identities=27%  Similarity=0.454  Sum_probs=11.3

Q ss_pred             EEEEeeeCCCCceEe
Q 037395          104 VVGIWSCKYCGKVKA  118 (121)
Q Consensus       104 AVGIWkCkkCgktfA  118 (121)
                      .+--|.|..||..+.
T Consensus        29 ~vp~~~C~~CGE~~~   43 (46)
T TIGR03831        29 NVPALVCPQCGEEYL   43 (46)
T ss_pred             CCCccccccCCCEee
Confidence            346688999998764

This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.

>PRK12366 replication factor A; Reviewed

Probab=84.00  E-value=0.4  Score=42.62  Aligned_cols=26  Identities=27%  Similarity=0.479  Sum_probs=20.7

Q ss_pred             eeecccCCCcceEEeEEEEeeeCCCCce
Q 037395           89 VAWGSWNYKYAIKRKVVGIWSCKYCGKV  116 (121)
Q Consensus        89 ~htCPFCGK~kVKR~AVGIWkCkkCgkt  116 (121)
                      -.-||-|.|.-+.  .-|.|.|.+|+++
T Consensus       532 y~aCp~CnkKv~~--~~g~~~C~~c~~~  557 (637)
T PRK12366        532 LYLCPNCRKRVEE--VDGEYICEFCGEV  557 (637)
T ss_pred             EecccccCeEeEc--CCCcEECCCCCCC
Confidence            3569999886553  5699999999986

>smart00834 CxxC_CXXC_SSSS Putative regulatory protein

Probab=83.62  E-value=0.97  Score=25.63  Aligned_cols=27  Identities=11%  Similarity=-0.102  Sum_probs=17.4

Q ss_pred             eecccCCCcceEEeE---EEEeeeCCCCce
Q 037395           90 AWGSWNYKYAIKRKV---VGIWSCKYCGKV  116 (121)
Q Consensus        90 htCPFCGK~kVKR~A---VGIWkCkkCgkt  116 (121)
                      |.|+.||+.--....   ..+..|..||..
T Consensus         6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~   35 (41)
T smart00834        6 YRCEDCGHTFEVLQKISDDPLATCPECGGD   35 (41)
T ss_pred             EEcCCCCCEEEEEEecCCCCCCCCCCCCCc
Confidence            788888885432232   346778888863

CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.

>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues

Probab=82.64  E-value=0.47  Score=34.27  Aligned_cols=27  Identities=11%  Similarity=0.030  Sum_probs=19.6

Q ss_pred             ceeecccCCCcc--eEEeEEEEeeeCCCCceE
Q 037395           88 CVAWGSWNYKYA--IKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        88 ~~htCPFCGK~k--VKR~AVGIWkCkkCgktf  117 (121)
                      -|++||.||+.-  +.|.=   =.|.+||..|
T Consensus         8 tKR~Cp~CG~kFYDLnk~P---ivCP~CG~~~   36 (108)
T PF09538_consen    8 TKRTCPSCGAKFYDLNKDP---IVCPKCGTEF   36 (108)
T ss_pred             CcccCCCCcchhccCCCCC---ccCCCCCCcc
Confidence            468999999873  55532   2499999876

The function of members of this family is unknown.

>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases

Probab=81.20  E-value=1.1  Score=27.17  Aligned_cols=24  Identities=17%  Similarity=0.273  Sum_probs=19.1

Q ss_pred             eecccCCCcc-eEEeEE-----EEeeeCCC
Q 037395           90 AWGSWNYKYA-IKRKVV-----GIWSCKYC  113 (121)
Q Consensus        90 htCPFCGK~k-VKR~AV-----GIWkCkkC  113 (121)
                      -.||+|+.+. |+|.+.     =-|.|+.|
T Consensus         6 v~CP~C~s~~~v~k~G~~~~G~qryrC~~C   35 (36)
T PF03811_consen    6 VHCPRCQSTEGVKKNGKSPSGHQRYRCKDC   35 (36)
T ss_pred             eeCCCCCCCCcceeCCCCCCCCEeEecCcC
Confidence            4799999998 999754     35778777

Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated

>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]

Probab=80.88  E-value=0.45  Score=41.78  Aligned_cols=28  Identities=18%  Similarity=0.153  Sum_probs=19.7

Q ss_pred             eecccCCCcceEEeEEEEeeeCCCCceEe
Q 037395           90 AWGSWNYKYAIKRKVVGIWSCKYCGKVKA  118 (121)
Q Consensus        90 htCPFCGK~kVKR~AVGIWkCkkCgktfA  118 (121)
                      -.||+||.. ||=.+-+=|+|++||+++.
T Consensus       351 p~Cp~Cg~~-m~S~G~~g~rC~kCg~~~~  378 (421)
T COG1571         351 PVCPRCGGR-MKSAGRNGFRCKKCGTRAR  378 (421)
T ss_pred             CCCCccCCc-hhhcCCCCcccccccccCC
Confidence            379999876 3323332599999999764

>TIGR01384 TFS_arch transcription factor S, archaeal

Probab=80.17  E-value=3.1  Score=28.06  Aligned_cols=32  Identities=13%  Similarity=0.007  Sum_probs=25.1

Q ss_pred             eecccCCCcceEE----------eEEEEeeeCCCCceEecCC
Q 037395           90 AWGSWNYKYAIKR----------KVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        90 htCPFCGK~kVKR----------~AVGIWkCkkCgktfAGGA  121 (121)
                      ..||.||...+--          -.+=++.|.+|+++|..++
T Consensus        63 ~~Cp~Cg~~~a~f~~~Q~RsadE~~T~fy~C~~C~~~w~~~~  104 (104)
T TIGR01384        63 VECPKCGHKEAYYWLLQTRRADEPETRFYKCTKCGYVWREYE  104 (104)
T ss_pred             CCCCCCCCCeeEEEEeccCCCCCCcEEEEEeCCCCCeeEeCc
Confidence            6899999987422          2567899999999997653

