Citrus Sinensis ID: 034224

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-
Protein Sequence
MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFKFKV
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccccHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDeyvqrmtfdSYLYKKLaegsrfqdVKMVMKTIGSFMRCNIVGREMEAFKFKV
Flexible Loop (DISEMBL)
misesdlkreylrkwdDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLaegsrfqdVKMVMKTIGSFMRCNIVGREMEAFKFKV
Low Complexity Region (SEG)
MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFKFKV
Disordered region (IsUnstruct)
*********EYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREME******
Disordered Region (DISOPRED)
*******KREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGRE********
Disordered Region (DISEMBL)
MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFKFKV
Disordered Region (DISPRO)
*ISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAF*F**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFKFKV
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	101	2.2.26 [Sep-21-2011]
Q9CA67	467	Geranylgeranyl diphosphat	yes	no	0.930	0.201	0.621	4e-29
Q9ZS34	464	Geranylgeranyl diphosphat	N/A	no	0.930	0.202	0.6	2e-28
Q6Z2T6	463	Geranylgeranyl diphosphat	no	no	0.930	0.203	0.557	4e-25
Q55087	407	Geranylgeranyl diphosphat	N/A	no	0.841	0.208	0.5	6e-19
P26172	391	Geranylgeranyl diphosphat	yes	no	0.643	0.166	0.353	7e-06

>sp|Q9CA67|CHLP_ARATH Geranylgeranyl diphosphate reductase, chloroplastic OS=Arabidopsis thaliana GN=CHLP PE=1 SV=1

 Score =  126 bits (316), Expect = 4e-29,   Method: Composition-based stats.
 Identities = 59/95 (62%), Positives = 73/95 (76%), Gaps = 1/95 (1%)

Query: 1   MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
           MI E DL R+YL KWD  YL TYR LD+LQ+VFY SN  REA VE+C DEYVQ+MTFDSY
Sbjct: 370 MIDEGDL-RKYLEKWDKTYLPTYRVLDVLQKVFYRSNPAREAFVEMCNDEYVQKMTFDSY 428

Query: 61  LYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREME 95
           LYK++A GS  +D+K+ + TIGS +R N + RE+E
Sbjct: 429 LYKRVAPGSPLEDIKLAVNTIGSLVRANALRREIE 463

Catalyzes the reduction of geranylgeranyl diphosphate to phytyl diphosphate, providing phytol for both tocopherol and chlorophyll synthesis.
Arabidopsis thaliana (taxid: 3702)
EC: 1EC: .EC: 3EC: .EC: 1EC: .EC: 8EC: 3

>sp|Q9ZS34|CHLP_TOBAC Geranylgeranyl diphosphate reductase, chloroplastic OS=Nicotiana tabacum GN=CHLP PE=2 SV=1

 Score =  124 bits (310), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 57/95 (60%), Positives = 73/95 (76%), Gaps = 1/95 (1%)

Query: 1   MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
           M+ ESDL R+YL KWD  Y  TY+ LD+LQ+VFY SN  REA VE+C DEYVQ+MTFDSY
Sbjct: 367 MVDESDL-RKYLEKWDKTYWPTYKVLDILQKVFYRSNPAREAFVEMCADEYVQKMTFDSY 425

Query: 61  LYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREME 95
           LYKK+A G+  +D+K+ + TIGS +R N + REM+
Sbjct: 426 LYKKVAPGNPIEDLKLAVNTIGSLVRANALRREMD 460

Catalyzes the reduction of geranylgeranyl diphosphate to phytyl diphosphate, providing phytol for both tocopherol and chlorophyll synthesis.

Nicotiana tabacum (taxid: 4097)

EC: 1

EC: .

EC: 3

EC: .

EC: 1

EC: .

EC: 8

EC: 3

>sp|Q6Z2T6|CHLP_ORYSJ Geranylgeranyl diphosphate reductase, chloroplastic OS=Oryza sativa subsp. japonica GN=CHLP PE=2 SV=1

 Score =  112 bits (281), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 53/95 (55%), Positives = 70/95 (73%), Gaps = 1/95 (1%)

Query: 1   MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
           M+ ESDL+R YL ++D  Y  TY+ LD+LQ+VFY SN  REA VE+C D+YVQRMTFDSY
Sbjct: 366 MVEESDLRR-YLAEFDRLYWPTYKVLDVLQKVFYRSNAAREAFVEMCADDYVQRMTFDSY 424

Query: 61  LYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREME 95
           LYK++  G+   D+K+ + TIGS +R   + REME
Sbjct: 425 LYKRVVPGNPLDDIKLAVNTIGSLVRATALRREME 459

Catalyzes the reduction of geranylgeranyl diphosphate to phytyl diphosphate, providing phytol for both tocopherol and chlorophyll synthesis.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 1

EC: .

