Citrus Sinensis ID: 033178

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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
MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLERQACNHEENDQSESDDDDGLPPLEANINRMKPMELQTESESDSESDTDS
Secondary Structure (PSIPRED)
ccccccccccEEEEEEccEEEEccccccccccccccEEEEEEEEccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHEHccccEEEEEcccHHHHHHccccEEEEEEHHHHHHHHHHHHccccccHHHccccccccccccccccccccccccccccccccccccHHccccccccEEEEcccccccccccc
Coil and Loop (DISEMBL)
MPDMLENDIKLVFNCAGSfvvvdesgkekaikdgskVACIVTKVLFYEQVRALQkstewpeifkstnsddangslerqacnheendqsesddddglppleaninrmkpmelqtesesdsesdtds
Flexible Loop (DISEMBL)
MPDMLENDIKLVFNCAGSFVVVDEsgkekaikdgskvaCIVTKVLFYEQVRAlqkstewpeifkstnsddangSLERQACNHeendqsesddddglpPLEANInrmkpmelqtesesdsesdtds
Low Complexity Region (SEG)
MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLERQACNHeendqsesddddGLPPLEANINRMKPMELQtesesdsesdtds
Disordered region (IsUnstruct)
*******DIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEI***************************************************************
Disordered Region (DISOPRED)
*******DIKLVFNCAGSFVVVDE*************ACIVTKVLFYEQVRALQKSTEWPE**************************************EANINRMK******************
Disordered Region (DISEMBL)
MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLERQA**************DGLPPLEANINRMKPM****************
Disordered Region (DISPRO)
*PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKS*****************************GLPPLEANINRMKPMELQTE***********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLERQACNHEENDQSESDDDDGLPPLEANINRMKPMELQTESESDSESDTDS
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	125	2.2.26 [Sep-21-2011]
Q0V9J5	179	Probable RNA-binding prot	yes	no	0.752	0.525	0.301	0.0008

>sp|Q0V9J5|EIF1A_XENTR Probable RNA-binding protein EIF1AD OS=Xenopus tropicalis GN=eif1ad PE=2 SV=1

 Score = 42.4 bits (98), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 35/116 (30%), Positives = 52/116 (44%), Gaps = 22/116 (18%)

Query: 1   MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWP 60
           MP     +I +     G F++VD       I +G KV   +  +L+ +  R LQK   WP
Sbjct: 53  MPTKFRKNIWI---KRGDFLIVD------PIAEGEKVKAEIAFILYKDHQRLLQKEGLWP 103

Query: 61  EIFKS------TNSDDANGSLERQACN----HEENDQSESDDDDGLPPLEANINRM 106
           E F        T  ++ NG    +A +     E+ + SE+DDD GL     N NR+
Sbjct: 104 EGFTQDKTGVVTKENENNGIQSTEALSTAQAKEQGEDSETDDDSGLF---VNTNRV 156

May play a role into cellular response to oxidative stress. May decrease cell proliferation.
Xenopus tropicalis (taxid: 8364)

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	125
359490714	192	PREDICTED: probable RNA-binding protein	0.856	0.557	0.534	8e-29
449457427	169	PREDICTED: probable RNA-binding protein	0.848	0.627	0.607	1e-28
449491671	169	PREDICTED: probable RNA-binding protein	0.848	0.627	0.598	5e-28
297824017	171	RNA binding protein [Arabidopsis lyrata	0.856	0.625	0.581	8e-26
15226743	171	OB-fold nucleic acid binding domain-cont	0.856	0.625	0.563	5e-25
186506962	132	OB-fold nucleic acid binding domain-cont	0.856	0.810	0.563	5e-25
91806343	113	hypothetical protein At2g40780 [Arabidop	0.856	0.946	0.563	6e-25
116831155	114	unknown [Arabidopsis thaliana]	0.856	0.938	0.563	7e-25
351723419	171	uncharacterized protein LOC100306612 [Gl	0.736	0.538	0.608	2e-24
357114396	164	PREDICTED: probable RNA-binding protein	0.72	0.548	0.568	4e-22

>gi|359490714|ref|XP_002276446.2| PREDICTED: probable RNA-binding protein EIF1AD-like [Vitis vinifera]

 Score =  130 bits (328), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 69/129 (53%), Positives = 85/129 (65%), Gaps = 22/129 (17%)

Query: 17  GSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANG-SL 75
           GSFVVVDESG+EKA++ GSKVACIV++VLFYEQVR LQKS EWPEIFKST   D+NG SL
Sbjct: 64  GSFVVVDESGREKAMESGSKVACIVSQVLFYEQVRVLQKSIEWPEIFKSTLLHDSNGTSL 123

Query: 76  ERQACNHEENDQSESDDDD---------------------GLPPLEANINRMKPMELQTE 114
                  EE   +   D +                     GLPPLEAN+NR++P+ELQ+ 
Sbjct: 124 HSNTSQQEEFKSTARHDSNGNLHCSTSQQEEDESSSSDDDGLPPLEANMNRIRPLELQSN 183

Query: 115 SESDSESDT 123
           + SDS+SD+
Sbjct: 184 AVSDSDSDS 192

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449457427|ref|XP_004146450.1| PREDICTED: probable RNA-binding protein EIF1AD-like [Cucumis sativus]

 Score =  130 bits (326), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/107 (60%), Positives = 83/107 (77%), Gaps = 1/107 (0%)

Query: 17  GSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLE 76
           GSFVVVDESGK+ A++ GSKVACIV++VL++EQ+R LQKS EWPEIFK+    D N +L+
Sbjct: 64  GSFVVVDESGKKNALESGSKVACIVSRVLYFEQIRELQKSPEWPEIFKNAIVGDRNENLQ 123

Query: 77  RQACNHEENDQSESDDDDGLPPLEANINRMKPMELQTESESDSESDT 123
            Q  N    D+  S DDDGLPPLEAN NR KP+ LQ ++ES+S+SD+
Sbjct: 124 AQ-NNQPGEDEVNSSDDDGLPPLEANTNRAKPLILQPDAESESDSDS 169

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449491671|ref|XP_004158969.1| PREDICTED: probable RNA-binding protein EIF1AD-like [Cucumis sativus]

 Score =  128 bits (321), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 64/107 (59%), Positives = 83/107 (77%), Gaps = 1/107 (0%)

Query: 17  GSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLE 76
           GSFVVVDESGK+ A++ GSKVACIV++VL++EQ+R LQKS EWPEIFK+    D + +L+
Sbjct: 64  GSFVVVDESGKKNALESGSKVACIVSRVLYFEQIRELQKSPEWPEIFKNAIVGDRSENLQ 123

Query: 77  RQACNHEENDQSESDDDDGLPPLEANINRMKPMELQTESESDSESDT 123
            Q  N    D+  S DDDGLPPLEAN NR KP+ LQ ++ES+S+SD+
Sbjct: 124 AQ-NNQPVEDEVNSSDDDGLPPLEANTNRAKPLILQPDAESESDSDS 169

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297824017|ref|XP_002879891.1| RNA binding protein [Arabidopsis lyrata subsp. lyrata] gi|297325730|gb|EFH56150.1| RNA binding protein [Arabidopsis lyrata subsp. lyrata]

 Score =  120 bits (302), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 64/110 (58%), Positives = 82/110 (74%), Gaps = 3/110 (2%)