There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	121
3izr_m	92	Localization Of The Large Subunit Ribosomal Protein		2e-05
1ysh_D	73	Localization And Dynamic Behavior Of Ribosomal Prot		2e-05

>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 = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/25 (80%), Positives = 22/25 (88%)
Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           K+A+KRK VGIW CK CGKVKAGGA
Sbjct: 44  KFAVKRKAVGIWGCKDCGKVKAGGA 68

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/25 (80%), Positives = 22/25 (88%)
Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           K+A+KRK VGIW CK CGKVKAGGA
Sbjct: 35  KFAVKRKAVGIWGCKDCGKVKAGGA 59

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	121
1ffk_W	73	Ribosomal protein L37AE; ribosome assembly, RNA-RN	1e-06
1vq8_Z	83	50S ribosomal protein L37AE; ribosome 50S, protein	2e-05
3cc2_Z	116	50S ribosomal protein L37AE, 50S ribosomal protein	2e-05
3iz5_m	92	60S ribosomal protein L43 (L37AE); eukaryotic ribo	4e-05
3jyw_9	72	60S ribosomal protein L43; eukaryotic ribosome, RA	7e-05
4a17_Y	103	RPL37A, 60S ribosomal protein L32; eukaryotic ribo	1e-04
3izc_m	92	60S ribosomal protein RPL43 (L37AE); eukaryotic ri	2e-04

>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 = 42.1 bits (99), Expect = 1e-06
 Identities = 11/25 (44%), Positives = 13/25 (52%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
              +KR    IW C +CG   AGGA
Sbjct: 35  FPKLKRASTSIWVCGHCGYKIAGGA 59

>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 = 39.4 bits (92), Expect = 2e-05
 Identities = 9/25 (36%), Positives = 13/25 (52%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           +  + R+  GIW C YC     GG+
Sbjct: 35  EDRVDRQGTGIWQCSYCDYKFTGGS 59

>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 = 39.9 bits (93), Expect = 2e-05
 Identities = 9/25 (36%), Positives = 13/25 (52%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           +  + R+  GIW C YC     GG+
Sbjct: 68  EDRVDRQGTGIWQCSYCDYKFTGGS 92

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

 Score = 37.5 bits (87), Expect = 7e-05
 Identities = 13/25 (52%), Positives = 15/25 (60%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           K  +KR   GIW+C  C K  AGGA
Sbjct: 34  KKTVKRGAAGIWTCSCCKKTVAGGA 58

>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 = 37.2 bits (86), Expect = 1e-04
 Identities = 16/25 (64%), Positives = 18/25 (72%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           K A+KR  VGIW CK C K+ AGGA
Sbjct: 44  KVAVKRAAVGIWKCKPCKKIIAGGA 68

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	121
1ffk_W	73	Ribosomal protein L37AE; ribosome assembly, RNA-RN	99.86
3jyw_9	72	60S ribosomal protein L43; eukaryotic ribosome, RA	99.86
3j21_i	83	50S ribosomal protein L37AE; archaea, archaeal, KI	99.85
3iz5_m	92	60S ribosomal protein L43 (L37AE); eukaryotic ribo	99.84
3izc_m	92	60S ribosomal protein RPL43 (L37AE); eukaryotic ri	99.84
4a17_Y	103	RPL37A, 60S ribosomal protein L32; eukaryotic ribo	99.83
3cc2_Z	116	50S ribosomal protein L37AE, 50S ribosomal protein	99.8
1vq8_Z	83	50S ribosomal protein L37AE; ribosome 50S, protein	99.75
3j21_g	51	50S ribosomal protein L40E; archaea, archaeal, KIN	97.94
3j20_Y	50	30S ribosomal protein S27AE; archaea, archaeal, KI	94.8
1dl6_A	58	Transcription factor II B (TFIIB); zinc ribbon, ge	93.09
2k4x_A	55	30S ribosomal protein S27AE; metal-binding, ribonu	91.97
1pft_A	50	TFIIB, PFTFIIBN; N-terminal domain, transcription	91.92
3u50_C	172	Telomerase-associated protein 82; TEB1, processivi	90.3
1l1o_C	181	Replication protein A 70 kDa DNA-binding subunit;	90.12
3ga8_A	78	HTH-type transcriptional regulator MQSA (YGIT/B30;	86.22
1vd4_A	62	Transcription initiation factor IIE, alpha subunit	85.59
4gop_C	444	Putative uncharacterized protein; OB fold, ssDNA b	85.16
1d0q_A	103	DNA primase; zinc-binding motif, protein, transfer	84.68
1wii_A	85	Hypothetical UPF0222 protein MGC4549; domain of un	83.35
1qyp_A	57	RNA polymerase II; transcription, RPB9, Zn ribbon,	82.93
1nui_A	255	DNA primase/helicase; zinc-biding domain, toprim f	82.33
1twf_L	70	ABC10-alpha, DNA-directed RNA polymerases I, II, a	81.73
1gh9_A	71	8.3 kDa protein (gene MTH1184); beta+alpha complex	80.41
4bbr_M	345	Transcription initiation factor IIB; RNA polymeras	80.23

>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=99.86  E-value=7.9e-23  Score=138.81  Aligned_cols=51  Identities=24%  Similarity=0.248  Sum_probs=49.8