EC: 3

EC: .

EC: 1

EC: .

EC: 8

EC: 3

>sp|Q55087|CHLP_SYNY3 Geranylgeranyl diphosphate reductase OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=chlP PE=3 SV=1

 Score = 92.8 bits (229), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 43/86 (50%), Positives = 60/86 (69%), Gaps = 1/86 (1%)

Query: 3   SESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLY 62
           +E+DLK +Y+++WD  Y  TY  LD+LQRVFY ++  REA VE+C D  VQ++TFDSYLY
Sbjct: 319 TEADLK-QYIKQWDKRYGATYLVLDILQRVFYRTDATREAFVEMCSDIDVQKLTFDSYLY 377

Query: 63  KKLAEGSRFQDVKMVMKTIGSFMRCN 88
           K +   +    +K+  KTIGS +R N
Sbjct: 378 KTVVPANPLVQMKITAKTIGSLLRGN 403

Catalyzes the stepwise hydrogenation of geranylgeraniol to phytol during chlorophyll A (ChlA) biosynthesis.

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

EC: 1

EC: .

EC: 3

EC: .

EC: 1

EC: .

EC: 8

EC: 3

>sp|P26172|BCHP_RHOCB Geranylgeranyl diphosphate reductase OS=Rhodobacter capsulatus (strain ATCC BAA-309 / NBRC 16581 / SB1003) GN=bchP PE=3 SV=1

 Score = 49.3 bits (116), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 23/65 (35%), Positives = 39/65 (60%)

Query: 18  EYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLAEGSRFQDVKMV 77
           E+   ++ L ++Q  +Y S+  RE  V LC D  VQRMTF+SY+ KK+ +    +++K+ 
Sbjct: 316 EHGTVFKVLRMMQDKYYHSDDRRERFVSLCHDVDVQRMTFESYMNKKMTKFQPLKNLKIG 375

Query: 78  MKTIG 82
            K + 
Sbjct: 376 FKNLA 380

Catalyzes the stepwise hydrogenation of geranylgeraniol to phytol during bacteriochlorophyll A (BchlA) biosynthesis.

Rhodobacter capsulatus (strain ATCC BAA-309 / NBRC 16581 / SB1003) (taxid: 272942)

EC: 1

EC: .

EC: 3

EC: .

EC: 1

EC: .

EC: 8

EC: 3

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	101
224102913	454	predicted protein [Populus trichocarpa]	0.980	0.218	0.777	6e-43
255561256	451	geranylgeranyl hydrogenase, putative [Ri	0.970	0.217	0.795	4e-42
224132246	451	predicted protein [Populus trichocarpa]	0.980	0.219	0.767	3e-41
225435999	466	PREDICTED: geranylgeranyl diphosphate re	0.970	0.210	0.693	5e-37
357493579	450	Geranylgeranyl reductase [Medicago trunc	0.960	0.215	0.711	3e-35
296083961	289	unnamed protein product [Vitis vinifera]	0.920	0.321	0.688	1e-33
356501334	448	PREDICTED: geranylgeranyl diphosphate re	0.960	0.216	0.670	1e-32
242052533	445	hypothetical protein SORBIDRAFT_03g01034	0.960	0.217	0.567	2e-31
414876947	445	TPA: hypothetical protein ZEAMMB73_34125	0.960	0.217	0.556	6e-31
326526579	447	predicted protein [Hordeum vulgare subsp	0.960	0.217	0.546	2e-30

>gi|224102913|ref|XP_002312852.1| predicted protein [Populus trichocarpa] gi|222849260|gb|EEE86807.1| predicted protein [Populus trichocarpa]

 Score =  177 bits (449), Expect = 6e-43,   Method: Composition-based stats.
 Identities = 77/99 (77%), Positives = 89/99 (89%)

