Citrus Sinensis ID: 016960

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380
MNQEYTSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVFEIKREEALQLA
ccccccHHHHHHHHHccccEEEccEEEEEcccccccccHHHHHHHHHHHHHHcccccEEEEccccccHHHHHHHHHcccEEEccccccccccccccccEEEEccccccHHHHHHHHcccccEEEccccccHHHHHHHHHHHHcccEEEEEcccccccEEEEccccccEEEEEcHHHHHHHHHHcccccccccccHHHHHHHHHHHHHcccccccccccEEEEEEcccccHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHHHcccEEEEEcccccHHHHHHHHHHHHccccEEEEcccccccccccHHHHHccccHHHHHccccccccEEEEEccccccHHHHHHHHHHHHHcccccccccc
cccHHHHHHHHHHHHcccEEEcccEEEEEcccccccHHHHHHHHHHHHHHHHcccccEEEEEEEEEcHHHHHHHHHcccEEEEcccccEEccEcccccEEEEccccHHHHHHHHHHHcccEEEEcccHHHHHHHHHHHHHHccccEEEEEEccccccEEEEccccccEEEEEcHHHHHHHHHHHHcccccccccccccEEEEcccHccccccccccHHHEEEEEccccccccHHHHHHHHHHHcHHHcccHHHHHHHHcHHHHHHHHHHHHHHHHHHHHccccEEEEEccccccccHHHHHHHHHccccEEEEccHHHcccccEEEEccccccEEEEccccccccEEEEEEcccccHHHHHHHHHHHHHHHccccHHHHc
MNQEYTSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITneiihnptvNKRLEEMavqnipveegkkqfdvvnkgdvvvLPAFGAAVEEMVTLNnknvqivdttcpwvSKVWTSVekhkkgdytsiihgkysheetvataSFAGKYIIVKNMKEAEYVCDYIlggelngssstKEAFLEKFKKAVskgfdpdvdlVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVggwnssntsHLQEIaedrgipsywidsekrigpgnkIAYKLMHGElvekenwlpkgqitigitsgastpdKAVEDVLKKVFEIKREEALQLA
MNQEYTSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPveegkkqfdvvNKGDVVVLPAFGAAVEEMVTLnnknvqivdttcPWVSKVWTsvekhkkgdytsiihgkysheeTVATASFAGKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFLEKFKKAvskgfdpdvdlVKVGianqttmlkgeteeIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQeiaedrgipsywidsekriGPGNKIAYKLMHGELVEKENWLPKGQITIgitsgastpdkAVEDVLKKVFEIKREEALQLA
MNQEYTSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVFEIKREEALQLA
********IIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYVCDYILGGELNG*****EAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILV*******************GIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGA******VEDVLKKVF***********
****YTS**IKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVFEIKREEALQ**
MNQEYTSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVFEIKREEALQLA
**QEYTSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVFEIKRE******
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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiii
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MNQEYTSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVFEIKREEALQLA
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query380 2.2.26 [Sep-21-2011]
Q6AVG6459 4-hydroxy-3-methylbut-2-e yes no 1.0 0.827 0.852 0.0
Q94B35466 4-hydroxy-3-methylbut-2-e yes no 1.0 0.815 0.821 0.0
Q5N249398 4-hydroxy-3-methylbut-2-e yes no 0.965 0.922 0.613 1e-147
Q31S64398 4-hydroxy-3-methylbut-2-e yes no 0.965 0.922 0.613 1e-147
B8HWD3405 4-hydroxy-3-methylbut-2-e yes no 0.955 0.896 0.648 1e-146
B0C4N8415 4-hydroxy-3-methylbut-2-e yes no 0.989 0.906 0.612 1e-144
Q3M8X6402 4-hydroxy-3-methylbut-2-e yes no 0.976 0.922 0.618 1e-143
P58674402 4-hydroxy-3-methylbut-2-e yes no 0.976 0.922 0.618 1e-143
B1WTZ2402 4-hydroxy-3-methylbut-2-e yes no 0.976 0.922 0.652 1e-141
Q8DK29402 4-hydroxy-3-methylbut-2-e yes no 0.963 0.910 0.642 1e-141
>sp|Q6AVG6|ISPH_ORYSJ 4-hydroxy-3-methylbut-2-enyl diphosphate reductase, chloroplastic OS=Oryza sativa subsp. japonica GN=ISPH PE=2 SV=1 Back     alignment and function desciption
 Score =  681 bits (1757), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/380 (85%), Positives = 351/380 (92%)

Query: 1   MNQEYTSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWI 60
           M+QEYTSD+IK LKENG ++TWG V VKLAE+YGFCWGVERAVQIAYEARKQFP+++IW+
Sbjct: 80  MSQEYTSDVIKTLKENGNQHTWGPVTVKLAEAYGFCWGVERAVQIAYEARKQFPDDRIWL 139

Query: 61  TNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNV 120
           TNEIIHNPTVNKRLE+M VQNIPV+ G K FDVV +GDVVVLPAFGAAVEEM TLN K V
Sbjct: 140 TNEIIHNPTVNKRLEDMGVQNIPVDAGIKDFDVVEQGDVVVLPAFGAAVEEMYTLNEKKV 199

Query: 121 QIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYV 180
           QIVDTTCPWVSKVW  VEKHKKGDYTSIIHGKYSHEETVATASFAG YIIVKN+ EA YV
Sbjct: 200 QIVDTTCPWVSKVWNMVEKHKKGDYTSIIHGKYSHEETVATASFAGTYIIVKNIAEASYV 259