Q ss_pred             ccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           67 EGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        67 ~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      -|.++||.+++||+-||.+    |+|||||+++|||.++|||+|++|+++|||||
T Consensus         9 YG~slRK~vkkie~~q~~k----y~C~fCgk~~vkR~a~GIW~C~~C~~~~AGGA   59 (73)
T 1ffk_W            9 YGLKIRVRVRDVEIKHKKK----YKCPVCGFPKLKRASTSIWVCGHCGYKIAGGA   59 (73)
T ss_pred             cChhHHHHHHHHHHhcccC----ccCCCCCCceeEEEEeEEEECCCCCcEEECCC
Confidence            4999999999999999999    99999999999999999999999999999997

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

Probab=99.86  E-value=1.6e-23  Score=142.42  Aligned_cols=52  Identities=29%  Similarity=0.409  Sum_probs=50.3

Q ss_pred             cccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           66 QEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        66 ~~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      .-|+++||+++++|+-||++    |+|||||+++|||.|+|||+|++|+++|||||
T Consensus         7 RYG~slRK~vkkie~~q~~k----y~C~fCgk~~vkR~a~GIW~C~~C~~~~AGGA   58 (72)
T 3jyw_9            7 RYGSSLRRQVKKLEIQQHAR----YDCSFCGKKTVKRGAAGIWTCSCCKKTVAGGA   58 (72)
T ss_dssp             SSCHHHHTTTHHHHHHHHSC----BCCSSCCSSCBSBCSSSCBCCSSSCCCCCCSS
T ss_pred             ccChhHHHHHHHHHHHhccC----ccCCCCCCceeEecCCCeEECCCCCCEEeCCc
Confidence            35899999999999999999    99999999999999999999999999999998

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

Probab=99.85  E-value=6.4e-23  Score=142.51  Aligned_cols=52  Identities=27%  Similarity=0.412  Sum_probs=50.5

Q ss_pred             cccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           66 QEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        66 ~~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      .-|+++||+++++|+-||++    |+|||||+++|||.++|||+|++|+++|||||
T Consensus        16 RYG~slRK~vkkie~~q~~k----y~CpfCGk~~vkR~a~GIW~C~kCg~~~AGGA   67 (83)
T 3j21_i           16 RYGLKIRRRVAAVEAKMRQK----HTCPVCGRKAVKRISTGIWQCQKCGATFAGGA   67 (83)
T ss_dssp             CSCHHHHHHHHHHHHHHHSC----BCCSSSCSSCEEEEETTEEEETTTCCEEECCS
T ss_pred             CcChhHHHHHHHHHHHhhcc----cCCCCCCCceeEecCcCeEEcCCCCCEEeCCc
Confidence            46899999999999999999    99999999999999999999999999999998

>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=99.83  E-value=3.9e-22  Score=143.66  Aligned_cols=53  Identities=34%  Similarity=0.444  Sum_probs=50.9

Q ss_pred             ccccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           65 DQEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        65 ~~~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      -.-|+++||+++++|+-||.+    |+|||||+++|||.++|||+|++|+++|||||
T Consensus        16 tRYGaslRK~vkkIE~~q~ak----y~CpfCgk~~vKR~a~GIW~C~kCg~~~AGGA   68 (103)
T 4a17_Y           16 TRYGASLRKVVKKFEITQHAK----YGCPFCGKVAVKRAAVGIWKCKPCKKIIAGGA   68 (103)
T ss_dssp             TTTCHHHHHHHHHHHHHHHSC----EECTTTCCEEEEEEETTEEEETTTTEEEECCS
T ss_pred             CCCChhHHHHHHHHHHHhhcC----CCCCCCCCceeeecCcceEEcCCCCCEEeCCc
Confidence            346899999999999999999    99999999999999999999999999999998

>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=99.80  E-value=4.9e-21  Score=139.99  Aligned_cols=52  Identities=19%  Similarity=0.273  Sum_probs=50.4

Q ss_pred             cccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           66 QEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        66 ~~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      .-|.++||.+++||.-||.+    |+|||||+++|||.|+|||+|++|+++|||||
T Consensus        41 RYGaslRK~vkkiE~~q~ak----ytCPfCGk~~vKR~avGIW~C~~Cgk~fAGGA   92 (116)
T 3cc2_Z           41 RYGRVSRRRVAEIESEMNED----HACPNCGEDRVDRQGTGIWQCSYCDYKFTGGS   92 (116)
T ss_dssp             CSCHHHHHHHHHHHHHHHSC----EECSSSCCEEEEEEETTEEEETTTCCEEECCS
T ss_pred             ccchHHHHHHHHHHHHhccC----CcCCCCCCceeEecCceeEECCCCCCEEECCC
Confidence            45999999999999999999    99999999999999999999999999999997

>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=99.75  E-value=1.5e-19  Score=123.82  Aligned_cols=51  Identities=20%  Similarity=0.268  Sum_probs=49.6

Q ss_pred             ccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           67 EGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        67 ~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      -|+++||.+++||+-||..    |+|||||++.|+|.++|||+|++|+++|||||
T Consensus         9 YG~~lRk~vk~ie~~q~~~----y~Cp~CG~~~v~r~atGiW~C~~Cg~~~agga   59 (83)
T 1vq8_Z            9 YGRVSRRRVAEIESEMNED----HACPNCGEDRVDRQGTGIWQCSYCDYKFTGGS   59 (83)
T ss_dssp             SCHHHHHHHHHHHHHHHSC----EECSSSCCEEEEEEETTEEEETTTCCEEECCS
T ss_pred             cchHHHHHHHHHHHhcccc----CcCCCCCCcceeccCCCeEECCCCCCEecCCE
Confidence            4899999999999999998    99999999999999999999999999999997