Query: 1   MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
           M+SE DL+REYLR+WD++Y+ T+RFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY
Sbjct: 356 MVSEEDLRREYLREWDNKYVNTFRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 415

Query: 61  LYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFKF 99
           LYKK+A G R+ DVK+V+ T GSFMRC +VGREMEA K 
Sbjct: 416 LYKKMASGDRWDDVKLVLNTFGSFMRCKVVGREMEALKL 454

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561256|ref|XP_002521639.1| geranylgeranyl hydrogenase, putative [Ricinus communis] gi|223539151|gb|EEF40746.1| geranylgeranyl hydrogenase, putative [Ricinus communis]

 Score =  174 bits (442), Expect = 4e-42,   Method: Composition-based stats.
 Identities = 78/98 (79%), Positives = 88/98 (89%)

Query: 1   MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
           M+SE DLKREYLR+WD++Y+ T+RFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY
Sbjct: 353 MVSEEDLKREYLREWDNKYVNTFRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 412

Query: 61  LYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFK 98
           LYKKLA G R++DVKMV+ T GS +RC IVGREME  K
Sbjct: 413 LYKKLAGGDRWEDVKMVLNTFGSLVRCRIVGREMEGLK 450

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224132246|ref|XP_002328221.1| predicted protein [Populus trichocarpa] gi|224147708|ref|XP_002336528.1| predicted protein [Populus trichocarpa] gi|222835866|gb|EEE74287.1| predicted protein [Populus trichocarpa] gi|222837736|gb|EEE76101.1| predicted protein [Populus trichocarpa]

 Score =  172 bits (435), Expect = 3e-41,   Method: Composition-based stats.
 Identities = 76/99 (76%), Positives = 87/99 (87%)

Query: 1   MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
           MISE DLKREYLR+WD +Y+ T+RFLDLLQ+VFYGS+VGREALVELCGDEYVQRMTFDSY
Sbjct: 353 MISEEDLKREYLREWDRKYVNTFRFLDLLQKVFYGSDVGREALVELCGDEYVQRMTFDSY 412

Query: 61  LYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFKF 99
           LYKKLA G R+ DVK+V+ T GS MRC ++GREMEA K 
Sbjct: 413 LYKKLATGDRWGDVKLVLNTFGSLMRCKVLGREMEALKL 451

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225435999|ref|XP_002273133.1| PREDICTED: geranylgeranyl diphosphate reductase, chloroplastic [Vitis vinifera]

 Score =  158 bits (399), Expect = 5e-37,   Method: Composition-based stats.
 Identities = 68/98 (69%), Positives = 83/98 (84%)

Query: 1   MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
           MISE DL+REYL++WD +YL+TYR LDLL RVFYGSN  REALVELCG+EYVQRMTF+SY
Sbjct: 368 MISEEDLRREYLKEWDGKYLVTYRLLDLLHRVFYGSNAAREALVELCGNEYVQRMTFESY 427

Query: 61  LYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFK 98
           LYK+LAEG  ++D KMV  T GS +RC IVGR+++A +
Sbjct: 428 LYKRLAEGDGWEDAKMVFNTFGSLIRCKIVGRDVQALR 465

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357493579|ref|XP_003617078.1| Geranylgeranyl reductase [Medicago truncatula] gi|355518413|gb|AET00037.1| Geranylgeranyl reductase [Medicago truncatula]

 Score =  152 bits (384), Expect = 3e-35,   Method: Composition-based stats.
 Identities = 69/97 (71%), Positives = 78/97 (80%)

Query: 1   MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
           MI+E DL REYL++WD +Y+ T+RFLDLLQRVFYGSN  REALVELCGDEYVQRMTFDSY
Sbjct: 352 MINECDLMREYLKEWDAKYVNTFRFLDLLQRVFYGSNASREALVELCGDEYVQRMTFDSY 411

Query: 61  LYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAF 97
           LYKKLA G    DVK+ M TIGS +RCN VG  M+  
Sbjct: 412 LYKKLAHGRVCDDVKLFMNTIGSLIRCNDVGTRMKGL 448

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296083961|emb|CBI24349.3| unnamed protein product [Vitis vinifera]

 Score =  146 bits (369), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 64/93 (68%), Positives = 79/93 (84%)