Query: 17  GSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLE 76
           GSFVV+D +GKEKA + GSKV  IV KVLF+EQVR LQKS EWPEIFK T    A+ S  
Sbjct: 64  GSFVVIDHTGKEKAQESGSKVTSIVCKVLFFEQVRLLQKSPEWPEIFKDTKPIPADKSSP 123

Query: 77  RQACNHEENDQSE-SDDDDGLPPLEANINRMKPMELQTESESDSESDTDS 125
            +   HE++ + + SDDDDG+PPLEAN NR++P  +Q ++E+DS SD+DS
Sbjct: 124 IE--QHEDDGEIDSSDDDDGMPPLEANTNRLRPFGVQCDAETDSGSDSDS 171

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15226743|ref|NP_181610.1| OB-fold nucleic acid binding domain-containing protein [Arabidopsis thaliana] gi|330254783|gb|AEC09877.1| OB-fold nucleic acid binding domain-containing protein [Arabidopsis thaliana]

 Score =  118 bits (295), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 62/110 (56%), Positives = 81/110 (73%), Gaps = 3/110 (2%)

Query: 17  GSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLE 76
           GSFVV+D +GKEKA + GSKV  IV KVLF+EQVR LQKS EWPEIFK T    A  S  
Sbjct: 64  GSFVVIDHTGKEKAQESGSKVTSIVCKVLFFEQVRLLQKSPEWPEIFKDTRPIPAEKSSP 123

Query: 77  RQACNHEENDQSE-SDDDDGLPPLEANINRMKPMELQTESESDSESDTDS 125
            +   HE++ + + SDDDDG+PPL+AN NR++P  ++ ++E+DS SD+DS
Sbjct: 124 IE--QHEDDGEVDSSDDDDGMPPLQANTNRLRPFGVKCDAETDSGSDSDS 171

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|186506962|ref|NP_001118488.1| OB-fold nucleic acid binding domain-containing protein [Arabidopsis thaliana] gi|330254784|gb|AEC09878.1| OB-fold nucleic acid binding domain-containing protein [Arabidopsis thaliana]

 Score =  118 bits (295), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 62/110 (56%), Positives = 81/110 (73%), Gaps = 3/110 (2%)

Query: 17  GSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLE 76
           GSFVV+D +GKEKA + GSKV  IV KVLF+EQVR LQKS EWPEIFK T    A  S  
Sbjct: 25  GSFVVIDHTGKEKAQESGSKVTSIVCKVLFFEQVRLLQKSPEWPEIFKDTRPIPAEKSSP 84

Query: 77  RQACNHEENDQSE-SDDDDGLPPLEANINRMKPMELQTESESDSESDTDS 125
            +   HE++ + + SDDDDG+PPL+AN NR++P  ++ ++E+DS SD+DS
Sbjct: 85  IE--QHEDDGEVDSSDDDDGMPPLQANTNRLRPFGVKCDAETDSGSDSDS 132

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|91806343|gb|ABE65899.1| hypothetical protein At2g40780 [Arabidopsis thaliana]

 Score =  117 bits (294), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 62/110 (56%), Positives = 81/110 (73%), Gaps = 3/110 (2%)

Query: 17  GSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLE 76
           GSFVV+D +GKEKA + GSKV  IV KVLF+EQVR LQKS EWPEIFK T    A  S  
Sbjct: 6   GSFVVIDHTGKEKAQESGSKVTSIVCKVLFFEQVRLLQKSPEWPEIFKDTRPIPAEKSSP 65

Query: 77  RQACNHEENDQSE-SDDDDGLPPLEANINRMKPMELQTESESDSESDTDS 125
            +   HE++ + + SDDDDG+PPL+AN NR++P  ++ ++E+DS SD+DS
Sbjct: 66  IE--QHEDDGEVDSSDDDDGMPPLQANTNRLRPFGVKCDAETDSGSDSDS 113

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|116831155|gb|ABK28532.1| unknown [Arabidopsis thaliana]

 Score =  117 bits (294), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 62/110 (56%), Positives = 81/110 (73%), Gaps = 3/110 (2%)

Query: 17  GSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLE 76
           GSFVV+D +GKEKA + GSKV  IV KVLF+EQVR LQKS EWPEIFK T    A  S  
Sbjct: 6   GSFVVIDHTGKEKAQESGSKVTSIVCKVLFFEQVRLLQKSPEWPEIFKDTRPIPAEKSSP 65

Query: 77  RQACNHEENDQSE-SDDDDGLPPLEANINRMKPMELQTESESDSESDTDS 125
            +   HE++ + + SDDDDG+PPL+AN NR++P  ++ ++E+DS SD+DS
Sbjct: 66  IE--QHEDDGEVDSSDDDDGMPPLQANTNRLRPFGVKCDAETDSGSDSDS 113

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351723419|ref|NP_001237534.1| uncharacterized protein LOC100306612 [Glycine max] gi|255629065|gb|ACU14877.1| unknown [Glycine max]

 Score =  116 bits (290), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 59/97 (60%), Positives = 73/97 (75%), Gaps = 5/97 (5%)

Query: 17  GSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLE 76
           GSFVVVDESGKEKA++ GSKVAC+V++VLF +QVR L+KS EWPE FKS   DD   S+E
Sbjct: 66  GSFVVVDESGKEKALESGSKVACLVSQVLFSKQVRELEKSPEWPESFKSAMVDD---SIE 122

Query: 77  RQACNHEENDQSESDDDDGLPPLEANINRMKPMELQT 113
             +   ++  + E  DDDGLPPLEAN NR++P ELQ 
Sbjct: 123 --STTSQQEHELEGSDDDGLPPLEANTNRIRPAELQA 157

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357114396|ref|XP_003558986.1| PREDICTED: probable RNA-binding protein EIF1AD-like [Brachypodium distachyon]

 Score =  108 bits (270), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 54/95 (56%), Positives = 74/95 (77%), Gaps = 5/95 (5%)

Query: 17  GSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLE 76
           G+FVVVD SG+++A++ GSK+AC+V++VLF++QVRAL+KS EWP IFKST++  A G+  
Sbjct: 65  GNFVVVDASGRDEALESGSKIACVVSRVLFHDQVRALEKSGEWPAIFKSTSNAWATGTTS 124

Query: 77  RQACNHEENDQSESDDDDGLPPLEANINRMKPMEL 111
           +     EE   SE DDDD LPPLEAN NR +P+E+
Sbjct: 125 KV----EEELNSEEDDDD-LPPLEANTNRNRPVEV 154

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

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	125
TAIR|locus:2064864	171	AT2G40780 [Arabidopsis thalian	0.728	0.532	0.521	1.4e-18
UNIPROTKB|Q58CY2	166	EIF1AD "Probable RNA-binding p	0.44	0.331	0.370	0.00021

TAIR|locus:2064864 AT2G40780 [Arabidopsis thaliana (taxid:3702)]

 Score = 224 (83.9 bits), Expect = 1.4e-18, P = 1.4e-18
 Identities = 48/92 (52%), Positives = 58/92 (63%)

Query:    17 GSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLE 76
             GSFVV+D +GKEKA + GSKV  IV KVLF+EQVR LQKS EWPEIFK T    A  S  
Sbjct:    64 GSFVVIDHTGKEKAQESGSKVTSIVCKVLFFEQVRLLQKSPEWPEIFKDTRPIPAEKSSP 123

Query:    77 RQACNHXXXXXXXXXXXXGLPPLEANINRMKP 108
              +  +             G+PPL+AN NR++P
Sbjct:   124 IEQ-HEDDGEVDSSDDDDGMPPLQANTNRLRP 154