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

Probab=97.94  E-value=1e-06  Score=56.29  Aligned_cols=24  Identities=17%  Similarity=0.071  Sum_probs=22.2

Q ss_pred             eeecccCCCcceEEeEEEEeeeCCCCce
Q 037395           89 VAWGSWNYKYAIKRKVVGIWSCKYCGKV  116 (121)
Q Consensus        89 ~htCPFCGK~kVKR~AVGIWkCkkCgkt  116 (121)
                      +|.||.||..    .++|||+|++||++
T Consensus        14 k~iCpkC~a~----~~~gaw~CrKCG~~   37 (51)
T 3j21_g           14 KYVCLRCGAT----NPWGAKKCRKCGYK   37 (51)
T ss_dssp             EEECTTTCCE----ECTTCSSCSSSSSC
T ss_pred             CccCCCCCCc----CCCCceecCCCCCc
Confidence            4999999985    99999999999987

>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=94.80  E-value=0.016  Score=35.90  Aligned_cols=28  Identities=14%  Similarity=0.268  Sum_probs=23.3

Q ss_pred             eecccCCCcceEEeEEEEeeeCCCCceE
Q 037395           90 AWGSWNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCPFCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      -.||.||...+-...-..|.|.+||.|.
T Consensus        20 k~CP~CG~~~fm~~~~~R~~C~kCG~t~   47 (50)
T 3j20_Y           20 KFCPRCGPGVFMADHGDRWACGKCGYTE   47 (50)
T ss_dssp             EECSSSCSSCEEEECSSEEECSSSCCEE
T ss_pred             ccCCCCCCceEEecCCCeEECCCCCCEE
Confidence            4599999977666667889999999986

>1dl6_A Transcription factor II B (TFIIB); zinc ribbon, gene regulation; NMR {Homo sapiens} SCOP: g.41.3.1 PDB: 1rly_A 1ro4_A

Probab=93.09  E-value=0.027  Score=35.38  Aligned_cols=30  Identities=17%  Similarity=0.152  Sum_probs=24.4

Q ss_pred             eecccCCCcc-eEEeEEEEeeeCCCCceEec
Q 037395           90 AWGSWNYKYA-IKRKVVGIWSCKYCGKVKAG  119 (121)
Q Consensus        90 htCPFCGK~k-VKR~AVGIWkCkkCgktfAG  119 (121)
                      ..||.||... +.-.+.|.+.|..||.+++-
T Consensus        12 ~~Cp~C~~~~lv~D~~~ge~vC~~CGlVl~e   42 (58)
T 1dl6_A           12 VTCPNHPDAILVEDYRAGDMICPECGLVVGD   42 (58)
T ss_dssp             CSBTTBSSSCCEECSSSCCEECTTTCCEECC
T ss_pred             ccCcCCCCCceeEeCCCCeEEeCCCCCEEec
Confidence            4799999854 45558899999999998864

>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8

Probab=91.97  E-value=0.058  Score=33.90  Aligned_cols=28  Identities=14%  Similarity=0.203  Sum_probs=21.2

Q ss_pred             eecccCCCcceEEeEEEEeeeCCCCceE
Q 037395           90 AWGSWNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCPFCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      ..||.||...+=-...+-|.|.+|+++.
T Consensus        19 ~fCPkCG~~~~ma~~~dr~~C~kCgyt~   46 (55)
T 2k4x_A           19 RFCPRCGPGVFLAEHADRYSCGRCGYTE   46 (55)
T ss_dssp             CCCTTTTTTCCCEECSSEEECTTTCCCE
T ss_pred             ccCcCCCCceeEeccCCEEECCCCCCEE
Confidence            5799999865422335789999999985

>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1

Probab=91.92  E-value=0.039  Score=32.68  Aligned_cols=29  Identities=21%  Similarity=0.114  Sum_probs=22.7

Q ss_pred             eecccCCCcc-eEEeEEEEeeeCCCCceEe
Q 037395           90 AWGSWNYKYA-IKRKVVGIWSCKYCGKVKA  118 (121)
Q Consensus        90 htCPFCGK~k-VKR~AVGIWkCkkCgktfA  118 (121)
                      ..||.||... +.-.+.|-+.|..||.++.
T Consensus         6 ~~CP~C~~~~l~~d~~~gelvC~~CG~v~~   35 (50)
T 1pft_A            6 KVCPACESAELIYDPERGEIVCAKCGYVIE   35 (50)
T ss_dssp             CSCTTTSCCCEEEETTTTEEEESSSCCBCC
T ss_pred             EeCcCCCCcceEEcCCCCeEECcccCCccc
Confidence            5799999844 4445779999999998764

>1l1o_C Replication protein A 70 kDa DNA-binding subunit; eukaryotic SSB, ssDNA binding protein, OB-fold; 2.80A {Homo sapiens} SCOP: b.40.4.3

Probab=90.12  E-value=0.11  Score=37.63  Aligned_cols=27  Identities=15%  Similarity=0.186  Sum_probs=21.8

Q ss_pred             eeccc--CCCcceEEeEEEEeeeCCCCceE
Q 037395           90 AWGSW--NYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCPF--CGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      .-||-  |.|.. .-..-|.|.|.+|++++
T Consensus        44 ~aC~~~~CnKKv-~~~~~g~~~CekC~~~~   72 (181)
T 1l1o_C           44 QACPTQDCNKKV-IDQQNGLYRCEKCDTEF   72 (181)
T ss_dssp             EBCCSTTCCCBC-EEETTTEEEETTTTEEE
T ss_pred             CCCCchhcCCcc-ccCCCCeEECCCCCCcC
Confidence            56898  98864 45677999999999875