Query: 6   DLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKL 65
           DL+REYL++WD +YL+TYR LDLL RVFYGSN  REALVELCG+EYVQRMTF+SYLYK+L
Sbjct: 196 DLRREYLKEWDGKYLVTYRLLDLLHRVFYGSNAAREALVELCGNEYVQRMTFESYLYKRL 255

Query: 66  AEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFK 98
           AEG  ++D KMV  T GS +RC IVGR+++A +
Sbjct: 256 AEGDGWEDAKMVFNTFGSLIRCKIVGRDVQALR 288

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356501334|ref|XP_003519480.1| PREDICTED: geranylgeranyl diphosphate reductase, chloroplastic-like [Glycine max]

 Score =  143 bits (361), Expect = 1e-32,   Method: Composition-based stats.
 Identities = 65/97 (67%), Positives = 74/97 (76%)

Query: 1   MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
           MI E DL+REYL+ WD EY  T+RFLDLLQRVFYGSN  REALVELCGDEYVQRMTF+SY
Sbjct: 350 MIDECDLRREYLKPWDAEYANTFRFLDLLQRVFYGSNACREALVELCGDEYVQRMTFESY 409

Query: 61  LYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAF 97
           LYKKLA G      K+ M T+GS +R  +V   ME+F
Sbjct: 410 LYKKLARGRVLDHAKLFMNTLGSLVRSKVVQTSMESF 446

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242052533|ref|XP_002455412.1| hypothetical protein SORBIDRAFT_03g010340 [Sorghum bicolor] gi|241927387|gb|EES00532.1| hypothetical protein SORBIDRAFT_03g010340 [Sorghum bicolor]

 Score =  139 bits (350), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 55/97 (56%), Positives = 79/97 (81%)

Query: 2   ISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYL 61
           ++E+ L+R YLR+WDDE+L+ +RFLDLLQRVFYG N GREALVE+C DEYVQR TF+SYL
Sbjct: 343 VTEAGLRRGYLRRWDDEFLLMFRFLDLLQRVFYGGNAGREALVEMCADEYVQRRTFESYL 402

Query: 62  YKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFK 98
           YK++  G  + D++++ +T+ S +RC ++GRE+E  +
Sbjct: 403 YKRMVPGEPWGDLRLLWRTVASMVRCGVIGREVERLR 439

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414876947|tpg|DAA54078.1| TPA: hypothetical protein ZEAMMB73_341253 [Zea mays]

 Score =  137 bits (346), Expect = 6e-31,   Method: Composition-based stats.
 Identities = 54/97 (55%), Positives = 79/97 (81%)

Query: 2   ISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYL 61
           ++E+ L+R YLR+WDDE+L+ +RFLDLLQRVFYG N GREALVE+C D+YVQR TF+SYL
Sbjct: 343 VTEAGLRRGYLRRWDDEFLLMFRFLDLLQRVFYGGNAGREALVEMCSDDYVQRRTFESYL 402

Query: 62  YKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFK 98
           YK++  G  + D++++ +T+ S +RC ++GRE+E  +
Sbjct: 403 YKRMVPGEPWGDLRLLWRTVASMVRCGVIGREVERLR 439

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326526579|dbj|BAJ97306.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  135 bits (341), Expect = 2e-30,   Method: Composition-based stats.
 Identities = 53/97 (54%), Positives = 80/97 (82%)

Query: 2   ISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYL 61
           ++E  ++R YLR+WDDE+L+T+RFLDLLQRVFYG N GREALVE+C DE+VQR TFD YL
Sbjct: 344 VTEGGIRRGYLRRWDDEFLLTFRFLDLLQRVFYGDNAGREALVEMCADEHVQRRTFDCYL 403

Query: 62  YKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFK 98
           +K++A G  + D++++ +T GS +RC+++G+E++  +
Sbjct: 404 HKRMAPGEPWADLQLLWRTAGSMVRCSVLGKEVQRLR 440

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

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	101
TAIR|locus:2019165	467	AT1G74470 [Arabidopsis thalian	0.930	0.201	0.621	8.4e-28
UNIPROTKB|Q9ZS34	464	CHLP "Geranylgeranyl diphospha	0.930	0.202	0.6	4.1e-27