Query: 181 CDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLV 240
           CDYILGG+L+GSSSTKE FLEKFK AVS GFDPDVDLVKVGIANQTTMLKGETEEIGKLV
Sbjct: 260 CDYILGGQLDGSSSTKEEFLEKFKNAVSPGFDPDVDLVKVGIANQTTMLKGETEEIGKLV 319

Query: 241 EKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQ 300
           EKTMMR+FGVENVN+HFI+FNTICDATQERQDAMY++V+EKVDLILVVGGWNSSNTSHLQ
Sbjct: 320 EKTMMRRFGVENVNDHFIAFNTICDATQERQDAMYQLVKEKVDLILVVGGWNSSNTSHLQ 379

Query: 301 EIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKA 360
           EI E  GIPSYWIDSE+RIGPGNKI+YKL HGELVEKENWLP+G ITIG+TSGASTPDK 
Sbjct: 380 EIGELSGIPSYWIDSEQRIGPGNKISYKLNHGELVEKENWLPEGPITIGVTSGASTPDKV 439

Query: 361 VEDVLKKVFEIKREEALQLA 380
           VED L+KVFEIKR+E LQ A
Sbjct: 440 VEDALQKVFEIKRQEVLQAA 459
Enzyme of the plastid non-mevalonate pathway for isoprenoid biosynthesis that converts 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate into isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). Is essential for chloroplast development.
Oryza sativa subsp. japonica (taxid: 39947)
EC: 1EC: .EC: 1EC: 7EC: .EC: 1EC: .EC: 2
>sp|Q94B35|ISPH_ARATH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase, chloroplastic OS=Arabidopsis thaliana GN=ISPH PE=2 SV=1 Back     alignment and function description
>sp|Q5N249|ISPH_SYNP6 4-hydroxy-3-methylbut-2-enyl diphosphate reductase OS=Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) GN=ispH PE=3 SV=1 Back     alignment and function description
>sp|Q31S64|ISPH_SYNE7 4-hydroxy-3-methylbut-2-enyl diphosphate reductase OS=Synechococcus elongatus (strain PCC 7942) GN=ispH PE=3 SV=1 Back     alignment and function description
>sp|B8HWD3|ISPH_CYAP4 4-hydroxy-3-methylbut-2-enyl diphosphate reductase OS=Cyanothece sp. (strain PCC 7425 / ATCC 29141) GN=ispH PE=3 SV=1 Back     alignment and function description
>sp|B0C4N8|ISPH_ACAM1 4-hydroxy-3-methylbut-2-enyl diphosphate reductase OS=Acaryochloris marina (strain MBIC 11017) GN=ispH PE=3 SV=1 Back     alignment and function description
>sp|Q3M8X6|ISPH_ANAVT 4-hydroxy-3-methylbut-2-enyl diphosphate reductase OS=Anabaena variabilis (strain ATCC 29413 / PCC 7937) GN=ispH PE=3 SV=1 Back     alignment and function description
>sp|P58674|ISPH_NOSS1 4-hydroxy-3-methylbut-2-enyl diphosphate reductase OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=ispH PE=3 SV=1 Back     alignment and function description
>sp|B1WTZ2|ISPH_CYAA5 4-hydroxy-3-methylbut-2-enyl diphosphate reductase OS=Cyanothece sp. (strain ATCC 51142) GN=ispH PE=3 SV=1 Back     alignment and function description
>sp|Q8DK29|ISPH_THEEB 4-hydroxy-3-methylbut-2-enyl diphosphate reductase OS=Thermosynechococcus elongatus (strain BP-1) GN=ispH PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query380
224105455460 predicted protein [Populus trichocarpa] 1.0 0.826 0.878 0.0
189017050426 putative chloroplast 4-hydroxy-3-methylb 1.0 0.892 0.876 0.0
255556135466 4-hydroxy-3-methylbut-2-enyl diphosphate 1.0 0.815 0.876 0.0
164605002462 4-hydroxy-3-methylbut-2-enyl diphosphate 1.0 0.822 0.886 0.0
195928050462 4-hydroxy-3-methylbut-2-enyl diphosphate 1.0 0.822 0.881 0.0
356538819462 PREDICTED: 4-hydroxy-3-methylbut-2-enyl 1.0 0.822 0.865 0.0
356545301380 PREDICTED: 4-hydroxy-3-methylbut-2-enyl 1.0 1.0 0.868 0.0
114329246459 hydroxymethylbutenyl diphosphate reducta 1.0 0.827 0.871 0.0
343466165470 4-hydroxy-3-methylbut-2-enyl diphosphate 1.0 0.808 0.873 0.0
353453158455 1-hydroxy-2-methyl-2-(E)-butenyl 4-dipho 1.0 0.835 0.871 0.0
>gi|224105455|ref|XP_002313816.1| predicted protein [Populus trichocarpa] gi|222850224|gb|EEE87771.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  709 bits (1830), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 334/380 (87%), Positives = 365/380 (96%)

Query: 1   MNQEYTSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWI 60
           MN+EYTSDIIKKLKENG+EYTWGNV VKLAE+YGFCWGVERAVQIAYEARKQFP++KIWI
Sbjct: 81  MNREYTSDIIKKLKENGYEYTWGNVTVKLAEAYGFCWGVERAVQIAYEARKQFPDDKIWI 140

Query: 61  TNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNV 120
           TNEIIHNPTVNKRLEEM V+N+PVEEGKKQF+VVN GDVV+LPAFGAAV+EM+TL++KNV
Sbjct: 141 TNEIIHNPTVNKRLEEMEVENVPVEEGKKQFEVVNGGDVVILPAFGAAVDEMLTLSSKNV 200