>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=86.22  E-value=1.1  Score=28.36  Aligned_cols=29  Identities=10%  Similarity=-0.032  Sum_probs=20.5

Q ss_pred             ecccCCCcceEE----------------eEEEEeeeCCCCceEec
Q 037395           91 WGSWNYKYAIKR----------------KVVGIWSCKYCGKVKAG  119 (121)
Q Consensus        91 tCPFCGK~kVKR----------------~AVGIWkCkkCgktfAG  119 (121)
                      +||+||...+.+                ..|=-|.|..||..+..
T Consensus         4 ~Cp~Cg~~~l~~~~~~~~~~~~G~~~~I~~Vp~~~C~~CGE~~~~   48 (78)
T 3ga8_A            4 KCPVCHQGEMVSGIKDIPYTFRGRKTVLKGIHGLYCVHCEESIMN   48 (78)
T ss_dssp             BCTTTSSSBEEEEEEEEEEEETTEEEEEEEEEEEEETTTCCEECC
T ss_pred             ECCCCCCCeeEeEEEEEEEEECCEEEEEcCceeEECCCCCCEEEC
Confidence            699998753322                13456999999988754

>1vd4_A Transcription initiation factor IIE, alpha subunit; zinc finger; NMR {Homo sapiens} SCOP: g.41.3.1

Probab=85.59  E-value=0.16  Score=29.31  Aligned_cols=29  Identities=10%  Similarity=0.041  Sum_probs=17.2

Q ss_pred             eecccCCCcc-----eEEeEE--EEeeeCCCCceEe
Q 037395           90 AWGSWNYKYA-----IKRKVV--GIWSCKYCGKVKA  118 (121)
Q Consensus        90 htCPFCGK~k-----VKR~AV--GIWkCkkCgktfA  118 (121)
                      |.|+.||+.-     ++|.-+  .-+.|..|++.|.
T Consensus        15 ~~C~~C~k~F~~~~~l~~~H~~~k~~~C~~C~k~f~   50 (62)
T 1vd4_A           15 FKCPVCSSTFTDLEANQLFDPMTGTFRCTFCHTEVE   50 (62)
T ss_dssp             EECSSSCCEEEHHHHHHHEETTTTEEBCSSSCCBCE
T ss_pred             ccCCCCCchhccHHHhHhhcCCCCCEECCCCCCccc
Confidence            6778887741     222222  3477888887764

>4gop_C Putative uncharacterized protein; OB fold, ssDNA binding, DNA binding protein-DNA complex; HET: DNA; 3.10A {Ustilago maydis}

Probab=85.16  E-value=0.28  Score=39.18  Aligned_cols=29  Identities=14%  Similarity=0.241  Sum_probs=22.5

Q ss_pred             ceeeccc--CCCcceEEeEEEEeeeCCCCceE
Q 037395           88 CVAWGSW--NYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        88 ~~htCPF--CGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      +-.-||.  |+|. |....-|.|.|.+|++++
T Consensus       307 ~Y~aC~~~~C~kk-v~~~~~g~~~C~~C~~~~  337 (444)
T 4gop_C          307 YYTACASEGCNKK-VNLDHENNWRCEKCDRSY  337 (444)
T ss_dssp             EEEECCSTTCCCB-EEECTTSCEEETTTTEEE
T ss_pred             EEccCCcccCCCc-cccCCCccEECCCCCCcC
Confidence            3467999  9885 445667899999999875

>1d0q_A DNA primase; zinc-binding motif, protein, transferase; HET: DNA; 1.71A {Geobacillus stearothermophilus} SCOP: g.41.3.2

Probab=84.68  E-value=0.29  Score=32.57  Aligned_cols=26  Identities=15%  Similarity=0.312  Sum_probs=18.7

Q ss_pred             eecccCCCc--ceE-EeEEEEeeeCCCCc
Q 037395           90 AWGSWNYKY--AIK-RKVVGIWSCKYCGK  115 (121)
Q Consensus        90 htCPFCGK~--kVK-R~AVGIWkCkkCgk  115 (121)
                      +.||||+-.  +++ ....|+|+|-.||+
T Consensus        38 ~~CPfh~e~~pSf~V~~~k~~~~Cf~cg~   66 (103)
T 1d0q_A           38 GLCPFHGEKTPSFSVSPEKQIFHCFGCGA   66 (103)
T ss_dssp             ECCSSSCCSSCCEEEETTTTEEEETTTCC
T ss_pred             EECCCCCCCCCcEEEEcCCCEEEECCCCC
Confidence            689999743  332 22458999999995

>1wii_A Hypothetical UPF0222 protein MGC4549; domain of unknown function, zinc finger, metal-binding protein, structural genomics; NMR {Mus musculus} SCOP: g.41.3.4

Probab=83.35  E-value=1.4  Score=29.88  Aligned_cols=28  Identities=18%  Similarity=0.249  Sum_probs=22.2

Q ss_pred             eecccCCCc-c--eEE---eEEEEeeeCCCCceE
Q 037395           90 AWGSWNYKY-A--IKR---KVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCPFCGK~-k--VKR---~AVGIWkCkkCgktf  117 (121)
                      .+||||+.. +  |+.   ..+|.=.|+.|+..+
T Consensus        24 F~CPfCnh~~sV~vkidk~~~~g~l~C~~Cg~~~   57 (85)
T 1wii_A           24 FTCPFCNHEKSCDVKMDRARNTGVISCTVCLEEF   57 (85)
T ss_dssp             CCCTTTCCSSCEEEEEETTTTEEEEEESSSCCEE
T ss_pred             EcCCCCCCCCeEEEEEEccCCEEEEEcccCCCeE
Confidence            579999988 3  333   369999999999766

