Citrus Sinensis ID: 034275

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------10
Protein Sequence
MVSPGQAAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYSLYAPKVKSIMELENPADLIN
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEEccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEEcccccHHccc
Coil and Loop (DISEMBL)
mvspgqaapirpEILGLYRALLRAAREFRDYNVREYTKRRaidgfrenqnltdpesissAYAEGKNQLAIAKRQAVVYSLYAPkvksimelenpadlin
Flexible Loop (DISEMBL)
mvspgqaapirpeILGLYRALLRAArefrdynvreytkrraidgfrenqnltdpESISSAYAEGKNQLAIAKRQAVVYSLYApkvksimelenpadlin
Low Complexity Region (SEG)
MVSPGQAAPIRPEILGlyrallraarEFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYSLYAPKVKSIMELENPADLIN
Disordered region (IsUnstruct)
***********PEILGLYRALLRAAREFRDYNVREYTKRRAIDGF********************NQLAIAKRQAVVYSLYAPKVKSI***********
Disordered Region (DISOPRED)
**************LGLYRALLRAAREFRDYNVREYTKRRAIDGFRE***********SAYAEGKNQLAIAKRQAVVYSLYAPKVKSIM**********
Disordered Region (DISEMBL)
MVSPGQAAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYSLYAPKVKSIMELENPADLIN
Disordered Region (DISPRO)
***********PEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYSLYAPKVKSIMELENP*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVSPGQAAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYSLYAPKVKSIMELENPADLIN
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	99	2.2.26 [Sep-21-2011]
Q6Q560	94	Protein ISD11 OS=Saccharo	yes	no	0.797	0.840	0.379	2e-12
Q9HD34	91	LYR motif-containing prot	yes	no	0.777	0.846	0.415	6e-11
B5FZA8	89	LYR motif-containing prot	yes	no	0.838	0.932	0.428	6e-11
Q0VCG0	91	LYR motif-containing prot	yes	no	0.888	0.967	0.397	9e-11
Q8K215	91	LYR motif-containing prot	yes	no	0.888	0.967	0.397	1e-10
B8JLQ0	89	LYR motif-containing prot	yes	no	0.858	0.955	0.337	1e-09
B5X5U9	92	LYR motif-containing prot	N/A	no	0.838	0.902	0.321	1e-08
B5XD90	84	LYR motif-containing prot	N/A	no	0.828	0.976	0.337	1e-08
Q54FN9	81	LYR motif-containing prot	yes	no	0.696	0.851	0.4	3e-08
Q6DCS1	89	LYR motif-containing prot	N/A	no	0.777	0.865	0.350	5e-08

>sp|Q6Q560|ISD11_YEAST Protein ISD11 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=ISD11 PE=1 SV=1

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 30/79 (37%), Positives = 47/79 (59%)

Query: 4  PGQAAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAE 63
          PG  AP R ++L LY+  ++ A +F +YN REY   +    FR+N N  DP+ + + + E
Sbjct: 2  PGFTAPTRRQVLSLYKEFIKNANQFNNYNFREYFLSKTRTTFRKNMNQQDPKVLMNLFKE 61

Query: 64 GKNQLAIAKRQAVVYSLYA 82
           KN L + KRQ+V+  +Y 
Sbjct: 62 AKNDLGVLKRQSVISQMYT 80

Required for mitochondrial iron-sulfur proteins biosynthesis.
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q9HD34|LYRM4_HUMAN LYR motif-containing protein 4 OS=Homo sapiens GN=LYRM4 PE=1 SV=1

 Score = 66.2 bits (160), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 32/77 (41%), Positives = 45/77 (58%)

Query: 7  AAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
          AA  R ++L LYRA+LR ++ F  YN R Y  RR  D FREN+N+ DP  I +   + K 
Sbjct: 2  AASSRAQVLSLYRAMLRESKRFSAYNYRTYAVRRIRDAFRENKNVKDPVEIQTLVNKAKR 61

Query: 67 QLAIAKRQAVVYSLYAP 83
           L + +RQ  +  LY+ 
Sbjct: 62 DLGVIRRQVHIGQLYST 78

Required for nuclear and mitochondrial iron-sulfur protein biosynthesis.

Homo sapiens (taxid: 9606)

>sp|B5FZA8|LYRM4_TAEGU LYR motif-containing protein 4 OS=Taeniopygia guttata GN=LYRM4 PE=3 SV=1

 Score = 65.9 bits (159), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 36/84 (42%), Positives = 49/84 (58%), Gaps = 1/84 (1%)

Query: 7  AAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
          AA  R ++L LYRALLR ++ F  YN R Y  RR  D FREN+N+ D E I     + K 
Sbjct: 2  AASSRAQVLRLYRALLRESQRFSSYNYRTYAIRRIRDAFRENKNIADSEKIEELLNKAKA 61

Query: 67 QLAIAKRQAVVYSLYAPKVKSIME 90
           L + +RQ  +  +YA + K I+E
Sbjct: 62 NLEVIQRQGTIDHMYATE-KLIIE 84

Required for nuclear and mitochondrial iron-sulfur protein biosynthesis.

Taeniopygia guttata (taxid: 59729)

>sp|Q0VCG0|LYRM4_BOVIN LYR motif-containing protein 4 OS=Bos taurus GN=LYRM4 PE=3 SV=1

 Score = 65.5 bits (158), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 35/88 (39%), Positives = 48/88 (54%)

Query: 7  AAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
          AA  R ++L LYRA+LR ++ F  YN R Y  RR  D FREN+N+ DP  I +   + K 
Sbjct: 2  AASSRAQVLDLYRAMLRESKRFGAYNYRTYAIRRIRDAFRENKNVKDPVEIQALVNKAKR 61

Query: 67 QLAIAKRQAVVYSLYAPKVKSIMELENP 94
           L I +RQ  +  +Y+     I   E P
Sbjct: 62 DLGIIRRQVHIGQMYSTDKLVIENQEKP 89

Required for nuclear and mitochondrial iron-sulfur protein biosynthesis.