Query: 121 QIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYV 180
           QIVDTTCPWVSKVWT+VEKHKKGDYTSIIHGKY+HEETVATASFAGKYIIVK+MKEA YV
Sbjct: 201 QIVDTTCPWVSKVWTTVEKHKKGDYTSIIHGKYAHEETVATASFAGKYIIVKDMKEAMYV 260

Query: 181 CDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLV 240
           CDYILGGELNGSSST+E FLEKFK AVSKGFDPD DLVK+GIANQTTMLKGETE+IGKLV
Sbjct: 261 CDYILGGELNGSSSTREEFLEKFKNAVSKGFDPDSDLVKLGIANQTTMLKGETEDIGKLV 320

Query: 241 EKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQ 300
           E+ MMRK+GVENVN+HFISFNTICDATQERQDAMYK+VEEK+DL+LVVGGWNSSNTSHLQ
Sbjct: 321 ERIMMRKYGVENVNDHFISFNTICDATQERQDAMYKLVEEKLDLMLVVGGWNSSNTSHLQ 380

Query: 301 EIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKA 360
           EIAE  GIPSYWIDSE+RIGPGNKIAYKL HGELVEKENWLP+G ITIG+TSGASTPDK 
Sbjct: 381 EIAEHHGIPSYWIDSEQRIGPGNKIAYKLNHGELVEKENWLPQGPITIGVTSGASTPDKV 440

Query: 361 VEDVLKKVFEIKREEALQLA 380
           VED L KVF+IKR+EALQ+A
Sbjct: 441 VEDALIKVFDIKRDEALQVA 460

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|189017050|gb|ACD70402.1| putative chloroplast 4-hydroxy-3-methylbut-2-en-1-yl diphosphate reductase [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255556135|ref|XP_002519102.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase, putative [Ricinus communis] gi|223541765|gb|EEF43313.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|164605002|dbj|BAF98297.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Hevea brasiliensis] Back     alignment and taxonomy information
>gi|195928050|gb|ACG55683.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Hevea brasiliensis] Back     alignment and taxonomy information
>gi|356538819|ref|XP_003537898.1| PREDICTED: 4-hydroxy-3-methylbut-2-enyl diphosphate reductase-like [Glycine max] Back     alignment and taxonomy information
>gi|356545301|ref|XP_003541082.1| PREDICTED: 4-hydroxy-3-methylbut-2-enyl diphosphate reductase-like [Glycine max] Back     alignment and taxonomy information
>gi|114329246|gb|ABI64152.1| hydroxymethylbutenyl diphosphate reductase [Camptotheca acuminata] Back     alignment and taxonomy information
>gi|343466165|gb|AEM42976.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Siraitia grosvenorii] Back     alignment and taxonomy information
>gi|353453158|gb|AER00471.1| 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase [Tanacetum parthenium] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query380
TAIR|locus:2116164466 HDR "4-hydroxy-3-methylbut-2-e 1.0 0.815 0.821 4.3e-173
TIGR_CMR|VC_0685316 VC_0685 "hydroxymethylbutenyl 0.371 0.446 0.267 1.7e-21
TIGR_CMR|NSE_0438303 NSE_0438 "4-hydroxy-3-methylbu 0.321 0.402 0.320 3.4e-21
UNIPROTKB|Q8EBI7318 ispH "4-hydroxy-3-methylbut-2- 0.360 0.430 0.284 1.1e-18
TIGR_CMR|SO_3529318 SO_3529 "penicillin tolerance 0.360 0.430 0.284 1.1e-18
UNIPROTKB|Q749Y8282 ispH "4-hydroxy-3-methylbut-2- 0.607 0.819 0.259 1.2e-18
TIGR_CMR|GSU_2604282 GSU_2604 "penicillin tolerance 0.607 0.819 0.259 1.2e-18
TIGR_CMR|CPS_1211309 CPS_1211 "4-hydroxy-3-methylbu 0.147 0.181 0.526 5.5e-18
UNIPROTKB|P62623316 ispH "1-hydroxy-2-methyl-2-(E) 0.342 0.411 0.284 5.8e-18
TIGR_CMR|CJE_0973277 CJE_0973 "4-hydroxy-3-methylbu 0.376 0.516 0.258 2.2e-17
TAIR|locus:2116164 HDR "4-hydroxy-3-methylbut-2-enyl diphosphate reductase" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1682 (597.2 bits), Expect = 4.3e-173, P = 4.3e-173
 Identities = 312/380 (82%), Positives = 352/380 (92%)

Query:     1 MNQEYTSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWI 60
             MN+EYTSDI++ LK NG+ Y+WG+V VKLA++YGFCWGVERAVQIAYEARKQFPEE++WI
Sbjct:    87 MNREYTSDILETLKTNGYTYSWGDVTVKLAKAYGFCWGVERAVQIAYEARKQFPEERLWI 146

Query:    61 TNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNV 120
             TNEIIHNPTVNKRLE+M V+ IPVE+ KKQFDVV K DVV+LPAFGA V+EM  LN+K V
Sbjct:   147 TNEIIHNPTVNKRLEDMDVKIIPVEDSKKQFDVVEKDDVVILPAFGAGVDEMYVLNDKKV 206

Query:   121 QIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYV 180
             QIVDTTCPWV+KVW +VEKHKKG+YTS+IHGKY+HEET+ATASFAGKYIIVKNMKEA YV
Sbjct:   207 QIVDTTCPWVTKVWNTVEKHKKGEYTSVIHGKYNHEETIATASFAGKYIIVKNMKEANYV 266