>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1

Probab=82.93  E-value=1.2  Score=26.96  Aligned_cols=30  Identities=13%  Similarity=0.077  Sum_probs=22.1

Q ss_pred             eeecccCCCcceE------E----eEEEEeeeCCCCceEe
Q 037395           89 VAWGSWNYKYAIK------R----KVVGIWSCKYCGKVKA  118 (121)
Q Consensus        89 ~htCPFCGK~kVK------R----~AVGIWkCkkCgktfA  118 (121)
                      ...||.||...+.      |    ..+=++.|.+||.++.
T Consensus        15 ~~~Cp~Cg~~~~~~~q~Q~rsadep~T~fy~C~~Cg~~w~   54 (57)
T 1qyp_A           15 KITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWR   54 (57)
T ss_dssp             ECCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEEE
T ss_pred             EeECCCCCCCEEEEEEeecccCCCCCcEEEEcCCCCCEec
Confidence            3689999987543      1    1255799999999875

>1nui_A DNA primase/helicase; zinc-biding domain, toprim fold, DNA replication, DNA-direct polymerase, primosome, late protein, ATP-binding; HET: DNA; 2.90A {Enterobacteria phage T7} SCOP: e.13.1.2 g.41.3.2

Probab=82.33  E-value=0.43  Score=35.00  Aligned_cols=27  Identities=15%  Similarity=-0.150  Sum_probs=18.2

Q ss_pred             eecccCCCc-ceEEeEEEEeeeCCCCce
Q 037395           90 AWGSWNYKY-AIKRKVVGIWSCKYCGKV  116 (121)
Q Consensus        90 htCPFCGK~-kVKR~AVGIWkCkkCgkt  116 (121)
                      -.||.||.. ...--..|-|.|.+||..
T Consensus        15 ~~CP~Cg~~d~~~~~~dg~~~C~~Cg~~   42 (255)
T 1nui_A           15 IPCDNCGSSDGNSLFSDGHTFCYVCEKW   42 (255)
T ss_dssp             ECCSSSCCSSCEEEETTSCEEETTTCCE
T ss_pred             CcCCCCCCCCCceEeCCCCeecccCCCc
Confidence            469999984 322112345999999975

>1twf_L ABC10-alpha, DNA-directed RNA polymerases I, II, and III 7.7 K polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.9.2 PDB: 1i3q_L 1i6h_L 1k83_L* 1nik_L 1nt9_L 1pqv_L 1r5u_L 1r9s_L* 1r9t_L* 1sfo_L* 1twa_L* 1twc_L* 1i50_L* 1twg_L* 1twh_L* 1wcm_L 1y1v_L 1y1w_L 1y1y_L 1y77_L* ...

Probab=81.73  E-value=0.15  Score=33.51  Aligned_cols=27  Identities=15%  Similarity=0.124  Sum_probs=18.6

Q ss_pred             eeecccCCCcceEEeEEEEeeeCCCCce
Q 037395           89 VAWGSWNYKYAIKRKVVGIWSCKYCGKV  116 (121)
Q Consensus        89 ~htCPFCGK~kVKR~AVGIWkCkkCgkt  116 (121)
                      .|.|+.||...-....-.| +|+.||..
T Consensus        28 ~Y~C~~CG~~~e~~~~d~i-rCp~CG~R   54 (70)
T 1twf_L           28 KYICAECSSKLSLSRTDAV-RCKDCGHR   54 (70)
T ss_dssp             CEECSSSCCEECCCTTSTT-CCSSSCCC
T ss_pred             EEECCCCCCcceeCCCCCc-cCCCCCce
Confidence            4899999998422222334 89999974

>1gh9_A 8.3 kDa protein (gene MTH1184); beta+alpha complex structure, structural genomics, PSI, protein structure initiative; NMR {Methanothermobacterthermautotrophicus} SCOP: g.41.6.1

Probab=80.41  E-value=0.5  Score=31.25  Aligned_cols=26  Identities=15%  Similarity=0.206  Sum_probs=19.7

Q ss_pred             eecccCCCcceEEeEEEEeeeCCCCceE
Q 037395           90 AWGSWNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCPFCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      ..|| ||...+-+...--=+|. ||+++
T Consensus         5 v~C~-C~~~~~~~~~~kT~~C~-CG~~~   30 (71)
T 1gh9_A            5 FRCD-CGRALYSREGAKTRKCV-CGRTV   30 (71)
T ss_dssp             EEET-TSCCEEEETTCSEEEET-TTEEE
T ss_pred             EECC-CCCEEEEcCCCcEEECC-CCCee
Confidence            5788 99987766665656787 99876

>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M

Probab=80.23  E-value=0.67  Score=36.73  Aligned_cols=36  Identities=25%  Similarity=0.245  Sum_probs=24.5

Q ss_pred             chhhhhhhhhcceeecccCCC---cceEEeEEEEeeeCCCCceEe
Q 037395           77 NPALMFYFVFACVAWGSWNYK---YAIKRKVVGIWSCKYCGKVKA  118 (121)
Q Consensus        77 ~~~lm~~~~~~~~htCPFCGK---~kVKR~AVGIWkCkkCgktfA  118 (121)
                      .|.|+.      ..+||.||.   ..|.....|--.|..||.++.
T Consensus        15 ~~~l~~------~~~Cp~C~~~~~~lv~D~~~G~~vC~~CGlVl~   53 (345)
T 4bbr_M           15 GPNLNI------VLTCPECKVYPPKIVERFSEGDVVCALCGLVLS   53 (345)
T ss_dssp             -------------CCCSSCCCSSCCEEEEGGGTEEEETTTCBEEE
T ss_pred             Cccccc------CCcCCCCCCCCCceeEECCCCcEEeCCCCCCcc
Confidence            455654      357999996   346788999999999998874