Bos taurus (taxid: 9913)

>sp|Q8K215|LYRM4_MOUSE LYR motif-containing protein 4 OS=Mus musculus GN=Lyrm4 PE=2 SV=1

 Score = 65.5 bits (158), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 35/88 (39%), Positives = 48/88 (54%)

Query: 7  AAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
          AA  R ++L LYRA++R ++ F  YN R Y  RR  D FREN+N+ DP  I +   + K 
Sbjct: 2  AASSRAQVLDLYRAMMRESKHFSAYNYRMYAVRRIRDAFRENKNVKDPVEIQALVNKAKR 61

Query: 67 QLAIAKRQAVVYSLYAPKVKSIMELENP 94
           L I +RQ  +  LY+     I   E P
Sbjct: 62 DLEIIRRQVHIGQLYSTDKLIIENQEKP 89

Required for nuclear and mitochondrial iron-sulfur protein biosynthesis.

Mus musculus (taxid: 10090)

>sp|B8JLQ0|LYRM4_DANRE LYR motif-containing protein 4 OS=Danio rerio GN=lyrm4 PE=3 SV=1

 Score = 61.6 bits (148), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 53/86 (61%), Gaps = 1/86 (1%)

Query: 7  AAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
          A+  R +++ LYR L++ +++F  YN R Y  RR  DGFREN ++ +P ++     + + 
Sbjct: 2  ASCSRAQVISLYRMLMKESKKFPSYNYRTYALRRVKDGFRENLHVDNPRTLDLLINQARE 61

Query: 67 QLAIAKRQAVVYSLYAPKVKSIMELE 92
           LA+ KRQ  +  LY+ + ++++E E
Sbjct: 62 NLAVIKRQVSIGHLYSAQ-RTVVEKE 86

Required for nuclear and mitochondrial iron-sulfur protein biosynthesis.

Danio rerio (taxid: 7955)

>sp|B5X5U9|LYM4A_SALSA LYR motif-containing protein 4A OS=Salmo salar GN=lyrm4a PE=3 SV=1

 Score = 58.5 bits (140), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 27/84 (32%), Positives = 51/84 (60%), Gaps = 1/84 (1%)

Query: 7  AAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
          AA  R +++ LYR L++ +++F  YN R Y  RR  D FREN ++ +P+++     + + 
Sbjct: 2  AACSRTQVISLYRMLIKESKKFPSYNYRTYALRRVKDSFRENLHVDNPKTLDMLLNQARE 61

Query: 67 QLAIAKRQAVVYSLYAPKVKSIME 90
           LA+ +RQ  +  +Y  + ++I+E
Sbjct: 62 NLAVIRRQVSIGQMYTAQ-RTIVE 84

Salmo salar (taxid: 8030)

>sp|B5XD90|LYM4B_SALSA LYR motif-containing protein 4B OS=Salmo salar GN=lyrm4b PE=3 SV=1

 Score = 58.5 bits (140), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 28/83 (33%), Positives = 48/83 (57%), Gaps = 1/83 (1%)

Query: 8  APIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQ 67
          A    ++L LYR L++ + +F  YN R Y  RR  D FR N+++ DP+ +     +G++ 
Sbjct: 2  AACTAQVLSLYRKLMKESNKFPSYNYRTYALRRVQDAFRANRSVEDPKMVEQLLNQGRDN 61

Query: 68 LAIAKRQAVVYSLYAPKVKSIME 90
          L + +RQ  +  +Y P  K+I+E
Sbjct: 62 LDMIRRQVAIGKMY-PTQKTIVE 83

Salmo salar (taxid: 8030)

>sp|Q54FN9|LYRM4_DICDI LYR motif-containing protein 4 OS=Dictyostelium discoideum GN=lyrm4 PE=3 SV=1

 Score = 57.4 bits (137), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/70 (40%), Positives = 41/70 (58%), Gaps = 1/70 (1%)

Query: 14 ILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKR 73
          +L LYR+L+R +++F  YN REY+ RR   GFREN+N  D         +    L + KR
Sbjct: 7  VLHLYRSLVRESKKFSSYNFREYSLRRVSVGFRENKN-KDQNETKELIQDALKNLEMVKR 65

Query: 74 QAVVYSLYAP 83
          QA + S+Y+ 
Sbjct: 66 QAFINSMYST 75

Required for nuclear and mitochondrial iron-sulfur protein biosynthesis.

Dictyostelium discoideum (taxid: 44689)

>sp|Q6DCS1|LYRM4_XENLA LYR motif-containing protein 4 OS=Xenopus laevis GN=lyrm4 PE=3 SV=1

 Score = 56.2 bits (134), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 27/77 (35%), Positives = 41/77 (53%)

Query: 7  AAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
          +A  R ++L LY+ +LR ++ F  YN R Y  RR  D FRE +N+ D   I +     K 
Sbjct: 2  SASSRSQVLSLYKIMLRESQRFSSYNYRTYAIRRIRDAFREKKNVDDFLEIETLLHRAKE 61

Query: 67 QLAIAKRQAVVYSLYAP 83
           L + +RQ  +  +YA 
Sbjct: 62 NLNVIQRQVTIGQMYAT 78

Required for nuclear and mitochondrial iron-sulfur protein biosynthesis.

Xenopus laevis (taxid: 8355)

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	99
224105853	91	predicted protein [Populus trichocarpa]	0.898	0.978	0.674	4e-28
449477178	90	PREDICTED: protein ISD11-like [Cucumis s	0.848	0.933	0.702	8e-28
255547275	92	Protein C6orf149, putative [Ricinus comm	0.838	0.902	0.686	1e-27
449486978	88	PREDICTED: LYR motif-containing protein	0.878	0.988	0.666	1e-26
371721832	92	catalytic/ oxidoreductase [Allium sativu	0.878	0.945	0.632	1e-26
225457295	90	PREDICTED: LYR motif-containing protein	0.878	0.966	0.574	3e-26
383130209	96	Pinus taeda anonymous locus 0_14360_01 g	0.838	0.864	0.650	4e-25
226509032	91	catalytic/ oxidoreductase, acting on NAD	0.868	0.945	0.616	4e-25
356526481	123	PREDICTED: LYR motif-containing protein	0.818	0.658	0.641	7e-25
383130217	96	Pinus taeda anonymous locus 0_14360_01 g	0.838	0.864	0.626	1e-24