TAIR|locus:2019165 AT1G74470 [Arabidopsis thaliana (taxid:3702)]

 Score = 312 (114.9 bits), Expect = 8.4e-28, P = 8.4e-28
 Identities = 59/95 (62%), Positives = 73/95 (76%)

Query:     1 MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
             MI E DL R+YL KWD  YL TYR LD+LQ+VFY SN  REA VE+C DEYVQ+MTFDSY
Sbjct:   370 MIDEGDL-RKYLEKWDKTYLPTYRVLDVLQKVFYRSNPAREAFVEMCNDEYVQKMTFDSY 428

Query:    61 LYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREME 95
             LYK++A GS  +D+K+ + TIGS +R N + RE+E
Sbjct:   429 LYKRVAPGSPLEDIKLAVNTIGSLVRANALRREIE 463

GO:0008152 "metabolic process" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0015979 "photosynthesis" evidence=IEA

GO:0015995 "chlorophyll biosynthetic process" evidence=IEA;IDA

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0016628 "oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor" evidence=IEA

GO:0045550 "geranylgeranyl reductase activity" evidence=IEA;IDA

GO:0051188 "cofactor biosynthetic process" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009534 "chloroplast thylakoid" evidence=IDA

GO:0019344 "cysteine biosynthetic process" evidence=RCA

GO:0019684 "photosynthesis, light reaction" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

UNIPROTKB|Q9ZS34 CHLP "Geranylgeranyl diphosphate reductase, chloroplastic" [Nicotiana tabacum (taxid:4097)]

 Score = 306 (112.8 bits), Expect = 4.1e-27, P = 4.1e-27
 Identities = 57/95 (60%), Positives = 73/95 (76%)

Query:     1 MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
             M+ ESDL R+YL KWD  Y  TY+ LD+LQ+VFY SN  REA VE+C DEYVQ+MTFDSY
Sbjct:   367 MVDESDL-RKYLEKWDKTYWPTYKVLDILQKVFYRSNPAREAFVEMCADEYVQKMTFDSY 425

Query:    61 LYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREME 95
             LYKK+A G+  +D+K+ + TIGS +R N + REM+
Sbjct:   426 LYKKVAPGNPIEDLKLAVNTIGSLVRANALRREMD 460


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        0.327   0.141   0.413    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      101       101   0.00091  102 3  11 22  0.47    29
                                                     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:  515 (55 KB)
  Total size of DFA:  110 KB (2075 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:01
  No. of threads or processors used:  24
  Search cpu time:  11.07u 0.08s 11.15t   Elapsed:  00:00:10
  Total cpu time:  11.07u 0.08s 11.15t   Elapsed:  00:00:11
  Start:  Fri May 10 18:01:15 2013   End:  Fri May 10 18:01:26 2013

GO:0010189 "vitamin E biosynthetic process" evidence=IMP

GO:0015995 "chlorophyll biosynthetic process" evidence=IMP

GO:0033385 "geranylgeranyl diphosphate metabolic process" evidence=IMP

GO:0033521 "phytyl diphosphate biosynthetic process" evidence=IMP

GO:0045550 "geranylgeranyl reductase activity" evidence=NAS

---

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

Your Input:
	grail3.0001010701	geranylgeranyl reductase (CHL P) (EC-1.3.1.-) (454 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	gw1.XV.832.1	hypothetical protein (236 aa)						•			0.899
	gw1.VII.3333.1	annotation not avaliable (311 aa)						•			0.899
	gw1.IV.3487.1	hypothetical protein (293 aa)						•			0.899
	gw1.II.860.1	hypothetical protein (306 aa)						•			0.899
	grail3.0045022601	hypothetical protein (259 aa)						•			0.899
	grail3.0001025501	hypothetical protein (314 aa)						•			0.899
	fgenesh4_pm.C_LG_II001087	hypothetical protein (287 aa)						•			0.899
	eugene3.00012780	annotation not avaliable (326 aa)						•			0.899
	estExt_Genewise1_v1.C_570227	hypothetical protein (366 aa)						•			0.899
	estExt_fgenesh4_pg.C_LG_VI1085	hypothetical protein (392 aa)			•			•			0.851