---

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	121
d1vqoz1	73	g.41.8.1 (Z:10-82) Ribosomal protein L37ae {Archae	2e-07
d1jj2y_	73	g.41.8.1 (Y:) Ribosomal protein L37ae {Archaeon Ha	5e-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 = 43.1 bits (102), Expect = 2e-07
 Identities = 9/25 (36%), Positives = 13/25 (52%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
           +  + R+  GIW C YC     GG+
Sbjct: 35  EDRVDRQGTGIWQCSYCDYKFTGGS 59

>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 = 42.0 bits (99), Expect = 5e-07
 Identities = 11/25 (44%), Positives = 13/25 (52%)

Query: 97  KYAIKRKVVGIWSCKYCGKVKAGGA 121
              +KR   GIW C +CG   AGG 
Sbjct: 35  FKKLKRAGTGIWMCGHCGYKIAGGC 59

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	121
d1vqoz1	73	Ribosomal protein L37ae {Archaeon Haloarcula maris	99.85
d1jj2y_	73	Ribosomal protein L37ae {Archaeon Haloarcula maris	99.85
d1lkoa2	44	Rubrerythrin, C-terminal domain {Desulfovibrio vul	86.75
d2k4xa1	55	Ribosomal protein S27ae {Thermoplasma acidophilum	86.48
d1l1oc_	178	Replication protein A 70 KDa subunit (RPA70) {Huma	86.25
d1wiia_	85	Hypothetical UPF0222 protein MGC4549 {Mouse (Mus m	84.94
d1dl6a_	58	Transcription initiation factor TFIIB, N-terminal	84.17
d1pfta_	50	Transcription initiation factor TFIIB, N-terminal	82.6
d1nnqa2	37	Rubrerythrin, C-terminal domain {Archaeon Pyrococc	80.15

>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=99.85  E-value=5.1e-23  Score=139.24  Aligned_cols=52  Identities=19%  Similarity=0.273  Sum_probs=50.2

Q ss_pred             cccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           66 QEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        66 ~~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      .-|.++||+++++|..||.+    |+|||||+++|||+|||||+|++|+++|||||
T Consensus         8 RYG~slRk~v~~ie~~q~~k----y~Cp~Cgk~~vkR~a~GIW~C~kC~~~~AGGA   59 (73)
T d1vqoz1           8 RYGRVSRRRVAEIESEMNED----HACPNCGEDRVDRQGTGIWQCSYCDYKFTGGS   59 (73)
T ss_dssp             CSCHHHHHHHHHHHHHHHSC----BCCSSSSCSCEEEEETTEEEETTTCCEEECCS
T ss_pred             ccCHHHHHHHHHHHHHHhCC----ccCCCCCCceeEEEEEEEEECCCCCCEEeCCe
Confidence            35899999999999999999    99999999999999999999999999999998

>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=99.85  E-value=5.6e-23  Score=139.05  Aligned_cols=52  Identities=23%  Similarity=0.292  Sum_probs=50.2

Q ss_pred             cccccccccccchhhhhhhhhcceeecccCCCcceEEeEEEEeeeCCCCceEecCC
Q 037395           66 QEGMNCWKPFVNPALMFYFVFACVAWGSWNYKYAIKRKVVGIWSCKYCGKVKAGGA  121 (121)
Q Consensus        66 ~~g~~~~k~~~~~~lm~~~~~~~~htCPFCGK~kVKR~AVGIWkCkkCgktfAGGA  121 (121)
                      .-|.++||+++++|..||.+    |+|||||+++|||+|||||+|++|+++|||||
T Consensus         8 RYG~slRk~v~kie~~q~~k----y~Cp~Cgk~~vkR~a~GIW~C~kC~~~~AGgA   59 (73)
T d1jj2y_           8 RYGLKIRVRVADVEIKHKKK----HKCPVCGFKKLKRAGTGIWMCGHCGYKIAGGC   59 (73)
T ss_dssp             CSCHHHHHHHHHHHHHHHSC----BCCSSSCCSCEEEEETTEEEETTTCCEEECCS
T ss_pred             ccCHHHHHHHHHHHHHhcCC----ccCCCCCCCceEEEEEEEEECCCCCCEEeCcc
Confidence            35899999999999999999    99999999999999999999999999999997

>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=86.75  E-value=0.3  Score=28.80  Aligned_cols=19  Identities=37%  Similarity=0.922  Sum_probs=16.9

Q ss_pred             EEeEEEEeeeCCCCceEec
Q 037395          101 KRKVVGIWSCKYCGKVKAG  119 (121)
Q Consensus       101 KR~AVGIWkCkkCgktfAG  119 (121)
                      ||...-+|+|..||++.-|
T Consensus         2 kk~~~~~W~C~~CGyi~~g   20 (44)
T d1lkoa2           2 LREQATKWRCRNCGYVHEG   20 (44)
T ss_dssp             EEEEEEEEEETTTCCEEEE
T ss_pred             CCCCCeEEEcCCCCcEEEC
Confidence            6888889999999999876

>d2k4xa1 g.41.8.8 (A:1-55) Ribosomal protein S27ae {Thermoplasma acidophilum [TaxId: 2303]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein S27a
domain: Ribosomal protein S27ae
species: Thermoplasma acidophilum [TaxId: 2303]

Probab=86.48  E-value=0.12  Score=32.16  Aligned_cols=28  Identities=14%  Similarity=0.203  Sum_probs=21.1