>gi|224105853|ref|XP_002313954.1| predicted protein [Populus trichocarpa] gi|118485106|gb|ABK94416.1| unknown [Populus trichocarpa] gi|222850362|gb|EEE87909.1| predicted protein [Populus trichocarpa]

 Score =  128 bits (322), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 60/89 (67%), Positives = 73/89 (82%)

Query: 5  GQAAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEG 64
            AA  R EIL LYR+LLR AR+F DYN+REYTKRR ID FR+NQNLTD  +IS+AY++G
Sbjct: 2  ASAAISRGEILYLYRSLLRTARQFCDYNIREYTKRRTIDAFRQNQNLTDSLAISAAYSDG 61

Query: 65 KNQLAIAKRQAVVYSLYAPKVKSIMELEN 93
          K QL +AKRQAVVYSLYAP +KS+ME ++
Sbjct: 62 KTQLDVAKRQAVVYSLYAPTIKSVMEAQS 90

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449477178|ref|XP_004154952.1| PREDICTED: protein ISD11-like [Cucumis sativus]

 Score =  127 bits (319), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 59/84 (70%), Positives = 69/84 (82%)

Query: 7  AAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
          A+P R E L L R+L+R AR F DYN+REY KRRA+DGFR N+NL+DP SISSAYA+GK 
Sbjct: 2  ASPTRSEALSLLRSLIRTARHFSDYNIREYAKRRAVDGFRHNRNLSDPPSISSAYADGKA 61

Query: 67 QLAIAKRQAVVYSLYAPKVKSIME 90
          QL +AKRQ+ VYSLY PKVKSIME
Sbjct: 62 QLEVAKRQSAVYSLYGPKVKSIME 85

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547275|ref|XP_002514695.1| Protein C6orf149, putative [Ricinus communis] gi|223546299|gb|EEF47801.1| Protein C6orf149, putative [Ricinus communis]

 Score =  126 bits (317), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 57/83 (68%), Positives = 71/83 (85%)

Query: 11 RPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAI 70
          + EIL L R+LLR AR+F DYN+REYTKRR ID FREN+NLTDP SIS+A+++GK QL +
Sbjct: 4  KGEILSLCRSLLRTARQFSDYNIREYTKRRTIDAFRENRNLTDPSSISAAFSDGKAQLDV 63

Query: 71 AKRQAVVYSLYAPKVKSIMELEN 93
          AKRQ VVYSLYAPK+KS+ME ++
Sbjct: 64 AKRQVVVYSLYAPKIKSVMETKS 86

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449486978|ref|XP_004157459.1| PREDICTED: LYR motif-containing protein 4-like [Cucumis sativus]

 Score =  124 bits (310), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 58/87 (66%), Positives = 69/87 (79%)

Query: 7  AAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
          A P   EIL L+R+LLR AR+F DYN+REY KRR ID FRENQ L+D  SISS YA G+ 
Sbjct: 2  ATPSTSEILSLFRSLLRTARQFPDYNIREYIKRRTIDSFRENQTLSDASSISSVYAGGRA 61

Query: 67 QLAIAKRQAVVYSLYAPKVKSIMELEN 93
          QL +AKRQA+VYSLYAPKVKSIM++ +
Sbjct: 62 QLEVAKRQAIVYSLYAPKVKSIMDVNH 88

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|371721832|gb|AEX55239.1| catalytic/ oxidoreductase [Allium sativum]

 Score =  123 bits (309), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 55/87 (63%), Positives = 73/87 (83%)

Query: 7  AAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
          + P +P++L LYR+LL+ A +F DYN+REYT+RRAID FR NQ+L+D   ISS +++GK+
Sbjct: 2  STPSKPQVLALYRSLLKTAAKFPDYNIREYTRRRAIDSFRSNQHLSDSSLISSVFSDGKS 61

Query: 67 QLAIAKRQAVVYSLYAPKVKSIMELEN 93
          QL IAKRQAVVYSLYAP+VKSIME++ 
Sbjct: 62 QLEIAKRQAVVYSLYAPEVKSIMEIKT 88

Source: Allium sativum

Species: Allium sativum

Genus: Allium

Family: Amaryllidaceae

Order: Asparagales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225457295|ref|XP_002284477.1| PREDICTED: LYR motif-containing protein 4 isoform 1 [Vitis vinifera] gi|359491670|ref|XP_003634301.1| PREDICTED: LYR motif-containing protein 4 [Vitis vinifera]

 Score =  122 bits (305), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 50/87 (57%), Positives = 74/87 (85%)

Query: 7  AAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
          + P + +IL L+R+LLR AR+F DYN+REYTKRR IDGFR N++++DP SI++AY++ ++
Sbjct: 3  STPSKSQILSLFRSLLRTARDFSDYNIREYTKRRTIDGFRHNRHVSDPSSIAAAYSDAES 62

Query: 67 QLAIAKRQAVVYSLYAPKVKSIMELEN 93
          QL IA+RQ +VYSLY PK+KS+ME+++
Sbjct: 63 QLQIARRQVIVYSLYVPKLKSVMEIKH 89

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|383130209|gb|AFG45814.1| Pinus taeda anonymous locus 0_14360_01 genomic sequence gi|383130211|gb|AFG45815.1| Pinus taeda anonymous locus 0_14360_01 genomic sequence gi|383130213|gb|AFG45816.1| Pinus taeda anonymous locus 0_14360_01 genomic sequence gi|383130215|gb|AFG45817.1| Pinus taeda anonymous locus 0_14360_01 genomic sequence gi|383130227|gb|AFG45823.1| Pinus taeda anonymous locus 0_14360_01 genomic sequence

 Score =  118 bits (296), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 54/83 (65%), Positives = 67/83 (80%)

Query: 9  PIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQL 68
          P   ++  L+R+LLR AR F DYN+REY KRR I+GFR+NQ LTDP +I SA+AEGK+QL
Sbjct: 9  PSTSQVRSLFRSLLRTARRFPDYNIREYVKRRTIEGFRQNQQLTDPAAIVSAFAEGKSQL 68