---

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	101
PLN00093	450	PLN00093, PLN00093, geranylgeranyl diphosphate red	4e-55
TIGR02028	398	TIGR02028, ChlP, geranylgeranyl reductase	6e-40
TIGR02023	388	TIGR02023, BchP-ChlP, geranylgeranyl reductase	5e-28

>gnl|CDD|177713 PLN00093, PLN00093, geranylgeranyl diphosphate reductase; Provisional

 Score =  176 bits (448), Expect = 4e-55
 Identities = 57/98 (58%), Positives = 74/98 (75%), Gaps = 1/98 (1%)

Query: 1   MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
           M+ E+DL REYLRKWD +Y  TY+ LD+LQ+VFY SN  REA VE+C DEYVQ+MTFDSY
Sbjct: 353 MVDEADL-REYLRKWDKKYWPTYKVLDILQKVFYRSNPAREAFVEMCADEYVQKMTFDSY 411

Query: 61  LYKKLAEGSRFQDVKMVMKTIGSFMRCNIVGREMEAFK 98
           LYK++  G+   D+K+++ TIGS +R N + REME   
Sbjct: 412 LYKRVVPGNPLDDIKLLVNTIGSLVRANALRREMEKLS 449

Length = 450

>gnl|CDD|131083 TIGR02028, ChlP, geranylgeranyl reductase

 Score =  135 bits (342), Expect = 6e-40
 Identities = 51/86 (59%), Positives = 63/86 (73%), Gaps = 1/86 (1%)

Query: 1   MISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSY 60
           +  E DL   YLR+WD EY  TYR LDLLQRVFY SN GREA VE+C DE+VQ+ TFDSY
Sbjct: 314 VTEEGDLAG-YLRRWDKEYRPTYRVLDLLQRVFYRSNAGREAFVEMCADEHVQKRTFDSY 372

Query: 61  LYKKLAEGSRFQDVKMVMKTIGSFMR 86
           LYK++A      D+K++ +TIGS +R
Sbjct: 373 LYKRVAPAEPLGDLKLLWRTIGSLVR 398

This model represents the reductase which acts reduces the geranylgeranyl group to the phytyl group in the side chain of chlorophyll. It is unclear whether the enzyme has a preference for acting before or after the attachment of the side chain to chlorophyllide a by chlorophyll synthase. This clade is restricted to plants and cyanobacteria to separate it from the homologues which act in the biosynthesis of bacteriochlorophyll [Biosynthesis of cofactors, prosthetic groups, and carriers, Chlorophyll and bacteriochlorphyll]. Length = 398

>gnl|CDD|233689 TIGR02023, BchP-ChlP, geranylgeranyl reductase

 Score =  104 bits (260), Expect = 5e-28
 Identities = 38/84 (45%), Positives = 53/84 (63%), Gaps = 1/84 (1%)

Query: 3   SESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLY 62
             +DL R Y RK+   Y  T+R L +LQ V+Y S+  RE  VE+C D+ VQR+TFDSY+Y
Sbjct: 306 DATDL-RHYERKFMKLYGTTFRVLRVLQMVYYRSDRRREVFVEMCRDKDVQRLTFDSYMY 364

Query: 63  KKLAEGSRFQDVKMVMKTIGSFMR 86
           K++A       +K+  K IGS +R
Sbjct: 365 KQMAPAPWLAQLKIAAKNIGSLVR 388

This model represents a group of geranylgeranyl reductases specific for the biosyntheses of bacteriochlorophyll and chlorophyll. It is unclear whether the processes of isoprenoid ligation to the chlorin ring and reduction of the geranylgeranyl chain to a phytyl chain are necessarily ordered the same way in all species (see introduction to ) [Biosynthesis of cofactors, prosthetic groups, and carriers, Chlorophyll and bacteriochlorphyll]. Length = 388

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	101
PLN00093	450	geranylgeranyl diphosphate reductase; Provisional	99.94
TIGR02023	388	BchP-ChlP geranylgeranyl reductase. This model rep	99.86
TIGR02028	398	ChlP geranylgeranyl reductase. This model represen	99.81
PF15300	65	INT_SG_DDX_CT_C: INTS6/SAGE1/DDX26B/CT45 C-terminu	82.59

>PLN00093 geranylgeranyl diphosphate reductase; Provisional

Probab=99.94  E-value=1e-26  Score=189.21  Aligned_cols=95  Identities=58%  Similarity=1.056  Sum_probs=90.9