Q ss_pred             eecccCCCcceEEeEEEEeeeCCCCceE
Q 037395           90 AWGSWNYKYAIKRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        90 htCPFCGK~kVKR~AVGIWkCkkCgktf  117 (121)
                      -.||.||.-..==..-.=|.|.+|++|.
T Consensus        19 k~CP~CG~GvFmA~H~dR~~CGKCgyTe   46 (55)
T d2k4xa1          19 RFCPRCGPGVFLAEHADRYSCGRCGYTE   46 (55)
T ss_dssp             CCCTTTTTTCCCEECSSEEECTTTCCCE
T ss_pred             CcCcCCCCcEEeeecCCCccccCCcccE
Confidence            4699999865444444669999999985

>d1l1oc_ b.40.4.3 (C:) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 70 KDa subunit (RPA70)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.25  E-value=0.13  Score=35.91  Aligned_cols=28  Identities=14%  Similarity=0.219  Sum_probs=21.5

Q ss_pred             eeccc--CCCcceEEeEEEEeeeCCCCceEe
Q 037395           90 AWGSW--NYKYAIKRKVVGIWSCKYCGKVKA  118 (121)
Q Consensus        90 htCPF--CGK~kVKR~AVGIWkCkkCgktfA  118 (121)
                      .-||-  |.|. |-...-|.|.|.+|++++.
T Consensus        41 ~aCp~~~C~KK-v~~~~~g~~~C~kC~~~~~   70 (178)
T d1l1oc_          41 QACPTQDCNKK-VIDQQNGLYRCEKCDTEFP   70 (178)
T ss_dssp             EBCCSTTCCCB-CEEETTTEEEETTTTEEES
T ss_pred             cCCCCcccCCc-cccCCCCcEECCCCCCcCC
Confidence            56775  8665 5567789999999998753

>d1wiia_ g.41.3.4 (A:) Hypothetical UPF0222 protein MGC4549 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Putative zinc binding domain
domain: Hypothetical UPF0222 protein MGC4549
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.94  E-value=0.17  Score=33.40  Aligned_cols=29  Identities=14%  Similarity=0.237  Sum_probs=22.2

Q ss_pred             eeecccCCC-cc--e---EEeEEEEeeeCCCCceE
Q 037395           89 VAWGSWNYK-YA--I---KRKVVGIWSCKYCGKVK  117 (121)
Q Consensus        89 ~htCPFCGK-~k--V---KR~AVGIWkCkkCgktf  117 (121)
                      ..+||||+. .+  +   |...+|.=+|+-|+..+
T Consensus        23 ~F~CPfCnh~~sV~vk~dkk~~~g~l~C~vCg~~~   57 (85)
T d1wiia_          23 QFTCPFCNHEKSCDVKMDRARNTGVISCTVCLEEF   57 (85)
T ss_dssp             CCCCTTTCCSSCEEEEEETTTTEEEEEESSSCCEE
T ss_pred             eEcCCCCCCCCeEEEEEEecCCEEEEEEecCCCeE
Confidence            468999993 33  3   34589999999999776

>d1dl6a_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: Transcription initiation factor TFIIB, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.17  E-value=0.15  Score=30.99  Aligned_cols=30  Identities=17%  Similarity=0.126  Sum_probs=24.9

Q ss_pred             eeecccCCCcce-EEeEEEEeeeCCCCceEe
Q 037395           89 VAWGSWNYKYAI-KRKVVGIWSCKYCGKVKA  118 (121)
Q Consensus        89 ~htCPFCGK~kV-KR~AVGIWkCkkCgktfA  118 (121)
                      +.+||.||...+ -..+.|--.|..||.++.
T Consensus        11 ~~~Cp~Cgs~~ii~D~~~Ge~vC~~CG~Vle   41 (58)
T d1dl6a_          11 RVTCPNHPDAILVEDYRAGDMICPECGLVVG   41 (58)
T ss_dssp             CCSBTTBSSSCCEECSSSCCEECTTTCCEEC
T ss_pred             ccCCCCCCCCCEEEECCCCcEecccCCCEec
Confidence            468999999864 567889999999998763

>d1pfta_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: Transcription initiation factor TFIIB, N-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=82.60  E-value=0.16  Score=29.89  Aligned_cols=30  Identities=17%  Similarity=0.080  Sum_probs=24.0

Q ss_pred             eeecccCCCcce-EEeEEEEeeeCCCCceEe
Q 037395           89 VAWGSWNYKYAI-KRKVVGIWSCKYCGKVKA  118 (121)
Q Consensus        89 ~htCPFCGK~kV-KR~AVGIWkCkkCgktfA  118 (121)
                      +..||.||...+ .-...|-=.|..||.++.
T Consensus         5 ~~~Cp~Cgs~~iv~D~~~Ge~vC~~CG~Vie   35 (50)
T d1pfta_           5 QKVCPACESAELIYDPERGEIVCAKCGYVIE   35 (50)
T ss_dssp             CCSCTTTSCCCEEEETTTTEEEESSSCCBCC
T ss_pred             cccCcCCCCCcEEEECCCCeEecccCCcEec
Confidence            467999998864 445889999999998753

>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=80.15  E-value=0.48  Score=26.79  Aligned_cols=15  Identities=27%  Similarity=0.733  Sum_probs=12.7

Q ss_pred             EeeeCCCCceEecCC
Q 037395          107 IWSCKYCGKVKAGGA  121 (121)
Q Consensus       107 IWkCkkCgktfAGGA  121 (121)
                      +|.|.-||++..|-|
T Consensus         5 ~~~C~vCG~i~~g~~   19 (37)
T d1nnqa2           5 VYICPICGYTAVDEA   19 (37)
T ss_dssp             EEECTTTCCEEESCC
T ss_pred             EEECCCCCCEecCCC
Confidence            799999999988743