Query: 69 AIAKRQAVVYSLYAPKVKSIMEL 91
           +A RQAVVYSLY PKVKSIM++
Sbjct: 69 EVASRQAVVYSLYVPKVKSIMDI 91

Source: Pinus taeda

Species: Pinus taeda

Genus: Pinus

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226509032|ref|NP_001150714.1| catalytic/ oxidoreductase, acting on NADH or NADPH [Zea mays] gi|195641282|gb|ACG40109.1| catalytic/ oxidoreductase, acting on NADH or NADPH [Zea mays] gi|414865909|tpg|DAA44466.1| TPA: catalytic/ oxidoreductase, acting on NADH or NADPH [Zea mays]

 Score =  118 bits (296), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 53/86 (61%), Positives = 69/86 (80%)

Query: 7  AAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
          AAP R E+L L+R+LLR A++F DYN+REYT+RRA D FREN  L+D  S ++ +A GK 
Sbjct: 4  AAPTRAEVLSLFRSLLRTAKQFSDYNIREYTRRRAADAFRENSALSDAPSAAALFAVGKQ 63

Query: 67 QLAIAKRQAVVYSLYAPKVKSIMELE 92
          QL +AKRQAV+YS+YAPK KS+MEL+
Sbjct: 64 QLEVAKRQAVIYSIYAPKAKSVMELK 89

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356526481|ref|XP_003531846.1| PREDICTED: LYR motif-containing protein 4-like [Glycine max]

 Score =  117 bits (294), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 52/81 (64%), Positives = 66/81 (81%)

Query: 13  EILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAK 72
           ++L L+R+LLRAAREF DYN+REYTKRR ID FR N  L+DP  IS+A+A GK+QLA+ K
Sbjct: 40  QVLSLFRSLLRAAREFPDYNIREYTKRRTIDSFRHNATLSDPSQISTAFAHGKSQLAVVK 99

Query: 73  RQAVVYSLYAPKVKSIMELEN 93
           RQAVVYSLY   ++S+MEL+ 
Sbjct: 100 RQAVVYSLYDSPLRSVMELQQ 120

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|383130217|gb|AFG45818.1| Pinus taeda anonymous locus 0_14360_01 genomic sequence gi|383130219|gb|AFG45819.1| Pinus taeda anonymous locus 0_14360_01 genomic sequence

 Score =  116 bits (291), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 52/83 (62%), Positives = 66/83 (79%)

Query: 9  PIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQL 68
          P   ++  L+R+LLR AR F DYN+REY KRR I+GFR+NQ LTDP ++ SA+ EGK+QL
Sbjct: 9  PSTSQVRSLFRSLLRTARRFPDYNIREYVKRRTIEGFRQNQQLTDPAAVVSAFTEGKSQL 68

Query: 69 AIAKRQAVVYSLYAPKVKSIMEL 91
           +A RQAVVYSLY PKVKSIM++
Sbjct: 69 EVASRQAVVYSLYVPKVKSIMDI 91

Source: Pinus taeda

Species: Pinus taeda

Genus: Pinus

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

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	99
TAIR|locus:2159441	87	AT5G61220 "AT5G61220" [Arabido	0.808	0.919	0.5	1.6e-17
SGD|S000007237	94	ISD11 "Cysteine desulfurase (N	0.787	0.829	0.346	1.1e-09
RGD|2324607	91	Lyrm4 "LYR motif containing 4"	0.888	0.967	0.352	7.6e-09
UNIPROTKB|Q9HD34	91	LYRM4 "LYR motif-containing pr	0.838	0.912	0.345	8.7e-08
MGI|MGI:2683538	91	Lyrm4 "LYR motif containing 4"	0.888	0.967	0.340	8.7e-08
UNIPROTKB|Q0VCG0	91	LYRM4 "LYR motif-containing pr	0.888	0.967	0.329	1.4e-07
ZFIN|ZDB-GENE-081104-295	89	lyrm4 "LYR motif containing 4"	0.818	0.910	0.292	2.9e-07
UNIPROTKB|F5H189	130	LYRM4 "LYR motif-containing pr	0.747	0.569	0.337	1e-06
ASPGD|ASPL0000074347	113	AN10584 [Emericella nidulans (	0.555	0.486	0.4	1.6e-06
DICTYBASE|DDB_G0290725	81	lyrm4 "LYR motif-containing pr	0.626	0.765	0.375	7e-06

TAIR|locus:2159441 AT5G61220 "AT5G61220" [Arabidopsis thaliana (taxid:3702)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 40/80 (50%), Positives = 53/80 (66%)

Query:    13 EILGXXXXXXXXXXEFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAK 72
             E+L           +F DYN+REY+KRR +DGFR N+NLTDP  ++ AYAE K QL +A+
Sbjct:     6 EVLSLCRALLRAGRQFPDYNIREYSKRRTLDGFRMNKNLTDPSKVTEAYAEAKKQLFVAE 65

Query:    73 RQAVVYSLYAPKVKSIMELE 92
             R   VY  Y PK K+IME++
Sbjct:    66 RVLKVYLAYPPKTKNIMEVK 85

GO:0003824 "catalytic activity" evidence=ISS

SGD|S000007237 ISD11 "Cysteine desulfurase (Nfs1p) activator" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 140 (54.3 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 27/78 (34%), Positives = 41/78 (52%)

Query:     4 PGQAAPIRPEILGXXXXXXXXXXEFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAE 63
             PG  AP R ++L           +F +YN REY   +    FR+N N  DP+ + + + E
Sbjct:     2 PGFTAPTRRQVLSLYKEFIKNANQFNNYNFREYFLSKTRTTFRKNMNQQDPKVLMNLFKE 61

Query:    64 GKNQLAIAKRQAVVYSLY 81
              KN L + KRQ+V+  +Y
Sbjct:    62 AKNDLGVLKRQSVISQMY 79

GO:0005739 "mitochondrion" evidence=IEA;IDA

GO:0005759 "mitochondrial matrix" evidence=IDA

GO:0016226 "iron-sulfur cluster assembly" evidence=IMP;IPI

GO:0008047 "enzyme activator activity" evidence=IDA

GO:0031314 "extrinsic to mitochondrial inner membrane" evidence=IDA

RGD|2324607 Lyrm4 "LYR motif containing 4" [Rattus norvegicus (taxid:10116)]