Q ss_pred             CHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCchhHHHHHhhhCCcchhhhhhhhhhhhhhcCCChhHHHHHHHHHHH
Q 034224            3 SESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLAEGSRFQDVKMVMKTIG   82 (101)
Q Consensus         3 te~~l~~~Ylkrf~k~yg~tf~vL~iLQ~v~Y~sd~~RE~FVemC~D~dVQrlTfdSYlyK~lv~~~p~~~~ki~~k~i~   82 (101)
                      ++++|+ .|+++|+++||+.|+++..||++||+||+.+|+||++|+|++||++||+|||+|+|++++|+.|+|++|||||
T Consensus       355 s~~~L~-~Y~~~~~~~~g~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~k~l~~~~~~~~~~~~~~~~~  433 (450)
T PLN00093        355 DEADLR-EYLRKWDKKYWPTYKVLDILQKVFYRSNPAREAFVEMCADEYVQKMTFDSYLYKRVVPGNPLDDIKLLVNTIG  433 (450)
T ss_pred             CHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHhhhhhHHHHhHHHHHHHHhhCCChHHHHHHHHHHHH
Confidence            577887 9999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Hhhhccccccchhhcc
Q 034224           83 SFMRCNIVGREMEAFK   98 (101)
Q Consensus        83 ~L~r~~al~~~~~~~~   98 (101)
                      ||+||+++++++..+.
T Consensus       434 ~~~~~~~~~~~~~~~~  449 (450)
T PLN00093        434 SLVRANALRREMEKLS  449 (450)
T ss_pred             HHHhccccCccccccC
Confidence            9999999999876553

>TIGR02023 BchP-ChlP geranylgeranyl reductase

Probab=99.86  E-value=7e-22  Score=153.60  Aligned_cols=82  Identities=45%  Similarity=0.781  Sum_probs=79.4

Q ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCchhHHHHHhhhCCcchhhhhhhhhhhhhhcCCChhHHHHHHHHHHHH
Q 034224            4 ESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLAEGSRFQDVKMVMKTIGS   83 (101)
Q Consensus         4 e~~l~~~Ylkrf~k~yg~tf~vL~iLQ~v~Y~sd~~RE~FVemC~D~dVQrlTfdSYlyK~lv~~~p~~~~ki~~k~i~~   83 (101)
                      +++|. .|+++|++.+|+.|+.+.++|+++|.||..+|+|+++|+|+|||++|++|||+|+|++.+|++|+||++|||+|
T Consensus       307 ~~~L~-~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  385 (388)
T TIGR02023       307 ATDLR-HYERKFMKLYGTTFRVLRVLQMVYYRSDRRREVFVEMCRDKDVQRLTFDSYMYKQMAPAPWLAQLKIAAKNIGS  385 (388)
T ss_pred             HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHhccccHHHhhHHHhhhhccccCChHHHHHHHHHHHHH
Confidence            45677 99999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhh
Q 034224           84 FMR   86 (101)
Q Consensus        84 L~r   86 (101)
                      |+|
T Consensus       386 ~~~  388 (388)
T TIGR02023       386 LVR  388 (388)
T ss_pred             hhC
Confidence            986

This model represents a group of geranylgeranyl reductases specific for the biosyntheses of bacteriochlorophyll and chlorophyll. It is unclear whether the processes of isoprenoid ligation to the chlorin ring and reduction of the geranylgeranyl chain to a phytyl chain are necessarily ordered the same way in all species (see introduction to ).

>TIGR02028 ChlP geranylgeranyl reductase

Probab=99.81  E-value=8.3e-20  Score=144.47  Aligned_cols=84  Identities=61%  Similarity=1.028  Sum_probs=81.3