Query:   181 CDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLV 240
             CDYILGG+ +GSSSTKE F+EKFK A+SKGFDPD DLVKVGIANQTTMLKGETEEIG+L+
Sbjct:   267 CDYILGGQYDGSSSTKEEFMEKFKYAISKGFDPDNDLVKVGIANQTTMLKGETEEIGRLL 326

Query:   241 EKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQ 300
             E TMMRK+GVENV+ HFISFNTICDATQERQDA+Y++VEEK+DL+LVVGGWNSSNTSHLQ
Sbjct:   327 ETTMMRKYGVENVSGHFISFNTICDATQERQDAIYELVEEKIDLMLVVGGWNSSNTSHLQ 386

Query:   301 EIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKA 360
             EI+E RGIPSYWIDSEKRIGPGNKIAYKL +GELVEKEN+LPKG ITIG+TSGASTPDK 
Sbjct:   387 EISEARGIPSYWIDSEKRIGPGNKIAYKLHYGELVEKENFLPKGPITIGVTSGASTPDKV 446

Query:   361 VEDVLKKVFEIKREEALQLA 380
             VED L KVF+IKREE LQLA
Sbjct:   447 VEDALVKVFDIKREELLQLA 466
GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=IEA;IGI;IEP;ISS
GO:0046677 "response to antibiotic" evidence=ISS
GO:0055114 "oxidation-reduction process" evidence=IEA
GO:0046429 "4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase activity" evidence=IMP
GO:0009570 "chloroplast stroma" evidence=IDA
GO:0051745 "4-hydroxy-3-methylbut-2-en-1-yl diphosphate reductase activity" evidence=IGI
GO:0009507 "chloroplast" evidence=IDA
TIGR_CMR|VC_0685 VC_0685 "hydroxymethylbutenyl pyrophosphate reductase" [Vibrio cholerae O1 biovar El Tor (taxid:686)] Back     alignment and assigned GO terms
TIGR_CMR|NSE_0438 NSE_0438 "4-hydroxy-3-methylbut-2-enyl diphosphate reductase" [Neorickettsia sennetsu str. Miyayama (taxid:222891)] Back     alignment and assigned GO terms
UNIPROTKB|Q8EBI7 ispH "4-hydroxy-3-methylbut-2-enyl diphosphate reductase" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms
TIGR_CMR|SO_3529 SO_3529 "penicillin tolerance protein LytB" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms
UNIPROTKB|Q749Y8 ispH "4-hydroxy-3-methylbut-2-enyl diphosphate reductase" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_2604 GSU_2604 "penicillin tolerance protein LytB" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_1211 CPS_1211 "4-hydroxy-3-methylbut-2-enyl diphosphate reductase" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
UNIPROTKB|P62623 ispH "1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase" [Escherichia coli K-12 (taxid:83333)] Back     alignment and assigned GO terms
TIGR_CMR|CJE_0973 CJE_0973 "4-hydroxy-3-methylbut-2-enyl diphosphate reductase" [Campylobacter jejuni RM1221 (taxid:195099)] Back     alignment and assigned GO terms

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) ?
Q55643ISPH_SYNY31, ., 1, 7, ., 1, ., 20.61000.97630.9788N/Ano
P58674ISPH_NOSS11, ., 1, 7, ., 1, ., 20.61800.97630.9228yesno
B0JVA7ISPH_MICAN1, ., 1, 7, ., 1, ., 20.62630.96310.9104yesno
B7K4V8ISPH_CYAP81, ., 1, 7, ., 1, ., 20.6160.97100.9156yesno
Q31CR8ISPH_PROM91, ., 1, 7, ., 1, ., 20.57720.95260.9095yesno
B7KEG3ISPH_CYAP71, ., 1, 7, ., 1, ., 20.61800.97630.9228yesno
B2IZV5ISPH_NOSP71, ., 1, 7, ., 1, ., 20.60470.97630.9228yesno
B0C4N8ISPH_ACAM11, ., 1, 7, ., 1, ., 20.61210.98940.9060yesno
B8HWD3ISPH_CYAP41, ., 1, 7, ., 1, ., 20.64860.95520.8962yesno
Q10WA8ISPH_TRIEI1, ., 1, 7, ., 1, ., 20.57790.96310.9127yesno
Q7U9K4ISPH_SYNPX1, ., 1, 7, ., 1, ., 20.58370.95520.9097yesno
B1XPG7ISPH_SYNP21, ., 1, 7, ., 1, ., 20.61700.97360.9181yesno
A2BP63ISPH_PROMS1, ., 1, 7, ., 1, ., 20.58060.96050.9170yesno
A5GIF7ISPH_SYNPW1, ., 1, 7, ., 1, ., 20.58280.96840.9223yesno
Q7V329ISPH_PROMP1, ., 1, 7, ., 1, ., 20.57210.96570.9221yesno
A5GWG3ISPH_SYNR31, ., 1, 7, ., 1, ., 20.59210.97890.9162yesno
Q3M8X6ISPH_ANAVT1, ., 1, 7, ., 1, ., 20.61800.97630.9228yesno
B1WTZ2ISPH_CYAA51, ., 1, 7, ., 1, ., 20.65250.97630.9228yesno
A2CCK3ISPH_PROM31, ., 1, 7, ., 1, ., 20.56330.96050.9170yesno
Q3B080ISPH_SYNS91, ., 1, 7, ., 1, ., 20.57520.96050.9147yesno
Q7VDS2ISPH_PROMA1, ., 1, 7, ., 1, ., 20.56720.96050.9012yesno
Q46HB0ISPH_PROMT1, ., 1, 7, ., 1, ., 20.58710.96050.9102yesno
A9BDN6ISPH_PROM41, ., 1, 7, ., 1, ., 20.56610.97630.9183yesno
A2C096ISPH_PROM11, ., 1, 7, ., 1, ., 20.58710.96050.9102yesno
Q7V4T7ISPH_PROMM1, ., 1, 7, ., 1, ., 20.56600.96050.9170yesno
Q31S64ISPH_SYNE71, ., 1, 7, ., 1, ., 20.61390.96570.9221yesno
Q8DK29ISPH_THEEB1, ., 1, 7, ., 1, ., 20.64240.96310.9104yesno
Q94B35ISPH_ARATH1, ., 1, 7, ., 1, ., 20.82101.00.8154yesno
Q0IDE5ISPH_SYNS31, ., 1, 7, ., 1, ., 20.58870.96310.9195yesno
Q6AVG6ISPH_ORYSJ1, ., 1, 7, ., 1, ., 20.85261.00.8278yesno
Q5N249ISPH_SYNP61, ., 1, 7, ., 1, ., 20.61390.96570.9221yesno
Q7NG74ISPH_GLOVI1, ., 1, 7, ., 1, ., 20.54370.96310.8776yesno
Q3AN10ISPH_SYNSC1, ., 1, 7, ., 1, ., 20.58600.96050.9147yesno
A3PAY5ISPH_PROM01, ., 1, 7, ., 1, ., 20.58060.96050.9170yesno
A2BUP5ISPH_PROM51, ., 1, 7, ., 1, ., 20.57210.96570.9221yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
4th Layer1.17.1.20.991
3rd Layer1.17.10.691