 Score = 132 (51.5 bits), Expect = 7.6e-09, P = 7.6e-09
 Identities = 31/88 (35%), Positives = 41/88 (46%)

Query:     7 AAPIRPEILGXXXXXXXXXXEFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
             AA  R ++L            F  YN R Y  RR  D FREN+N+ DP  I +   + K 
Sbjct:     2 AASSRAQVLDLYRAMMRESKHFSAYNYRMYAVRRIRDAFRENKNVKDPVEIQALVNKAKR 61

Query:    67 QLAIAKRQAVVYSLYAPKVKSIMELENP 94
              L I +RQ ++  LY+     I   ENP
Sbjct:    62 DLEIIRRQVLIGQLYSTDKLIIENQENP 89

GO:0005634 "nucleus" evidence=ISO

GO:0005739 "mitochondrion" evidence=IEA;ISO

UNIPROTKB|Q9HD34 LYRM4 "LYR motif-containing protein 4" [Homo sapiens (taxid:9606)]

 Score = 122 (48.0 bits), Expect = 8.7e-08, P = 8.7e-08
 Identities = 29/84 (34%), Positives = 40/84 (47%)

Query:     7 AAPIRPEILGXXXXXXXXXXEFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
             AA  R ++L            F  YN R Y  RR  D FREN+N+ DP  I +   + K 
Sbjct:     2 AASSRAQVLSLYRAMLRESKRFSAYNYRTYAVRRIRDAFRENKNVKDPVEIQTLVNKAKR 61

Query:    67 QLAIAKRQAVVYSLYAPKVKSIME 90
              L + +RQ  +  LY+   K I+E
Sbjct:    62 DLGVIRRQVHIGQLYSTD-KLIIE 84

GO:0005739 "mitochondrion" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

MGI|MGI:2683538 Lyrm4 "LYR motif containing 4" [Mus musculus (taxid:10090)]

 Score = 122 (48.0 bits), Expect = 8.7e-08, P = 8.7e-08
 Identities = 30/88 (34%), Positives = 39/88 (44%)

Query:     7 AAPIRPEILGXXXXXXXXXXEFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
             AA  R ++L            F  YN R Y  RR  D FREN+N+ DP  I +   + K 
Sbjct:     2 AASSRAQVLDLYRAMMRESKHFSAYNYRMYAVRRIRDAFRENKNVKDPVEIQALVNKAKR 61

Query:    67 QLAIAKRQAVVYSLYAPKVKSIMELENP 94
              L I +RQ  +  LY+     I   E P
Sbjct:    62 DLEIIRRQVHIGQLYSTDKLIIENQEKP 89

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q0VCG0 LYRM4 "LYR motif-containing protein 4" [Bos taurus (taxid:9913)]

 Score = 120 (47.3 bits), Expect = 1.4e-07, P = 1.4e-07
 Identities = 29/88 (32%), Positives = 39/88 (44%)

Query:     7 AAPIRPEILGXXXXXXXXXXEFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
             AA  R ++L            F  YN R Y  RR  D FREN+N+ DP  I +   + K 
Sbjct:     2 AASSRAQVLDLYRAMLRESKRFGAYNYRTYAIRRIRDAFRENKNVKDPVEIQALVNKAKR 61

Query:    67 QLAIAKRQAVVYSLYAPKVKSIMELENP 94
              L I +RQ  +  +Y+     I   E P
Sbjct:    62 DLGIIRRQVHIGQMYSTDKLVIENQEKP 89

GO:0005739 "mitochondrion" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

ZFIN|ZDB-GENE-081104-295 lyrm4 "LYR motif containing 4" [Danio rerio (taxid:7955)]

 Score = 117 (46.2 bits), Expect = 2.9e-07, P = 2.9e-07
 Identities = 24/82 (29%), Positives = 43/82 (52%)

Query:    11 RPEILGXXXXXXXXXXEFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAI 70
             R +++           +F  YN R Y  RR  DGFREN ++ +P ++     + +  LA+
Sbjct:     6 RAQVISLYRMLMKESKKFPSYNYRTYALRRVKDGFRENLHVDNPRTLDLLINQARENLAV 65

Query:    71 AKRQAVVYSLYAPKVKSIMELE 92
              KRQ  +  LY+ + ++++E E
Sbjct:    66 IKRQVSIGHLYSAQ-RTVVEKE 86

GO:0005634 "nucleus" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

UNIPROTKB|F5H189 LYRM4 "LYR motif-containing protein 4" [Homo sapiens (taxid:9606)]

 Score = 112 (44.5 bits), Expect = 1.0e-06, P = 1.0e-06
 Identities = 25/74 (33%), Positives = 35/74 (47%)

Query:     7 AAPIRPEILGXXXXXXXXXXEFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKN 66
             AA  R ++L            F  YN R Y  RR  D FREN+N+ DP  I +   + K 
Sbjct:     2 AASSRAQVLSLYRAMLRESKRFSAYNYRTYAVRRIRDAFRENKNVKDPVEIQTLVNKAKR 61

Query:    67 QLAIAKRQAVVYSL 80
              L + +RQ   +S+
Sbjct:    62 DLGVIRRQMDSHSV 75

GO:0005739 "mitochondrion" evidence=IEA

ASPGD|ASPL0000074347 AN10584 [Emericella nidulans (taxid:162425)]

 Score = 110 (43.8 bits), Expect = 1.6e-06, P = 1.6e-06
 Identities = 22/55 (40%), Positives = 30/55 (54%)

Query:    27 EFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYSLY 81
             +F +YN REY  RR  D FRE+Q+ ++   I     EG   L + KRQ V+   Y
Sbjct:    28 QFSNYNFREYALRRTKDAFREHQHESEERKIQELIQEGLQSLRMMKRQTVISQFY 82

GO:0016226 "iron-sulfur cluster assembly" evidence=IEA

GO:0008047 "enzyme activator activity" evidence=IEA

GO:0005759 "mitochondrial matrix" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0031314 "extrinsic to mitochondrial inner membrane" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

DICTYBASE|DDB_G0290725 lyrm4 "LYR motif-containing protein 4" [Dictyostelium discoideum (taxid:44689)]