GO:0003723 "RNA binding" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006413 "translational initiation" evidence=IEA

GO:0006626 "protein targeting to mitochondrion" evidence=RCA

UNIPROTKB|Q58CY2 EIF1AD "Probable RNA-binding protein EIF1AD" [Bos taurus (taxid:9913)]

 Score = 91 (37.1 bits), Expect = 0.00021, P = 0.00021
 Identities = 23/62 (37%), Positives = 31/62 (50%)

Query:    17 GSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSDDANGSLE 76
             G F++VD       I++G KV   ++ VL  + VR+LQK   WPE F      D N    
Sbjct:    66 GDFLIVDP------IEEGEKVKAEISFVLCKDHVRSLQKDGHWPEAFSQVTEKD-NNDRN 118

Query:    77 RQ 78
             RQ
Sbjct:   119 RQ 120


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        0.315   0.131   0.382    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      125       100   0.00091  102 3  11 22  0.43    30
                                                     29  0.47    31


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:  2
  No. of states in DFA:  563 (60 KB)
  Total size of DFA:  115 KB (2076 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:  9.87u 0.11s 9.98t   Elapsed:  00:00:01
  Total cpu time:  9.87u 0.11s 9.98t   Elapsed:  00:00:01
  Start:  Fri May 10 17:04:16 2013   End:  Fri May 10 17:04:17 2013

GO:0005634 "nucleus" evidence=IEA

GO:0003743 "translation initiation factor activity" 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

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	125
KOG2925	167	consensus Predicted translation initiation factor	100.0
cd05792	78	S1_eIF1AD_like S1_eIF1AD_like: eukaryotic translat	99.92
smart00652	83	eIF1a eukaryotic translation initiation factor 1A.	99.85
cd04456	78	S1_IF1A_like S1_IF1A_like: Translation initiation	99.83
TIGR00523	99	eIF-1A eukaryotic/archaeal initiation factor 1A. R	99.8
PLN00208	145	translation initiation factor (eIF); Provisional	99.78
PTZ00329	155	eukaryotic translation initiation factor 1A; Provi	99.77
cd05793	77	S1_IF1A S1_IF1A: Translation initiation factor IF1	99.73
PRK04012	100	translation initiation factor IF-1A; Provisional	99.72
PF01176	65	eIF-1a: Translation initiation factor 1A / IF-1; I	99.22
KOG3403	145	consensus Translation initiation factor 1A (eIF-1A	99.0
COG0361	75	InfA Translation initiation factor 1 (IF-1) [Trans	98.51
TIGR00008	68	infA translation initiation factor IF-1. This fami	97.95
PRK12442	87	translation initiation factor IF-1; Reviewed	97.66
CHL00010	78	infA translation initiation factor 1	97.46
PRK00276	72	infA translation initiation factor IF-1; Validated	97.39
cd04451	64	S1_IF1 S1_IF1: Translation Initiation Factor IF1,	95.7
cd04466	68	S1_YloQ_GTPase S1_YloQ_GTPase: YloQ GTase family (	86.77
cd04721	130	BAH_plant_1 BAH, or Bromo Adjacent Homology domain	83.8

>KOG2925 consensus Predicted translation initiation factor related to eIF-1A [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=9.3e-34  Score=216.58  Aligned_cols=113  Identities=48%  Similarity=0.718  Sum_probs=89.2

Q ss_pred             CcchhhccceEeeeeCCEEEEecCCccccccc---CCceeEEEEEEechhHHHHHHHCCCCchhhhcCCCC-Cccchhhh
Q 033178            2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKD---GSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSD-DANGSLER   77 (125)
Q Consensus         2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e---~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~~~~~~-~~~~~~~~   77 (125)
                      -+||+||||+||||||+||||+      |+++   |+||+|+|++||+.+||+.|+|+|+||+.|.....- +.+...  
T Consensus        49 vsmP~KfRksiWiRRg~FvvVd------piee~~~g~KVkgeI~yVl~~d~vr~lqk~g~WPe~F~d~alk~n~~~~t--  120 (167)
T KOG2925|consen   49 VSMPAKFRKSIWIRRGSFVVVD------PIEEEKSGSKVKGEICYVLFFDQVRLLQKSGEWPEIFKDTALKPNEKSST--  120 (167)
T ss_pred             eeCCHhhhhceEEeeCCEEEEc------cccccccCCccceEEEEEEccHHHHHHHHcCCcchhhhhcccccccccCC--
Confidence            5899999999999999999999      6666   999999999999999999999999999999875422 222211  


Q ss_pred             hhccccc--ccCCCCCCCCCCCCcccccCCCCCCcccCCCcCCCCCCCC
Q 033178           78 QACNHEE--NDQSESDDDDGLPPLEANINRMKPMELQTESESDSESDTD  124 (125)
Q Consensus        78 ~~~~~~~--~~~~~sd~dDdl~pL~~NtNr~~~~~~~~~ses~s~~~~~  124 (125)
                       ...+.+  ..++++++||+ +|||+||||+++....++++.++..+||
T Consensus       121 -~e~~~dd~ls~sese~ddd-s~l~~ntnr~~~~~~eee~e~~~~a~s~  167 (167)
T KOG2925|consen  121 -IEQHEDDGLSDSESEDDDD-SPLQANTNRLRPFGVEEEAETDSGADSD  167 (167)
T ss_pred             -cccccccCCCCcccccccC-CchhccccccCcccccccCcccccCCCC
Confidence             111111  22334444455 9999999999999999999999888875

>cd05792 S1_eIF1AD_like S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain

Probab=99.92  E-value=2.5e-25  Score=153.50  Aligned_cols=53  Identities=26%  Similarity=0.478  Sum_probs=50.7

Q ss_pred             CCcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCC
Q 033178            1 MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEW   59 (125)
Q Consensus         1 ~~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~W   59 (125)
                      |-+||+||||+|||||||||||+      |+++++|++|+|++||+++|||+|+++|+|
T Consensus        26 l~~iP~KfRk~iWIkrGd~VlV~------p~~~~~kvkgeIv~i~~~~qvk~L~k~g~W   78 (78)
T cd05792          26 LVSMPTKFRKNIWIKRGDFVLVE------PIEEGDKVKAEIVKILTRDHVKYIKEEGLW   78 (78)
T ss_pred             EEEechhhcccEEEEeCCEEEEE------ecccCCceEEEEEEEECHHHHHHHHHcCCC
Confidence            45899999999999999999999      888889999999999999999999999999

eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors.