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query380
PLN02821460 PLN02821, PLN02821, 1-hydroxy-2-methyl-2-(E)-buten 0.0
PRK13371387 PRK13371, PRK13371, 4-hydroxy-3-methylbut-2-enyl d 0.0
COG0761294 COG0761, lytB, 4-Hydroxy-3-methylbut-2-enyl diphos 5e-96
pfam02401280 pfam02401, LYTB, LytB protein 3e-93
TIGR00216280 TIGR00216, ispH_lytB, (E)-4-hydroxy-3-methyl-but-2 1e-86
PRK01045298 PRK01045, ispH, 4-hydroxy-3-methylbut-2-enyl dipho 1e-54
PRK00087 647 PRK00087, PRK00087, 4-hydroxy-3-methylbut-2-enyl d 6e-48
PRK12360281 PRK12360, PRK12360, 4-hydroxy-3-methylbut-2-enyl d 2e-45
>gnl|CDD|215440 PLN02821, PLN02821, 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase Back     alignment and domain information 
 Score =  777 bits (2008), Expect = 0.0
 Identities = 321/380 (84%), Positives = 352/380 (92%), Gaps = 1/380 (0%)

Query: 1   MNQEY-TSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIW 59
           M  EY TSD++K LKENG  YTWG+V VKLA++YGFCWGVERAVQIAYEARKQFP+EK+W
Sbjct: 81  MGVEYSTSDLVKTLKENGNVYTWGDVTVKLAKAYGFCWGVERAVQIAYEARKQFPDEKLW 140

Query: 60  ITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKN 119
           ITNEIIHNPTVNKRLEEM VQ I VEEG K F VV +GDVV+LPAFGA+VEEM TLN+KN
Sbjct: 141 ITNEIIHNPTVNKRLEEMNVQFIEVEEGGKDFSVVGEGDVVILPAFGASVEEMQTLNDKN 200

Query: 120 VQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEY 179
           VQIVDTTCPWVSKVW +VEKHKK DYTS+IHGKY+HEETVATASFAGKYIIVKNMKEA Y
Sbjct: 201 VQIVDTTCPWVSKVWNTVEKHKKKDYTSVIHGKYAHEETVATASFAGKYIIVKNMKEATY 260

Query: 180 VCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKL 239
           VCDYILGG+L+GSS TKE FLEKFK AVSKGFDPD DLVKVGIANQTTMLKGETEEIGKL
Sbjct: 261 VCDYILGGQLDGSSGTKEEFLEKFKNAVSKGFDPDTDLVKVGIANQTTMLKGETEEIGKL 320

Query: 240 VEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHL 299
           +EKTMM+K+GVENVN+HF+SFNTICDATQERQDAMYK+VEEK+DL+LVVGGWNSSNTSHL
Sbjct: 321 LEKTMMQKYGVENVNDHFMSFNTICDATQERQDAMYKLVEEKLDLMLVVGGWNSSNTSHL 380

Query: 300 QEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDK 359
           QEIAE +GIPSYWIDSE+RIGPGN IA+KL HGELVEKENWLP+G +TIG+TSGASTPDK
Sbjct: 381 QEIAEHKGIPSYWIDSEERIGPGNTIAHKLNHGELVEKENWLPEGPVTIGVTSGASTPDK 440