 Score = 104 (41.7 bits), Expect = 7.0e-06, P = 7.0e-06
 Identities = 24/64 (37%), Positives = 34/64 (53%)

Query:    27 EFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYSLYAPKVK 86
             +F  YN REY+ RR   GFREN+N  D         +    L + KRQA + S+Y+   K
Sbjct:    20 KFSSYNFREYSLRRVSVGFRENKN-KDQNETKELIQDALKNLEMVKRQAFINSMYSTN-K 77

Query:    87 SIME 90
              ++E
Sbjct:    78 LVVE 81

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

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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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q0VCG0	LYRM4_BOVIN	No assigned EC number	0.3977	0.8888	0.9670	yes	no
B5FZA8	LYRM4_TAEGU	No assigned EC number	0.4285	0.8383	0.9325	yes	no
Q8K215	LYRM4_MOUSE	No assigned EC number	0.3977	0.8888	0.9670	yes	no
B8JLQ0	LYRM4_DANRE	No assigned EC number	0.3372	0.8585	0.9550	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	estExt_fgenesh4_pm.C_LG_IX0399	SubName- Full=Putative uncharacterized protein; (92 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	estExt_Genewise1_v1.C_LG_VII0255	cysteine desulfurase/transaminase (EC-2.8.1.7) (452 aa)					•		•		0.811
	estExt_Genewise1_v1.C_LG_XIII0069	hypothetical protein (192 aa)					•		•		0.447

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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	99
pfam13232	61	pfam13232, Complex1_LYR_1, Complex1_LYR-like	9e-19
pfam05347	59	pfam05347, Complex1_LYR, Complex 1 protein (LYR fa	1e-18

>gnl|CDD|221996 pfam13232, Complex1_LYR_1, Complex1_LYR-like

 Score = 72.6 bits (179), Expect = 9e-19
 Identities = 36/60 (60%), Positives = 43/60 (71%)

Query: 13 EILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAK 72
          E+L LYR LLRAAR+F DYN REY +RR  D FR+N++LTDPE I     EGK QL + K
Sbjct: 2  EVLSLYRQLLRAARKFPDYNFREYIRRRIRDEFRKNKDLTDPEKIEKLLKEGKKQLELLK 61

This is a family of proteins carrying the LYR motif of family Complex1_LYR, pfam05347, likely to be involved in Fe-S cluster biogenesis in mitochondria. Length = 61

>gnl|CDD|203236 pfam05347, Complex1_LYR, Complex 1 protein (LYR family)

 Score = 72.3 bits (178), Expect = 1e-18
 Identities = 35/58 (60%), Positives = 42/58 (72%)

Query: 13 EILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAI 70
          E+L LYR LLR AR+F DYN REY +RR  D FR+N+NLTDPE I +   EGK QL +
Sbjct: 2  EVLSLYRQLLREARKFPDYNAREYFRRRIRDEFRKNKNLTDPEKIEALLKEGKKQLEV 59

Proteins in this family have been identified as a component of the higher eukaryotic NADH complex. In Saccharomyces cerevisiae, the Isd11 protein has been shown to play a role in Fe/S cluster biogenesis in mitochondria. We have named this family LYR after a highly conserved tripeptide motif close to the N-terminus of these proteins. Length = 59

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	99
KOG3801	94	consensus Uncharacterized conserved protein BCN92	99.96
PF13232	61	Complex1_LYR_1: Complex1_LYR-like	99.78
PF05347	59	Complex1_LYR: Complex 1 protein (LYR family); Inte	99.72
KOG4620	80	consensus Uncharacterized conserved protein [Funct	99.22
KOG3426	124	consensus NADH:ubiquinone oxidoreductase, NDUFA6/B	99.08
KOG3466	157	consensus NADH:ubiquinone oxidoreductase, NDUFB9/B	98.46
KOG4100	125	consensus Uncharacterized conserved protein [Funct	98.34
PF13233	104	Complex1_LYR_2: Complex1_LYR-like	98.24
PF04716	57	ETC_C1_NDUFA5: ETC complex I subunit conserved reg	96.03

>KOG3801 consensus Uncharacterized conserved protein BCN92 [RNA processing and modification]

Probab=99.96  E-value=7e-29  Score=157.25  Aligned_cols=88  Identities=42%  Similarity=0.701  Sum_probs=84.1

Q ss_pred             CCcchHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 034275            6 QAAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYSLYAPKV   85 (99)
Q Consensus         6 ms~~~r~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lkrq~~i~~~y~~~~   85 (99)
                      |+++++++|++|||.+||++++||+||+|+|+.+++|+.|++|++++||.+|..++++|+++|+.++||++|+.||+. +
T Consensus         1 ~~~~sr~qvlsLyr~~lr~s~qfp~YNyReY~~RrtRD~Fr~Nkn~~Dp~e~~~l~~eakk~LevikRQ~ii~~lY~~-~   79 (94)
T KOG3801|consen    1 PQMVSRRQVLSLYRNLLRESKQFPQYNYREYFQRRTRDTFRANKNVCDPAEIKKLYKEAKKQLEVIKRQSIIGQLYPK-D   79 (94)
T ss_pred             CCcccHHHHHHHHHHHHHHHhhCCcccHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhccC-c
Confidence            356789999999999999999999999999999999999999999999999999999999999999999999999998 9


Q ss_pred             cceeeccCC
Q 034275           86 KSIMELENP   94 (99)
Q Consensus        86 ~~vve~~~~   94 (99)
                      |+|||.+..
T Consensus        80 klIvE~k~~   88 (94)
T KOG3801|consen   80 KLIVEVKKK   88 (94)
T ss_pred             ceeeecccc
Confidence            999997643

>PF13232 Complex1_LYR_1: Complex1_LYR-like

Probab=99.78  E-value=9.9e-19  Score=103.83  Aligned_cols=61  Identities=48%  Similarity=0.851  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHH
Q 034275           12 PEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAK   72 (99)
Q Consensus        12 ~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lk   72 (99)
                      ++||+|||++||+++.||++++++|++++||+.|+.|++++||++|+.++++|+..|+.|+
T Consensus         1 ~~vL~LYR~lLR~~~~~~~~~~r~~~~~~ir~~Fr~~~~~td~~~i~~~l~~~~~~L~~l~   61 (61)
T PF13232_consen    1 QQVLSLYRQLLREASKFPDYNFRSYFRRRIRDRFRRNKNVTDPEKIAKLLKEGRKELELLR   61 (61)
T ss_pred             ChHHHHHHHHHHHhhhcCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHcC
Confidence            3799999999999999999999999999999999999999999999999999999998873