>smart00652 eIF1a eukaryotic translation initiation factor 1A

Probab=99.85  E-value=1.3e-21  Score=135.77  Aligned_cols=52  Identities=25%  Similarity=0.227  Sum_probs=48.2

Q ss_pred             CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCc
Q 033178            2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWP   60 (125)
Q Consensus         2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP   60 (125)
                      .+||+||||+|||++||||||+      +++. ++++|+|+++|+++|||+|+++|+||
T Consensus        32 a~ipgK~Rk~iwI~~GD~VlVe------~~~~-~~~kg~Iv~r~~~~~vk~L~k~g~wp   83 (83)
T smart00652       32 ARIPGKMRKKVWIRRGDIVLVD------PWDF-QDVKADIIYKYTKDEVRWLKKEGELP   83 (83)
T ss_pred             EEEchhhcccEEEcCCCEEEEE------ecCC-CCCEEEEEEEeCHHHHHHHHHcCCCC
Confidence            4799999999999999999999      4544 49999999999999999999999999

>cd04456 S1_IF1A_like S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain

Probab=99.83  E-value=3.5e-21  Score=132.39  Aligned_cols=53  Identities=25%  Similarity=0.343  Sum_probs=49.6

Q ss_pred             CCcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCC
Q 033178            1 MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEW   59 (125)
Q Consensus         1 ~~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~W   59 (125)
                      |.+||+||||+|||++||||||+      +++.|++++|+|+++|+++|||+|+++|+|
T Consensus        26 l~~i~gK~Rk~iwI~~GD~VlV~------~~~~~~~~kg~Iv~r~~~~~vk~L~k~g~w   78 (78)
T cd04456          26 LVSIPGKLRKNIWIKRGDFLIVD------PIEEGEDVKADIIFVYCKDHVRSLKKEGFL   78 (78)
T ss_pred             EEEEchhhccCEEEcCCCEEEEE------ecccCCCceEEEEEEeCHHHHHHHHHcCcC
Confidence            35799999999999999999999      666678999999999999999999999998

IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.

>TIGR00523 eIF-1A eukaryotic/archaeal initiation factor 1A

Probab=99.80  E-value=6.6e-20  Score=131.19  Aligned_cols=55  Identities=16%  Similarity=0.109  Sum_probs=51.2

Q ss_pred             CCcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCch
Q 033178            1 MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPE   61 (125)
Q Consensus         1 ~~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~   61 (125)
                      |..||+||||+|||++||||||.      |++.+.+++|+|+|+|+++||++|+++|+||.
T Consensus        45 la~i~GK~Rk~iwI~~GD~VlVs------p~d~~~~~kg~Iv~r~~~~qv~~L~~~g~~p~   99 (99)
T TIGR00523        45 LGRIPGKLKKRIWIREGDVVIVK------PWEFQGDDKCDIVWRYTKTQVEWLKRKGYLKE   99 (99)
T ss_pred             EEEEchhhcccEEecCCCEEEEE------EccCCCCccEEEEEEcCHHHHHHHHHcCCCCC
Confidence            35799999999999999999998      77777799999999999999999999999994

Recommended nomenclature: eIF-1A for eukaryotes, aIF-1A for Archaea. Also called eIF-4C

>PLN00208 translation initiation factor (eIF); Provisional

Probab=99.78  E-value=2e-19  Score=136.48  Aligned_cols=59  Identities=20%  Similarity=0.167  Sum_probs=53.6

Q ss_pred             CCcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCchhhhcC
Q 033178            1 MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKST   66 (125)
Q Consensus         1 ~~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~~~   66 (125)
                      |..||+||||+|||++||+|||+.|       ++++++|+|+|+|+++||++|++.|+||+.|..+
T Consensus        58 La~IpGKmRKrIWI~~GD~VlVel~-------~~d~~KgdIv~ry~~dqvr~Lkk~G~~P~~f~~~  116 (145)
T PLN00208         58 LCHIRGKMRKKVWIAAGDIILVGLR-------DYQDDKADVILKYMPDEARLLKAYGELPENTRLN  116 (145)
T ss_pred             EEEEeccceeeEEecCCCEEEEEcc-------CCCCCEEEEEEEcCHHHHHHHHHcCCCCcceeec
Confidence            3479999999999999999999933       3579999999999999999999999999999774

>PTZ00329 eukaryotic translation initiation factor 1A; Provisional

Probab=99.77  E-value=6e-19  Score=135.13  Aligned_cols=58  Identities=22%  Similarity=0.165  Sum_probs=53.1

Q ss_pred             CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCchhhhcC
Q 033178            2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKST   66 (125)
Q Consensus         2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~~~   66 (125)
                      ..||+||||+|||++||+|||++|       ++++++|.|+++|+++||++|++.|+||+.|..+
T Consensus        59 a~I~GKmRK~IWI~~GD~VlVel~-------~yd~~KgdIi~Ry~~devr~Lk~~g~~P~~~~~~  116 (155)
T PTZ00329         59 CHIRGKMRKRVWINIGDIILVSLR-------DFQDSKADVILKYTPDEARALKQHGELPETAKIN  116 (155)
T ss_pred             EEeeccceeeEEecCCCEEEEecc-------CCCCCEEEEEEEcCHHHHHHHHHcCCCCcceeec
Confidence            469999999999999999999933       3579999999999999999999999999999764

>cd05793 S1_IF1A S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A in archaea, S1-like RNA-binding domain

Probab=99.73  E-value=4.7e-18  Score=116.48  Aligned_cols=50  Identities=18%  Similarity=0.084  Sum_probs=45.8

Q ss_pred             CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCC
Q 033178            2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTE   58 (125)
Q Consensus         2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~   58 (125)
                      ..||+||||+|||++||||+|++      ++. ++++|+|+++|+++||++|+++|+
T Consensus        27 a~i~gK~rk~iwI~~GD~V~Ve~------~~~-d~~kg~Iv~r~~~~~v~~L~~~g~   76 (77)
T cd05793          27 CRIRGKMRKRVWINEGDIVLVAP------WDF-QDDKADIIYKYTPDEVRWLKRKGE   76 (77)
T ss_pred             EEEchhhcccEEEcCCCEEEEEe------ccc-cCCEEEEEEEcCHHHHHHHHHcCc
Confidence            47999999999999999999994      443 699999999999999999999986

S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.

>PRK04012 translation initiation factor IF-1A; Provisional

Probab=99.72  E-value=5.6e-18  Score=121.48  Aligned_cols=53  Identities=15%  Similarity=0.007  Sum_probs=48.3

Q ss_pred             CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCch
Q 033178            2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPE   61 (125)
Q Consensus         2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~   61 (125)
                      ..||+||||+|||++||||+|+      +++.+ +.+|+|+++|+++||++|+++|+.|.
T Consensus        48 a~i~GK~Rk~IwI~~GD~VlVe------~~~~~-~~kg~Iv~r~~~~qv~~L~~~g~~~~  100 (100)
T PRK04012         48 GRIPGKMKKRMWIREGDVVIVA------PWDFQ-DEKADIIWRYTKPQVDWLRRKGYISE  100 (100)
T ss_pred             EEEchhhcccEEecCCCEEEEE------ecccC-CCEEEEEEEcCHHHHHHHHHcCCCCC
Confidence            4799999999999999999999      55544 89999999999999999999999884

>PF01176 eIF-1a: Translation initiation factor 1A / IF-1; InterPro: IPR006196 The S1 domain of around 70 amino acids, originally identified in ribosomal protein S1, is found in a large number of RNA-associated proteins

Probab=99.22  E-value=4.8e-12  Score=83.58  Aligned_cols=36  Identities=22%  Similarity=0.169  Sum_probs=27.2

Q ss_pred             CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEE
Q 033178            2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKV   44 (125)
Q Consensus         2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~i   44 (125)
                      -.||+|||++|||++||||||++|      + .++++|+|+|+
T Consensus        30 ~~i~gK~r~~iwI~~GD~V~V~~~------~-~d~~kG~Ii~r   65 (65)
T PF01176_consen   30 ARIPGKFRKRIWIKRGDFVLVEPS------P-YDKVKGRIIYR   65 (65)
T ss_dssp             EEE-HHHHTCC---TTEEEEEEES------T-TCTTEEEEEEE
T ss_pred             EEeccceeeeEecCCCCEEEEEec------c-cCCCeEEEEEC
Confidence            369999999999999999999944      3 34999999985

It has been shown that S1 proteins bind RNA through their S1 domains with some degree of sequence specificity. This type of S1 domain is found in translation initiation factor 1. The solution structure of one S1 RNA-binding domain from Escherichia coli polynucleotide phosphorylase has been determined []. It displays some similarity with the cold shock domain (CSD) (IPR002059 from INTERPRO). Both the S1 and the CSD domain consist of an antiparallel beta barrel of the same topology with 5 beta strands. This fold is also shared by many other proteins of unrelated function and is known as the OB fold. However, the S1 and CSD fold can be distinguished from the other OB folds by the presence of a short 3(10) helix at the end of strand 3. This unique feature is likely to form a part of the DNA/RNA-binding site. This entry is specific for bacterial, chloroplastic and eukaryotic IF-1 type S1 domains.; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1JT8_A 3I4O_A 1AH9_A 1ZO1_W 1D7Q_A 2OQK_A 2DGY_A 1HR0_W.