Query: 360 AVEDVLKKVFEIKREEALQL 379
            VEDVL KVF+IKREEALQL
Sbjct: 441 VVEDVLDKVFDIKREEALQL 460

Length = 460
>gnl|CDD|237367 PRK13371, PRK13371, 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional Back     alignment and domain information
>gnl|CDD|223832 COG0761, lytB, 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism] Back     alignment and domain information
>gnl|CDD|217018 pfam02401, LYTB, LytB protein Back     alignment and domain information
>gnl|CDD|232878 TIGR00216, ispH_lytB, (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming) Back     alignment and domain information
>gnl|CDD|234893 PRK01045, ispH, 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed Back     alignment and domain information
>gnl|CDD|234623 PRK00087, PRK00087, 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed Back     alignment and domain information
>gnl|CDD|237075 PRK12360, PRK12360, 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 380
PLN02821460 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate red 100.0
PRK13371387 4-hydroxy-3-methylbut-2-enyl diphosphate reductase 100.0
PRK12360281 4-hydroxy-3-methylbut-2-enyl diphosphate reductase 100.0
TIGR00216280 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyroph 100.0
PRK01045298 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate redu 100.0
PF02401281 LYTB: LytB protein; InterPro: IPR003451 Terpenes a 100.0
COG0761294 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate redu 100.0
PRK00087 647 4-hydroxy-3-methylbut-2-enyl diphosphate reductase 100.0
PF02401281 LYTB: LytB protein; InterPro: IPR003451 Terpenes a 96.42
PRK01045298 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate redu 94.04
TIGR00216280 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyroph 91.79
PRK12360281 4-hydroxy-3-methylbut-2-enyl diphosphate reductase 91.25
cd01537 264 PBP1_Repressors_Sugar_Binding_like Ligand-binding 89.7
COG1587248 HemD Uroporphyrinogen-III synthase [Coenzyme metab 87.87
PRK00087 647 4-hydroxy-3-methylbut-2-enyl diphosphate reductase 86.27
PRK13371387 4-hydroxy-3-methylbut-2-enyl diphosphate reductase 85.79
PF02602231 HEM4: Uroporphyrinogen-III synthase HemD; InterPro 85.01
PF02571249 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: 84.93
PRK08057248 cobalt-precorrin-6x reductase; Reviewed 83.18
PRK04175122 rpl7ae 50S ribosomal protein L7Ae; Validated 80.29
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase Back     alignment and domain information 
Probab=100.00  E-value=3.5e-119  Score=909.99  Aligned_cols=379  Identities=85%  Similarity=1.312  Sum_probs=365.0

Q ss_pred             CCccc-chhHHHHHHHcCCcceecceEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCc
Q 016960            1 MNQEY-TSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAV   79 (380)
Q Consensus         1 ~~~~~-~~~~~~~~~~~~~~~~~g~mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv   79 (380)
                      |.++| +|.||+.||++|+.+.||+|+|+||+++||||||+|||++|+++++++++++||+||||||||+|+++|+++||
T Consensus        81 ~~~~y~~s~li~~~r~~~~~~~~g~m~I~LA~~~GFC~GVeRAV~~A~ea~~~~p~~~Iy~lgeIIHNp~Vv~~L~~~GV  160 (460)
T PLN02821         81 MGVEYSTSDLVKTLKENGNVYTWGDVTVKLAKAYGFCWGVERAVQIAYEARKQFPDEKLWITNEIIHNPTVNKRLEEMNV  160 (460)
T ss_pred             hhhhhhccHHHHHHHhCCCeEEecceEEEEeCCCCCCccHHHHHHHHHHHHhhCCCCCeEEecCCccCHHHHHHHHHCCC
Confidence            46788 99999999999999999999999999999999999999999999887777899999999999999999999999


Q ss_pred             EEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceee
Q 016960           80 QNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETV  159 (380)
Q Consensus        80 ~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~  159 (380)
                      .++++.++.++++++++|++|||||||++|++++.|+++|+.|||||||||+|+|+.|+++.++||+|||+|+++||||+
T Consensus       161 ~~I~~~~~~~~~~~v~~gdvVIirAHGvs~~~~~~l~~kg~~IVDaTCP~V~KV~~~v~k~~k~gy~iII~Gk~~HpEv~  240 (460)
T PLN02821        161 QFIEVEEGGKDFSVVGEGDVVILPAFGASVEEMQTLNDKNVQIVDTTCPWVSKVWNTVEKHKKKDYTSVIHGKYAHEETV  240 (460)
T ss_pred             EEecccccccccccCCCCCEEEEeCCCCCHHHHHHHHHCCCeEEecCCcchHHHHHHHHHHHhCCCEEEEECCCCCccee
Confidence            99997766677899998999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eecccCCcEEEEcChhhHHHhhhhhcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHH
Q 016960          160 ATASFAGKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKL  239 (380)
Q Consensus       160 gi~g~~~~~~vv~~~~e~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~  239 (380)
                      |+.||+++++||++++|++++++||.++.+||++++++.|+++|+++++.+|||+.+++|+++++||||+.++|++|++.
T Consensus       241 gt~s~a~~~~VV~~~~ea~~v~~yi~~~~~~~~~~~~~~f~~~f~~a~s~~fdpd~~l~kvgvvnQTTm~~~et~~I~~~  320 (460)
T PLN02821        241 ATASFAGKYIIVKNMKEATYVCDYILGGQLDGSSGTKEEFLEKFKNAVSKGFDPDTDLVKVGIANQTTMLKGETEEIGKL  320 (460)
T ss_pred             ecccccCCeEEECCHHHHHHHhhhcccccccccccchhhhhhhhcccccccCCcccccccEEEEECCCCcHHHHHHHHHH
Confidence            99999988999999999999999999999999999999999999999999999877788999999999999999999999