Q ss_pred             CCHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCchhHHHHHhhhCCcchhhhhhhhhhhhhhcCCChhHHHHHHHHHH
Q 034224            2 ISESDLKREYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLAEGSRFQDVKMVMKTI   81 (101)
Q Consensus         2 ~te~~l~~~Ylkrf~k~yg~tf~vL~iLQ~v~Y~sd~~RE~FVemC~D~dVQrlTfdSYlyK~lv~~~p~~~~ki~~k~i   81 (101)
                      ++++.|+ .|+++|++.||..++....+|++||+||..+|+|+++|+|+|||+++++|||.|++++.+|+.++|.++|||
T Consensus       315 ~~~~~l~-~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  393 (398)
T TIGR02028       315 TEEGDLA-GYLRRWDKEYRPTYRVLDLLQRVFYRSNAGREAFVEMCADEHVQKRTFDSYLYKRVAPAEPLGDLKLLWRTI  393 (398)
T ss_pred             CCHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHhcCcchhhhhHHHhhhhhhhCCChHHHHHHHHHHH
Confidence            4677888 999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhh
Q 034224           82 GSFMR   86 (101)
Q Consensus        82 ~~L~r   86 (101)
                      |||+|
T Consensus       394 ~~~~~  398 (398)
T TIGR02028       394 GSLVR  398 (398)
T ss_pred             HHhhC
Confidence            99986

This model represents the reductase which acts reduces the geranylgeranyl group to the phytyl group in the side chain of chlorophyll. It is unclear whether the enzyme has a preference for acting before or after the attachment of the side chain to chlorophyllide a by chlorophyll synthase. This clade is restricted to plants and cyanobacteria to separate it from the homologues which act in the biosynthesis of bacteriochlorophyll.

>PF15300 INT_SG_DDX_CT_C: INTS6/SAGE1/DDX26B/CT45 C-terminus

Probab=82.59  E-value=1.2  Score=29.45  Aligned_cols=35  Identities=23%  Similarity=0.358  Sum_probs=30.3

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHhcCchhHHHHHhhhC
Q 034224           10 EYLRKWDDEYLMTYRFLDLLQRVFYGSNVGREALVELCG   48 (101)
Q Consensus        10 ~Ylkrf~k~yg~tf~vL~iLQ~v~Y~sd~~RE~FVemC~   48 (101)
                      ...+++-+.|..+|..|+-+|    ||-+.|..||++|=
T Consensus        13 keIRrpGr~ye~iF~lL~~vq----G~~~~r~~fv~~~I   47 (65)
T PF15300_consen   13 KEIRRPGRNYEKIFKLLEQVQ----GPLEVRKQFVEMII   47 (65)
T ss_pred             HHHHccCCcHHHHHHHHHHcc----CCHHHHHHHHHHHH
Confidence            466778888999999999888    89999999999983

---

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	101
3cgv_A	397	Geranylgeranyl reductase related protein; NP_39399	8e-12

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	101
3oz2_A	397	Digeranylgeranylglycerophospholipid reductase; str	99.0
3cgv_A	397	Geranylgeranyl reductase related protein; NP_39399	97.53

>3oz2_A Digeranylgeranylglycerophospholipid reductase; structural genomics, joint center for structural genomics; HET: MSE FAD OZ2; 1.60A {Thermoplasma acidophilum}

Probab=99.00  E-value=4.8e-10  Score=80.94  Aligned_cols=67  Identities=15%  Similarity=0.191  Sum_probs=56.1

Q ss_pred             CHHHHHHHHHHHHHHhhhhHH-HHHHHHHHHHhcCchhHHHHHhhhCCcchhhhhhhhhhhhhhcCCChh
Q 034224            3 SESDLKREYLRKWDDEYLMTY-RFLDLLQRVFYGSNVGREALVELCGDEYVQRMTFDSYLYKKLAEGSRF   71 (101)
Q Consensus         3 te~~l~~~Ylkrf~k~yg~tf-~vL~iLQ~v~Y~sd~~RE~FVemC~D~dVQrlTfdSYlyK~lv~~~p~   71 (101)
                      +++.|+ .|+++|.+.++.-+ +.+.++|.+++.||..+++|+++|.|+++|.+||++|| |+++...|-
T Consensus       321 ~~~~L~-~Ye~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-k~~~~~~p~  388 (397)
T 3oz2_A          321 SPQMMQ-KYEKLIKERFERKHLRNWVAKEKLAMLSDDTLDKLVDIVSEQVLTTISVEAIL-KAIAEKYPE  388 (397)
T ss_dssp             SHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHTTSCBCSCSHHHHH-HHHHHHCGG
T ss_pred             cHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHhHHHhhhcCHHHHH-HHHHHHCHH
Confidence            456677 89999888888755 44556778888899999999999999999999999999 778777774

---

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