>KOG3403 consensus Translation initiation factor 1A (eIF-1A) [Translation, ribosomal structure and biogenesis]

Probab=99.00  E-value=5.3e-10  Score=84.13  Aligned_cols=57  Identities=21%  Similarity=0.197  Sum_probs=53.2

Q ss_pred             cchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCchhhhcC
Q 033178            3 DMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKST   66 (125)
Q Consensus         3 ~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~~~   66 (125)
                      -+.+|+||+|||-.||+|||.       +.+++.-+|+|++.|++++++.|+..|..|..|..+
T Consensus        60 hiRGklrkkVwi~~GDIiLv~-------lRD~qd~kaDvilKY~~dEar~LK~~Gelpe~~k~N  116 (145)
T KOG3403|consen   60 HIRGKLRKKVWINQGDIILVG-------LRDYQDDKADVILKYMPDEARILKAYGELPENAKIN  116 (145)
T ss_pred             hhhccceeeEeecCCCEEEEe-------eecccccccceehhhChHHHHHHHhcCcCCcccccc
Confidence            468999999999999999999       778899999999999999999999999999988774

>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]

Probab=98.51  E-value=5.8e-08  Score=66.88  Aligned_cols=41  Identities=12%  Similarity=0.016  Sum_probs=34.8

Q ss_pred             Ccchhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhH
Q 033178            2 PDMLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQ   49 (125)
Q Consensus         2 ~~mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dq   49 (125)
                      .-+|+|+|+ +|||..||.|+|++|    |.   +--+|.|++.|.++|
T Consensus        34 ahI~GKmr~~~i~I~~GD~V~Ve~~----~~---d~~kg~I~~Ry~~~~   75 (75)
T COG0361          34 AHISGKMRKNRIRILPGDVVLVELS----PY---DLTKGRIVYRYKKDE   75 (75)
T ss_pred             EEccCcchheeEEeCCCCEEEEEec----cc---ccccccEEEEecCCC
Confidence            458999999 999999999999955    33   478999999998764

>TIGR00008 infA translation initiation factor IF-1

Probab=97.95  E-value=5.9e-06  Score=55.93  Aligned_cols=36  Identities=14%  Similarity=-0.045  Sum_probs=29.7

Q ss_pred             Ccchhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEE
Q 033178            2 PDMLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKV   44 (125)
Q Consensus         2 ~~mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~i   44 (125)
                      ..+++|+|+ +|||..||.|+|+.|    |.   +..+|.|++.
T Consensus        32 a~i~GKmr~~rI~I~~GD~V~Ve~s----py---d~tkgrIi~R   68 (68)
T TIGR00008        32 AHISGKIRMHYIRILPGDKVKVELS----PY---DLTRGRITYR   68 (68)
T ss_pred             EEecCcchhccEEECCCCEEEEEEC----cc---cCCcEeEEeC
Confidence            357999995 999999999999955    44   4778999873

This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).

>PRK12442 translation initiation factor IF-1; Reviewed

Probab=97.66  E-value=4e-05  Score=54.25  Aligned_cols=38  Identities=13%  Similarity=-0.126  Sum_probs=32.6

Q ss_pred             Ccchhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEec
Q 033178            2 PDMLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLF   46 (125)
Q Consensus         2 ~~mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~   46 (125)
                      .-+++|+|+ +|||..||.|+|+.|    |.+   -.+|.|++.+.
T Consensus        34 a~isGKmR~~rIrIl~GD~V~VE~s----pYD---ltkGRIiyR~~   72 (87)
T PRK12442         34 AYASGRMRKHRIRILAGDRVTLELS----PYD---LTKGRINFRHK   72 (87)
T ss_pred             EEeccceeeeeEEecCCCEEEEEEC----ccc---CCceeEEEEec
Confidence            357899998 999999999999966    443   57899999997

>CHL00010 infA translation initiation factor 1

Probab=97.46  E-value=0.00012  Score=50.03  Aligned_cols=38  Identities=13%  Similarity=-0.085  Sum_probs=31.2

Q ss_pred             cchhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEech
Q 033178            3 DMLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFY   47 (125)
Q Consensus         3 ~mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~   47 (125)
                      .+++|||+ ++||..||+|.|++|    +.   +.-+|.|+|.|..
T Consensus        35 ~~rGklr~~~i~~~vGD~V~ve~~----~~---~~~~g~Ii~r~~~   73 (78)
T CHL00010         35 YISGKIRRNSIRILPGDRVKVELS----PY---DLTKGRIIYRLRN   73 (78)
T ss_pred             EeccceecCCcccCCCCEEEEEEc----cc---CCCeEEEEEEecC
Confidence            57899997 699999999999944    23   3567999999875

>PRK00276 infA translation initiation factor IF-1; Validated

Probab=97.39  E-value=0.00018  Score=48.23  Aligned_cols=36  Identities=14%  Similarity=-0.020  Sum_probs=29.3

Q ss_pred             cchhhcc-ceEeeeeCCEEEEecCCcccccccCCceeEEEEEEe
Q 033178            3 DMLENDI-KLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVL   45 (125)
Q Consensus         3 ~mp~KfR-K~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il   45 (125)
                      .+++||| +.+|+..||+|+|+.|    +.   +.-+|.|++.|
T Consensus        35 ~~~Gklr~~~i~i~vGD~V~ve~~----~~---~~~~g~Iv~r~   71 (72)
T PRK00276         35 HISGKMRKNYIRILPGDKVTVELS----PY---DLTKGRITYRH   71 (72)
T ss_pred             EEccceeeCCcccCCCCEEEEEEc----cc---CCCeEEEEEEe
Confidence            5789999 4899999999999944    22   35579999987

>cd04451 S1_IF1 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain

Probab=95.70  E-value=0.01  Score=38.34  Aligned_cols=35  Identities=11%  Similarity=-0.041  Sum_probs=25.8

Q ss_pred             cchhhcc-ceEeeeeCCEEEEecCCcccccccCCceeEEEEEE
Q 033178            3 DMLENDI-KLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKV   44 (125)
Q Consensus         3 ~mp~KfR-K~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~i   44 (125)
                      .+++||| +++|+..||+|+++.+    +..   .-+|.|+|.
T Consensus        29 ~~rGklr~~~~~~~vGD~V~~~~~----~~~---~~~g~I~~~   64 (64)
T cd04451          29 HISGKMRMNYIRILPGDRVKVELS----PYD---LTKGRIVYR   64 (64)
T ss_pred             EECceeecCCcccCCCCEEEEEEe----ecC---CCEEEEEEC
Confidence            4788998 4899999999999933    112   335888873

IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the formation of the first peptide bond. In Escherichia coli, the initiation mechanism requires, in addition to mRNA, fMet-tRNA, and ribosomal subunits, the presence of three additional proteins (initiation factors IF1, IF2, and IF3) and at least one GTP molecule. The three initiation factors influence both the kinetics and the stability of ternary complex formation. IF1 is the smallest of the three factors. IF1 enhances the rate of 70S ribosome subunit association and dissociation and the interaction of 30S ribosomal subunit with IF2 and IF3. It stimulates 30S complex formation. In addition, by binding to the A-site of the 30S ribosomal subunit, IF1 may contribute to the fidelity of the selection of the initiation site of th

>cd04466 S1_YloQ_GTPase S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain

Probab=86.77  E-value=0.79  Score=28.92  Aligned_cols=35  Identities=14%  Similarity=0.031  Sum_probs=23.8

Q ss_pred             chhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEech
Q 033178            4 MLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFY   47 (125)
Q Consensus         4 mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~   47 (125)
                      ++++|++ ..++-.||+|+++      +...   -.+.|+.||-.
T Consensus        27 ~~~~~~~~~~~~~VGD~V~~~------~~~~---~~~~I~~vl~R   62 (68)
T cd04466          27 LRGKFRKDKNPPAVGDRVEFE------PEDD---GEGVIEEILPR   62 (68)
T ss_pred             EccccccCCCCCCCCcEEEEE------ECCC---CcEEEEEEecc
Confidence            4667663 5788999999998      3221   24678788743

Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of three domains: an N-terminal S1 domain, a central GTPase domain, and a C-terminal zinc finger domain. This N-terminal S1 domain binds ssRNA. The central GTPase domain contains nucleotide-binding signature motifs: G1 (walker A), G3 (walker B) and G4 motifs. Experiments show that the bacterial YloQ and YjeQ proteins have low intrinsic GTPase activity. The C-terminal zinc-finger domain has structural similarity to a portion of the DNA-repair protein Rad51. This suggests a possible role for this GTPase as a regulator of translation, perhaps as a translation initiation factor. This family is classified based on the N-terminal S1 domain.

>cd04721 BAH_plant_1 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function

Probab=83.80  E-value=2.3  Score=31.43  Aligned_cols=49  Identities=16%  Similarity=-0.018  Sum_probs=34.1

Q ss_pred             ccceEeeeeCCEEEEecCCccccc-------ccC--CceeEEEEEEechhHHHHHHHCC
Q 033178            8 DIKLVFNCAGSFVVVDESGKEKAI-------KDG--SKVACIVTKVLFYEQVRALQKST   57 (125)
Q Consensus         8 fRK~iWIKrGd~VlV~~~g~~~p~-------~e~--~KVkgeIv~il~~dqiK~Lrk~g   57 (125)
                      .|+.+.||.||+|+|.+.+ .+++       .++  +.....+.+-++++++..+++..
T Consensus         2 ~r~~~~i~vGD~V~v~~~~-~~~~va~Ie~i~ed~~g~~~v~v~WF~~p~E~~~~~~~~   59 (130)
T cd04721           2 CRNGVTISVHDFVYVLSEE-EDRYVAYIEDLYEDKKGSKMVKVRWFHTTDEVGAALSPD   59 (130)
T ss_pred             ccCCEEEECCCEEEEeCCC-CCcEEEEEEEEEEcCCCCEEEEEEEecCHHHhccccCCC
Confidence            4889999999999998543 1111       122  34567788888899988865544

BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	125
2dgy_A	111	MGC11102 protein; EIF-1A, structural genomics, NPP	1e-05

>2dgy_A MGC11102 protein; EIF-1A, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 111

 Score = 40.3 bits (94), Expect = 1e-05
 Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 6/65 (9%)

Query: 10  KLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSD 69
           K ++   G F++VD       I++G KV   ++ VL  + VR+LQK   WPE F      
Sbjct: 50  KNIWIKRGDFLIVD------PIEEGEKVKAEISFVLCKDHVRSLQKEGFWPEAFSEVAEK 103

Query: 70  DANGS 74
             +G 
Sbjct: 104 HNSGP 108

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	125
2dgy_A	111	MGC11102 protein; EIF-1A, structural genomics, NPP	99.85
1d7q_A	143	Translation initiation factor 1A; OB-fold, beta-ba	99.79
1jt8_A	102	EIF-1A, probable translation initiation factor 1A;	99.75
2oqk_A	117	Putative translation initiation factor EIF-1A; mal	99.66
1hr0_W	71	Translation initiation factor; ribosomal subunit,	98.34
1ah9_A	71	IF1, initiation factor 1; ribosome binding, protei	98.3
3i4o_A	79	Translation initiation factor IF-1; cytoplasm, pro	97.77
2zjr_R	115	50S ribosomal protein L24; ribosome, large ribosom	83.56

>2dgy_A MGC11102 protein; EIF-1A, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.85  E-value=1.6e-22  Score=146.16  Aligned_cols=59  Identities=36%  Similarity=0.561  Sum_probs=54.3

Q ss_pred             CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCchhhhcC
Q 033178            2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKST   66 (125)
Q Consensus         2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~~~   66 (125)
                      ..||+||||+|||++||||+|+      +++.+.+++|+|+++|+++|||+|+++|+||++|...
T Consensus        42 a~i~GK~Rk~IwI~~GD~VlVe------~~~yd~~~kg~Iv~r~~~~qvk~L~k~g~wP~~F~~~  100 (111)
T 2dgy_A           42 VSMPSKYRKNIWIKRGDFLIVD------PIEEGEKVKAEISFVLCKDHVRSLQKEGFWPEAFSEV  100 (111)
T ss_dssp             EECCTTCCSCCCCCSSCEEEEE------ECSSCSSCCEEEEEECCHHHHHHHHHHTCSCHHHHHH
T ss_pred             EEechhhcccEEEcCCCEEEEE------ecccCCcceEEEEEEeCHHHHHHHHHcCCCChHHhhc
Confidence            4699999999999999999999      5555569999999999999999999999999999773

>1d7q_A Translation initiation factor 1A; OB-fold, beta-barrel, RNA-binding protein, gene regulation; NMR {Homo sapiens} SCOP: b.40.4.5

Probab=99.79  E-value=6e-20  Score=137.95  Aligned_cols=58  Identities=17%  Similarity=0.068  Sum_probs=52.6

Q ss_pred             CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCchhhhcC
Q 033178            2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKST   66 (125)
Q Consensus         2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~~~   66 (125)
                      ..||+||||+|||++||||||+++      + .+.+||+|+++|+++||++|+++|+||++|..+
T Consensus        58 a~I~GKmRk~IwI~~GD~VlVe~~------~-yd~~KG~Ii~r~~~devk~L~k~g~wP~~f~~~  115 (143)
T 1d7q_A           58 CHIRGKLRKKVWINTSDIILVGLR------D-YQDNKADVILKYNADEARSLKAYGELPEHAKIN  115 (143)
T ss_dssp             EECCSGGGGSCCCCTTCEEEEECS------S-SSSSCCEEEEEECTTTHHHHHHHTSSCTTCCCC
T ss_pred             EEecccceeeEEecCCCEEEEeec------c-CCCCeEEEEEEeCHHHHHHHHHcCCCChHHhhC
Confidence            479999999999999999999944      2 347899999999999999999999999999774

>1jt8_A EIF-1A, probable translation initiation factor 1A; beta barrel, translation factor; NMR {Methanocaldococcus jannaschii} SCOP: b.40.4.5