Q ss_pred             HHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCcc
Q 016960          240 VEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRI  319 (380)
Q Consensus       240 l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL  319 (380)
                      |+++|+++++|++.+.||.+|||||+||++||+|+.+|+..++|+||||||+|||||+||+|||++.|+|+||||+++||
T Consensus       321 l~~~~~~k~gp~~~~~~~~vfnTIC~ATqeRQdA~~~L~~~~vDlmiVVGG~NSSNT~~L~eIa~~~g~~sy~Ie~~~eI  400 (460)
T PLN02821        321 LEKTMMQKYGVENVNDHFMSFNTICDATQERQDAMYKLVEEKLDLMLVVGGWNSSNTSHLQEIAEHKGIPSYWIDSEERI  400 (460)
T ss_pred             HHHhhhhhcCCcccCccccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCCCCccHHHHHHHHHHhCCCEEEECCHHHc
Confidence            99999999999888899999999999999999999999635899999999999999999999999999999999999999


Q ss_pred             CCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCCCCHHHHHHHHHHHHhhhhhhhhhc
Q 016960          320 GPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVFEIKREEALQL  379 (380)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGASTP~~lI~eV~~~l~~~~~~~~~~~  379 (380)
                      ++.+.|+|++.|+++.++++||+.++.+||||||||||+|+|++|+.+|.++...+++|+
T Consensus       401 ~~~~~i~h~~~~~e~~~~~~wl~~~~~~VGITAGASTPd~lIeeVi~~l~~~~~~~~~~~  460 (460)
T PLN02821        401 GPGNTIAHKLNHGELVEKENWLPEGPVTIGVTSGASTPDKVVEDVLDKVFDIKREEALQL  460 (460)
T ss_pred             CcccccccccccchhhhhHHHhccCCCEEEEecCCCCCHHHHHHHHHHHHHhhccccccC
Confidence            999999999999999999999977799999999999999999999999999988887774

>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional Back     alignment and domain information
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional Back     alignment and domain information
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming) Back     alignment and domain information
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed Back     alignment and domain information
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids Back     alignment and domain information
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism] Back     alignment and domain information
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed Back     alignment and domain information
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids Back     alignment and domain information
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed Back     alignment and domain information
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming) Back     alignment and domain information
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional Back     alignment and domain information
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems Back     alignment and domain information
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism] Back     alignment and domain information
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed Back     alignment and domain information
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional Back     alignment and domain information
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway [] Back     alignment and domain information
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt Back     alignment and domain information
>PRK08057 cobalt-precorrin-6x reductase; Reviewed Back     alignment and domain information
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query380
3dnf_A297 Structure Of (e)-4-hydroxy-3-methyl-but-2-enyl Diph 8e-26
4h4c_A323 Isph In Complex With (e)-4-fluoro-3-methylbut-2-eny 5e-21
4eb3_A327 Crystal Structure Of Isph In Complex With Iso-hmbpp 5e-21
3f7t_A328 Structure Of Active Isph Shows A Novel Fold With A 5e-21
3urk_A324 Isph In Complex With Propynyl Diphosphate (1061) Le 5e-21
3szu_A328 Isph:hmbpp Complex Structure Of E126q Mutant Length 1e-20
3t0f_A328 Isph:hmbpp (Substrate) Structure Of The E126d Mutan 1e-20
3t0g_A328 Isph:hmbpp (Substrate) Structure Of The T167c Mutan 2e-20
3ke8_A326 Crystal Structure Of Isph:hmbpp-Complex Length = 32 3e-20
3zgl_A332 Crystal Structures Of Escherichia Coli Isph In Comp 3e-20
>pdb|3DNF|A Chain A, Structure Of (e)-4-hydroxy-3-methyl-but-2-enyl Diphosphate Reductase, The Terminal Enzyme Of The Non-mevalonate Pathway Length = 297 Back     alignment and structure 
Iteration: 1