>PF05347 Complex1_LYR: Complex 1 protein (LYR family); InterPro: IPR008011 This family of short proteins includes proteins from the NADH-ubiquinone oxidoreductase complex I

Probab=99.72  E-value=2.3e-17  Score=96.81  Aligned_cols=58  Identities=45%  Similarity=0.715  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHH
Q 034275           12 PEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLA   69 (99)
Q Consensus        12 ~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~   69 (99)
                      ++||+|||.+||+++.||+++.+.+++..||++|++|++++||.+|+.+++.|+..|+
T Consensus         1 q~vl~LYR~lLR~~~~~~~~~~r~~~~~~iR~~Fr~n~~~~d~~~I~~~l~~g~~~l~   58 (59)
T PF05347_consen    1 QRVLSLYRQLLRAARSFPDDSEREYIRAEIRQEFRKNRNETDPEKIEELLKKGEEELE   58 (59)
T ss_pred             ChHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhc
Confidence            4799999999999999999889999999999999999999999999999999999886

The family includes the B14 subunit from bovine NADH-ubiquinone oxidoreductase B14 subunit Q02366 from SWISSPROT, and the B22 subunit from the human enzyme Q9Y6M9 from SWISSPROT. The family has been named LYR after a highly conserved tripeptide motif close to the N terminus of these proteins. Members of this family also found in yeast which do contain this complex. In these organisms they are believed to be be required for iron-sulphur custer biogenesis.

>KOG4620 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.22  E-value=8.8e-11  Score=72.06  Aligned_cols=66  Identities=27%  Similarity=0.325  Sum_probs=58.0

Q ss_pred             cchHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCC--CCHHHHHHHHHHHHHHHHHHHHH
Q 034275            8 APIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNL--TDPESISSAYAEGKNQLAIAKRQ   74 (99)
Q Consensus         8 ~~~r~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~--tD~~~I~~ll~~g~~~L~~lkrq   74 (99)
                      ...+++||+|||.+||+|+.-|..+ ...|...|+++|++|.++  +|.-.|+.|+..|+.+++.+.+.
T Consensus         5 SgLQrqVlhlYR~~lraa~~Kp~~~-~~~~m~fvh~EFrk~~~lpr~Df~~IEhLlRvG~rq~~~~s~p   72 (80)
T KOG4620|consen    5 SGLQRQVLHLYRDLLRAARGKPGAE-ARRWMAFVHAEFRKHAGLPRSDFLRIEHLLRVGRRQLQLLSSP   72 (80)
T ss_pred             hHHHHHHHHHHHHHHHHhcCCCchH-HHHHHHHHHHHHHHhcCCcHhHHHHHHHHHHHhHHHHHHhcCc
Confidence            4678999999999999999999655 456777999999999998  58999999999999999988654

>KOG3426 consensus NADH:ubiquinone oxidoreductase, NDUFA6/B14 subunit [Energy production and conversion]

Probab=99.08  E-value=5.5e-10  Score=73.82  Aligned_cols=82  Identities=28%  Similarity=0.440  Sum_probs=68.6

Q ss_pred             CCCCCC---cchHHHHHHHHHHHHHHHhccC-Chh----HHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHH--
Q 034275            2 VSPGQA---APIRPEILGLYRALLRAAREFR-DYN----VREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIA--   71 (99)
Q Consensus         2 ~~~~ms---~~~r~~vl~LYR~lLR~ar~~~-~~~----~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~l--   71 (99)
                      |-|.-|   ...|.+|+.|||...|....+- +++    .-..++..||++|++|.++|||..|..|+-+|..+|+.+  
T Consensus        11 v~Pi~S~n~~EARrrvl~~yra~~R~iP~~~~dy~L~dm~~~~~R~~ir~qf~kn~hvTD~rViDlLV~kg~~elkeiv~   90 (124)
T KOG3426|consen   11 VVPINSANLTEARRRVLDLYRAWYRSIPTIVDDYNLQDMTVSQLRDKIREQFRKNAHVTDPRVIDLLVIKGMEELKEIVD   90 (124)
T ss_pred             cCCCccCcHHHHHHHHHHHHHHHHHhcChHHHhcCCcccCHHHHHHHHHHHHHhcCCcCCchhhhHHHHhhHHHHHHHHH
Confidence            445555   4679999999999999998743 444    357789999999999999999999999999999999876  


Q ss_pred             --HHHHHHHhhcCC
Q 034275           72 --KRQAVVYSLYAP   83 (99)
Q Consensus        72 --krq~~i~~~y~~   83 (99)
                        +.-.+|.+.|..
T Consensus        91 ~~kqr~Him~y~f~  104 (124)
T KOG3426|consen   91 HWKQRHHIMRYYFT  104 (124)
T ss_pred             HHhCchHHHHHhhc
Confidence              677788888755

>KOG3466 consensus NADH:ubiquinone oxidoreductase, NDUFB9/B22 subunit [Energy production and conversion]

Probab=98.46  E-value=7.3e-07  Score=61.07  Aligned_cols=64  Identities=22%  Similarity=0.276  Sum_probs=57.5

Q ss_pred             cchHHHHHHHHHHHHHHHhccCCh-hHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHH
Q 034275            8 APIRPEILGLYRALLRAAREFRDY-NVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAK   72 (99)
Q Consensus         8 ~~~r~~vl~LYR~lLR~ar~~~~~-~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lk   72 (99)
                      .+++++|++|||.+||....|... |.-.|+.-.||..|.+|++ +|..++..||.+|+.+|...+
T Consensus        10 lshkqkV~rLYKRaLR~lenWy~~rn~yRy~ac~~RARFden~~-kD~~k~~~LLa~ge~E~w~~r   74 (157)
T KOG3466|consen   10 LSHKQKVRRLYKRALRDLENWYVHRNIYRYQACIIRARFDENDE-KDVDKAIRLLAEGERELWEWR   74 (157)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHhhhhhh-hhHHHHHHHHHHHHHHHHhhc
Confidence            578999999999999999998743 5567888899999999999 999999999999999998774