Probab=99.75  E-value=6e-20  Score=131.04  Aligned_cols=53  Identities=13%  Similarity=0.073  Sum_probs=48.7

Q ss_pred             CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCc
Q 033178            2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWP   60 (125)
Q Consensus         2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP   60 (125)
                      ..||+||||+|||++||||+|+      +++.+..+||+|+++|+++|+++|+++|+||
T Consensus        47 a~i~GKmRk~IwI~~GD~VlVe------~~~yd~~~Kg~Iv~r~~~de~~~L~k~g~~p   99 (102)
T 1jt8_A           47 GRIPGRLKNRIWVREGDVVIVK------PWEVQGDQKCDIIWRYTKTQVEWLKRKGYLD   99 (102)
T ss_dssp             EECCHHHHHHHCCCSCEEEEEC------CBCCTTSEEEEEEEESSCSHHHHHHHHHHHH
T ss_pred             EEEcccceeeEEecCCCEEEEE------eccCCCCceEEEEEEeCHHHHHHHHHcCCCc
Confidence            4699999999999999999999      5554458999999999999999999999999

>2oqk_A Putative translation initiation factor EIF-1A; malaria, eukaryotic initiation facto SGC, structural genomics; 1.80A {Cryptosporidium parvum iowa II}

Probab=99.66  E-value=4.1e-17  Score=118.14  Aligned_cols=57  Identities=21%  Similarity=0.149  Sum_probs=50.5

Q ss_pred             cchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCchhhhcC
Q 033178            3 DMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKST   66 (125)
Q Consensus         3 ~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~~~   66 (125)
                      .||+|||+.|||.+||+|+|+++      +. +..+|.|++||..+||++|+++|+||++|..+
T Consensus        60 ~i~GK~Rk~I~i~~GD~V~ve~~------~~-~~~kG~I~~~~~r~~~k~l~~~g~~p~~f~~~  116 (117)
T 2oqk_A           60 HIRGKMRKKVWVNPGDIVLVSLR------DF-QDSKGDIILKYTPDEARALKSKGEIPETTKIN  116 (117)
T ss_dssp             ECCHHHHHHSCCCTTCEEEEEEC------TT-CTTEEEEEEECCHHHHHHHHHTTSSCTTCCC-
T ss_pred             EEcCceecCCcCCCCCEEEEEEE------cC-CCCeEEEEEEechHHHHHHHHcCCCCcccCcc
Confidence            58999999999999999999943      22 36799999999999999999999999999753

>1hr0_W Translation initiation factor; ribosomal subunit, ribosome, IF1; 3.20A {Escherichia coli} SCOP: b.40.4.5 PDB: 1zo1_W

Probab=98.34  E-value=6.3e-08  Score=63.91  Aligned_cols=37  Identities=11%  Similarity=-0.081  Sum_probs=29.4

Q ss_pred             Ccchhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEe
Q 033178            2 PDMLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVL   45 (125)
Q Consensus         2 ~~mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il   45 (125)
                      -.+++|||| +|||.+||+|+|+.+    |   .+..+|.|+++|
T Consensus        34 ~~i~Gk~Rk~~i~i~~GD~V~ve~~----~---~~~~kg~I~~r~   71 (71)
T 1hr0_W           34 AYISGKMRMHYIRILPGDRVVVEIT----P---YDPTRGRIVYRK   71 (71)
T ss_dssp             CEECHHHHHTCCCCCTTCEEEEECC----T---TCTTCCEECSCC
T ss_pred             EEEcceEeccCcCCCCCCEEEEEEE----c---CCCCEEEEEEeC
Confidence            468999996 999999999999943    2   235589998764

>1ah9_A IF1, initiation factor 1; ribosome binding, protein-RNA interaction, OB fold; NMR {Escherichia coli} SCOP: b.40.4.5

Probab=98.30  E-value=9.1e-08  Score=62.97  Aligned_cols=37  Identities=11%  Similarity=-0.139  Sum_probs=29.7

Q ss_pred             cchhhccce-EeeeeCCEEEEecCCcccccccCCceeEEEEEEec
Q 033178            3 DMLENDIKL-VFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLF   46 (125)
Q Consensus         3 ~mp~KfRK~-iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~   46 (125)
                      .+++|||++ |||.+||+|+|+.+       ..+..+|.|+++|.
T Consensus        34 ~i~Gk~Rk~~i~i~vGD~V~ve~~-------~~~~~kg~I~~r~~   71 (71)
T 1ah9_A           34 HISGKMRKNYIRILTGDKVTVELT-------PYDLSKGRIVFRSR   71 (71)
T ss_dssp             EECSSGGGTTCCCCTTCEECCEEC-------SSCTTEEEECSCCC
T ss_pred             EEcceEeccCccCCCCCEEEEEEe-------cCCCCEEEEEEEEC
Confidence            589999976 99999999999943       22355899998763

>3i4o_A Translation initiation factor IF-1; cytoplasm, protein biosynthesis; 1.47A {Mycobacterium tuberculosis} SCOP: b.40.4.5

Probab=97.77  E-value=9.3e-06  Score=55.22  Aligned_cols=36  Identities=11%  Similarity=-0.066  Sum_probs=30.4

Q ss_pred             cchhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEe
Q 033178            3 DMLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVL   45 (125)
Q Consensus         3 ~mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il   45 (125)
                      .+++|||| .|||..||.|+|+.|    |.   +-.+|.|++.|
T Consensus        42 ~i~GK~Rk~~I~Il~GD~V~ve~~----~y---d~~kgrIi~R~   78 (79)
T 3i4o_A           42 HISGKMRQHYIRILPEDRVVVELS----PY---DLSRGRIVYRY   78 (79)
T ss_dssp             EECHHHHHTTCCCCTTCEEEEEEE----TT---EEEEEEEEEEC
T ss_pred             EeCcceecCCccCCCCCEEEEEEC----cc---CCCcEEEEEEc
Confidence            47899998 999999999999944    22   47899999986

>2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.34.5.1 PDB: 1nwx_S* 1nwy_S* 1sm1_S* 1xbp_S* 2d3o_S 2zjp_R* 2zjq_R 1nkw_S 3cf5_R* 3dll_R* 3pio_R* 3pip_R* 1pnu_S 1pny_S 1vor_V 1vou_V 1vow_V 1voy_V 1vp0_V

Probab=83.56  E-value=0.69  Score=32.91  Aligned_cols=41  Identities=20%  Similarity=0.088  Sum_probs=30.6

Q ss_pred             CCcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechh
Q 033178            1 MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYE   48 (125)
Q Consensus         1 ~~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~d   48 (125)
                      ||++|.=.++++=|++||.|.|=. |++      ..-.|.|..|+.+.
T Consensus         3 ~p~~~~~~~rkm~IkkGD~V~Vi~-Gkd------KGk~GkV~~V~~~~   43 (115)
T 2zjr_R            3 RPSAGSHHNDKLHFKKGDTVIVLS-GKH------KGQTGKVLLALPRD   43 (115)
T ss_dssp             -CCCSTTTTSCCSSCTTSEEECCS-SSS------TTCEEEEEEEETTT
T ss_pred             CCCCccccceeCcccCCCEEEEeE-cCC------CCcEEEEEEEECCC
Confidence            688888777888899999999872 222      23569999999765