>KOG4100 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.34  E-value=5.8e-06  Score=54.90  Aligned_cols=77  Identities=17%  Similarity=0.231  Sum_probs=65.7

Q ss_pred             CCCcchHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 034275            5 GQAAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYSLYAP   83 (99)
Q Consensus         5 ~ms~~~r~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lkrq~~i~~~y~~   83 (99)
                      +|..-+...|--|||.+||.-+-.|. ..|..--+++|++|+.|+++ +|..+.-++.+.+.....|..|.-+++.+..
T Consensus         3 ~~~~~~p~rvrlLYkriLrlHr~lp~-~~R~lGD~YVkdEFrrHk~v-np~~~~~FlteW~~Ya~~l~qql~~~g~~K~   79 (125)
T KOG4100|consen    3 ASQLLHPPRVRLLYKRILRLHRGLPA-ELRALGDQYVKDEFRRHKTV-NPLEAQGFLTEWERYAVALSQQLSSAGKWKG   79 (125)
T ss_pred             ccccCCcchHHHHHHHHHHHHccCCh-HHHHHHHHHHHHHHHHhccC-ChHHHHHHHHHHHHHHHHHHHHhhhcCcccc
Confidence            34455667777799999999999995 66777778999999999999 9999999999999999999998887777655

>PF13233 Complex1_LYR_2: Complex1_LYR-like

Probab=98.24  E-value=9e-06  Score=52.31  Aligned_cols=66  Identities=24%  Similarity=0.286  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHHHhccCChhHH-------HHHHHHH----HHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034275           14 ILGLYRALLRAAREFRDYNVR-------EYTKRRA----IDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYS   79 (99)
Q Consensus        14 vl~LYR~lLR~ar~~~~~~~r-------~~~~~~i----R~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lkrq~~i~~   79 (99)
                      |++|||.+||+.+.++.....       ..+..+|    +++|+.+++.+++......+.+++.-+..|+.|..-..
T Consensus         1 V~~lYR~lLRel~~~~~~~~~~~~~~~~~~~~~~v~~~~~~ef~~~~~~~~~~~~~~~~~~~~~y~~~L~~qr~y~e   77 (104)
T PF13233_consen    1 VLSLYRSLLRELRRYPRRSKIHQLKAPRSPGDQYVLEQARAEFRRHKSANDEEEAQEFLQEWENYATFLKNQREYKE   77 (104)
T ss_pred             ChHHHHHHHHHHHhhcchhhhhhhhchhHHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            689999999999998753321       5677788    99999999999999999999999999999998886543

>PF04716 ETC_C1_NDUFA5: ETC complex I subunit conserved region; InterPro: IPR006806 This is a family of eukaryotic NADH-ubiquinone oxidoreductase subunits (1

Probab=96.03  E-value=0.057  Score=31.64  Aligned_cols=52  Identities=21%  Similarity=0.324  Sum_probs=46.4

Q ss_pred             hHHHHHHHHHHHHHHHhccCC-hhHHHHHHHHHHHHHhhcCCCCCHHHHHHHH
Q 034275           10 IRPEILGLYRALLRAAREFRD-YNVREYTKRRAIDGFRENQNLTDPESISSAY   61 (99)
Q Consensus        10 ~r~~vl~LYR~lLR~ar~~~~-~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll   61 (99)
                      .+.....||.++|+.-..+|. ..+|.+.-..+++.+.--+...|.++|+..+
T Consensus         3 pr~~L~~lY~~~L~~L~~~P~~a~YR~~tE~it~~Rl~iv~~~~d~~~iE~~i   55 (57)
T PF04716_consen    3 PREALISLYNKTLKALKKIPEDAAYRQYTEAITKHRLKIVEEEEDIEKIEKKI   55 (57)
T ss_pred             hHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHccccHHHHHHHh
Confidence            577889999999999999994 4599999999999999999999999998765

6.5.3 from EC) (1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 29.9 kDa protein. The conserved region is found at the N terminus of the member proteins [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022904 respiratory electron transport chain, 0005743 mitochondrial inner membrane

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	99
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 36.8 bits (84), Expect = 4e-04
 Identities = 10/71 (14%), Positives = 23/71 (32%), Gaps = 13/71 (18%)

Query: 4   PGQAAPIRPEILGLYRALLR--AAR--EFRDYNVREYTKRRAIDGFRENQNLTDPESISS 59
           P +     P  L +    +R   A    ++  N  + T    I+         +P     
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLT--TIIESSLNVL---EPAEYRK 373

Query: 60  AYAEGKNQLAI 70
            +    ++L++
Sbjct: 374 MF----DRLSV 380

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	99
4b6x_A	90	AVRRPS4, avirulence protein; toxin, type 3 secrete	85.53

>4b6x_A AVRRPS4, avirulence protein; toxin, type 3 secreted effector; 2.20A {Pseudomonas syringae PV}

Probab=85.53  E-value=3.3  Score=25.21  Aligned_cols=47  Identities=15%  Similarity=0.248  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHhhcCCCCCHHHHH---HHHHHHHHHHHHHHHHHHHHh
Q 034275           33 VREYTKRRAIDGFRENQNLTDPESIS---SAYAEGKNQLAIAKRQAVVYS   79 (99)
Q Consensus        33 ~r~~~~~~iR~~Fr~nk~~tD~~~I~---~ll~~g~~~L~~lkrq~~i~~   79 (99)
                      ..+-+.+.++++..+-.++-+|..|.   .+|..|+.+|..+.++..|.+
T Consensus        33 DKQ~~i~~Lt~eLq~A~~eaNpaeIA~~~~~L~qAraDL~~l~r~~av~g   82 (90)
T 4b6x_A           33 DKQLMVNNLTDELQDAIDEANPAEIANTSQQLRHARADLADLQRRFAVLR   82 (90)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHccCHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            35567888999999999999999885   689999999999999988753

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Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00