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	125
d1d7qa_	143	Translation initiation factor-1a, eIF1a {Human (Ho	99.68
d1jt8a_	102	Archaeal initiation factor-1a, aIF1a {Archaeon Met	99.58
d1ah9a_	71	Translational initiation factor 1, IF1 {Escherichi	98.01
d1hr0w_	71	Translational initiation factor 1, IF1 {Escherichi	97.73
d1t9ha1	67	Probable GTPase EngC (YjeQ), N-terminal domain {Ba	89.02
d1u0la1	66	Probable GTPase EngC (YjeQ), N-terminal domain {Th	86.59

>d1d7qa_ b.40.4.5 (A:) Translation initiation factor-1a, eIF1a {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Translation initiation factor-1a, eIF1a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=2.6e-17  Score=120.83  Aligned_cols=57  Identities=19%  Similarity=0.091  Sum_probs=51.4

Q ss_pred             CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCchhhhc
Q 033178            2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKS   65 (125)
Q Consensus         2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~~   65 (125)
                      ..||+|||+++||++||||||..+       +.++.+|+|+|+|+++|++.|+++|+||..|..
T Consensus        58 ~~irgk~r~r~~i~~Gd~VlV~~r-------d~e~~K~DIl~~Y~~~e~~~L~~~~~ip~~~~~  114 (143)
T d1d7qa_          58 CHIRGKLRKKVWINTSDIILVGLR-------DYQDNKADVILKYNADEARSLKAYGELPEHAKI  114 (143)
T ss_dssp             EECCSGGGGSCCCCTTCEEEEECS-------SSSSSCCEEEEEECTTTHHHHHHHTSSCTTCCC
T ss_pred             EEecCcceeEEEEeCCCEEEEecc-------CCcCcEEEEEEECCHHHHHHHHHCCCCChhhhh
Confidence            358999999999999999999933       346789999999999999999999999998865

>d1jt8a_ b.40.4.5 (A:) Archaeal initiation factor-1a, aIF1a {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Archaeal initiation factor-1a, aIF1a
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=99.58  E-value=8.2e-17  Score=112.54  Aligned_cols=54  Identities=15%  Similarity=0.121  Sum_probs=48.7

Q ss_pred             cchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCchh
Q 033178            3 DMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEI   62 (125)
Q Consensus         3 ~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~   62 (125)
                      .||+||||++||++||+|||.      +++...+.||+|+|+|+++||+.|++.|.||+.
T Consensus        48 ~irGK~Rk~~~I~~Gd~VlV~------~r~~~~~~K~dIl~~Y~~~ev~~L~~~~~ipe~  101 (102)
T d1jt8a_          48 RIPGRLKNRIWVREGDVVIVK------PWEVQGDQKCDIIWRYTKTQVEWLKRKGYLDEL  101 (102)
T ss_dssp             ECCHHHHHHHCCCSCEEEEEC------CBCCTTSEEEEEEEESSCSHHHHHHHHHHHHHC
T ss_pred             EEcCCcceeeEecCCCEEEEE------eeecCCCcEEEEEEECCHHHHHHHHHcCCCCCc
Confidence            589999999999999999999      444445789999999999999999999999964

>d1ah9a_ b.40.4.5 (A:) Translational initiation factor 1, IF1 {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Translational initiation factor 1, IF1
species: Escherichia coli [TaxId: 562]

Probab=98.01  E-value=2.5e-07  Score=60.23  Aligned_cols=37  Identities=11%  Similarity=-0.042  Sum_probs=30.4

Q ss_pred             Ccchhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEe
Q 033178            2 PDMLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVL   45 (125)
Q Consensus         2 ~~mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il   45 (125)
                      ..+|+|||| +|||..||.|+|+.+    |.   +.-+|.|++.+
T Consensus        33 a~i~Gkmrk~ri~i~~GD~V~Vel~----py---d~~kgrIi~R~   70 (71)
T d1ah9a_          33 AHISGKMRKNYIRILTGDKVTVELT----PY---DLSKGRIVFRS   70 (71)
T ss_dssp             EEECSSGGGTTCCCCTTCEECCEEC----SS---CTTEEEECSCC
T ss_pred             EEccchhheeEEEecCCCEEEEEEC----cc---CCCcEEEEEEc
Confidence            358999998 899999999999955    33   45689999875

>d1hr0w_ b.40.4.5 (W:) Translational initiation factor 1, IF1 {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Translational initiation factor 1, IF1
species: Escherichia coli [TaxId: 562]

Probab=97.73  E-value=2.2e-06  Score=55.60  Aligned_cols=36  Identities=11%  Similarity=-0.034  Sum_probs=29.0

Q ss_pred             Ccchhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEE
Q 033178            2 PDMLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKV   44 (125)
Q Consensus         2 ~~mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~i   44 (125)
                      .-+++|+|| +|||..||.|+|+.|    |.   +.-||.|++.
T Consensus        34 a~i~GkmRk~ri~i~~GD~V~Vel~----py---d~~kgrIi~R   70 (71)
T d1hr0w_          34 AYISGKMRMHYIRILPGDRVVVEIT----PY---DPTRGRIVYR   70 (71)
T ss_dssp             CEECHHHHHTCCCCCTTCEEEEECC----TT---CTTCCEECSC
T ss_pred             EEecchhheeeEEecCCCEEEEEEC----cc---CCCcEEEEEc
Confidence            458999998 899999999999955    43   3558888763

>d1t9ha1 b.40.4.5 (A:1-67) Probable GTPase EngC (YjeQ), N-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Probable GTPase EngC (YjeQ), N-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=89.02  E-value=0.16  Score=31.20  Aligned_cols=34  Identities=18%  Similarity=0.025  Sum_probs=24.7

Q ss_pred             chhhccce-EeeeeCCEEEEecCCcccccccCCceeEEEEEEec
Q 033178            4 MLENDIKL-VFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLF   46 (125)
Q Consensus         4 mp~KfRK~-iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~   46 (125)
                      +.+|||+. +=+-.||+|.++      +...+   .|-|..||-
T Consensus        31 ~RGk~r~~~~~p~VGD~V~~~------~~~~~---~g~I~~I~p   65 (67)
T d1t9ha1          31 GRGIFRKNKITPLVGDYVVYQ------AENDK---EGYLMEIKE   65 (67)
T ss_dssp             SCSSCCSCCCCCCBTCEEEEE------CCTTS---CEEEEEECC
T ss_pred             EceeEecCCCccCcCcEEEEE------EccCC---eEEEEEEec
Confidence            57888854 446689999999      44322   588998874

>d1u0la1 b.40.4.5 (A:3-68) Probable GTPase EngC (YjeQ), N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Probable GTPase EngC (YjeQ), N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=86.59  E-value=0.28  Score=29.91  Aligned_cols=34  Identities=12%  Similarity=-0.038  Sum_probs=24.6

Q ss_pred             chhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEec
Q 033178            4 MLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLF   46 (125)
Q Consensus         4 mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~   46 (125)
                      +.+|||+ ++=+-.||+|+++      +...   -.|.|..|+-
T Consensus        30 ~rG~lr~~~~~~~VGD~V~~~------~~~~---~~g~I~~I~p   64 (66)
T d1u0la1          30 LRGKFRLQNLKIYVGDRVEYT------PDET---GSGVIENVLH   64 (66)
T ss_dssp             ECGGGTTTTCCCCTTCEEEEE------CCCS---SSEEEEEECC
T ss_pred             eeccccccCCccccCCEEEEE------ECCC---CeEEEEEEcC
Confidence            5678875 3457789999999      5432   2588998874