 Score =  114 bits (285), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 100/351 (28%), Positives = 167/351 (47%), Gaps = 75/351 (21%)
Query: 25  VKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPV 84
           V + +AE  GFC+GV+RAV++A E+ K+  + K++    IIHNP    RL+ + V     
Sbjct: 2   VDIIIAEHAGFCFGVKRAVKLAEESLKE-SQGKVYTLGPIIHNPQEVNRLKNLGVFPSQG 60
Query: 85  EEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGD 144
           EE K+       GD V++ + G   E+   L  K ++++D TCP+V  V  +V +  +  
Sbjct: 61  EEFKE-------GDTVIIRSHGIPPEKEEALRKKGLKVIDATCPYVKAVHEAVCQLTREG 113
Query: 145 YTSIIHGKYSHEETVATASFA----GKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFL 200
           Y  ++ G+ +H E + T  +     GK I+V+ +++              G +   E   
Sbjct: 114 YFVVLVGEKNHPEVIGTLGYLRACNGKGIVVETLEDI-------------GEALKHE--- 157
Query: 201 EKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISF 260
                             +VGI  QTT    + EE  K V   +     V+ V       
Sbjct: 158 ------------------RVGIVAQTT----QNEEFFKEVVGEIA--LWVKEVK----VI 189
Query: 261 NTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIG 320
           NTIC+AT  RQ+++ K+  E VD+++++GG NS NT  L  I+++    +Y I++ + + 
Sbjct: 190 NTICNATSLRQESVKKLAPE-VDVMIIIGGKNSGNTRRLYYISKELNPNTYHIETAEELQ 248
Query: 321 PGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVFEI 371
           P                  W  +G   +GI++GASTPD  +E V  ++ EI
Sbjct: 249 P-----------------EWF-RGVKRVGISAGASTPDWIIEQVKSRIQEI 281
>pdb|4H4C|A Chain A, Isph In Complex With (e)-4-fluoro-3-methylbut-2-enyl Diphosphate Length = 323 Back     alignment and structure
>pdb|4EB3|A Chain A, Crystal Structure Of Isph In Complex With Iso-hmbpp Length = 327 Back     alignment and structure
>pdb|3F7T|A Chain A, Structure Of Active Isph Shows A Novel Fold With A [3fe-4s] Cluster In The Catalytic Centre Length = 328 Back     alignment and structure
>pdb|3URK|A Chain A, Isph In Complex With Propynyl Diphosphate (1061) Length = 324 Back     alignment and structure
>pdb|3SZU|A Chain A, Isph:hmbpp Complex Structure Of E126q Mutant Length = 328 Back     alignment and structure
>pdb|3T0F|A Chain A, Isph:hmbpp (Substrate) Structure Of The E126d Mutant Length = 328 Back     alignment and structure
>pdb|3T0G|A Chain A, Isph:hmbpp (Substrate) Structure Of The T167c Mutant Length = 328 Back     alignment and structure
>pdb|3KE8|A Chain A, Crystal Structure Of Isph:hmbpp-Complex Length = 326 Back     alignment and structure
>pdb|3ZGL|A Chain A, Crystal Structures Of Escherichia Coli Isph In Complex With Ambpp A Potent Inhibitor Of The Methylerythritol Phosphate Pathway Length = 332 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query380
3dnf_A297 ISPH, LYTB, 4-hydroxy-3-methylbut-2-ENYL diphospha 4e-61
3szu_A328 ISPH, 4-hydroxy-3-methylbut-2-ENYL diphosphate red 1e-42
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-08
>3dnf_A ISPH, LYTB, 4-hydroxy-3-methylbut-2-ENYL diphosphate reductas; trilobal strucure, open alpha/beta, iron, iron-sulfur, isopr biosynthesis; 1.65A {Aquifex aeolicus} Length = 297 Back     alignment and structure
 Score =  197 bits (504), Expect = 4e-61
 Identities = 90/354 (25%), Positives = 164/354 (46%), Gaps = 75/354 (21%)

Query: 26  KVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVE 85
            + +AE  GFC+GV+RAV++A E+ K+  + K++    IIHNP    RL+ + V      
Sbjct: 3   DIIIAEHAGFCFGVKRAVKLAEESLKES-QGKVYTLGPIIHNPQEVNRLKNLGVF---PS 58

Query: 86  EGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDY 145
           +     +   +GD V++ + G   E+   L  K ++++D TCP+V  V  +V +  +  Y
Sbjct: 59  Q----GEEFKEGDTVIIRSHGIPPEKEEALRKKGLKVIDATCPYVKAVHEAVCQLTREGY 114

Query: 146 TSIIHGKYSHEETVATA----SFAGKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFLE 201
             ++ G+ +H E + T     +  GK I+V+ +++           E             
Sbjct: 115 FVVLVGEKNHPEVIGTLGYLRACNGKGIVVETLEDIG---------EAL----------- 154

Query: 202 KFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFN 261
                       +    +VGI  QTT  +   +E+   V + +          +     N
Sbjct: 155 ----------KHE----RVGIVAQTTQNEEFFKEV---VGE-IALWV------KEVKVIN 190

Query: 262 TICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGP 321
           TIC+AT  RQ+++ K+  E VD+++++GG NS NT  L  I+++    +Y I++ + +  
Sbjct: 191 TICNATSLRQESVKKLAPE-VDVMIIIGGKNSGNTRRLYYISKELNPNTYHIETAEEL-- 247

Query: 322 GNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVFEIKREE 375
                          +  W  +G   +GI++GASTPD  +E V  ++ EI   +
Sbjct: 248 ---------------QPEWF-RGVKRVGISAGASTPDWIIEQVKSRIQEICEGQ 285
>3szu_A ISPH, 4-hydroxy-3-methylbut-2-ENYL diphosphate reductas; 3Fe-4S iron-sulfur cluster, conserved cysteine, IPP and DMAP production final STEP; HET: H6P; 1.40A {Escherichia coli} PDB: 3szl_A* 3f7t_A* 3szo_A* 3t0f_A* 3t0g_A* 3ke8_A* 3ke9_A* 3kef_A* 3kel_A 3kem_A* Length = 328 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query380
3dnf_A297 ISPH, LYTB, 4-hydroxy-3-methylbut-2-ENYL diphospha 100.0
3szu_A328 ISPH, 4-hydroxy-3-methylbut-2-ENYL diphosphate red 100.0
3szu_A328 ISPH, 4-hydroxy-3-methylbut-2-ENYL diphosphate red 93.94
3dnf_A297 ISPH, LYTB, 4-hydroxy-3-methylbut-2-ENYL diphospha 93.35
1vq8_F120 50S ribosomal protein L7AE; ribosome 50S, protein- 85.5
1rlg_A119 50S ribosomal protein L7AE; protein-RNA, structura 85.31
3k4h_A 292 Putative transcriptional regulator; structural gen 84.78
3huu_A 305 Transcription regulator like protein; PSI-II, NYSG 82.18
1xbi_A120 50S ribosomal protein L7AE; alpha-beta-alpha sandw 81.72
2xdq_A460 Light-independent protochlorophyllide reductase S; 81.03
3qk7_A 294 Transcriptional regulators; structural genomics, N 80.96
2h3h_A 313 Sugar ABC transporter, periplasmic sugar-binding p 80.65
>3dnf_A ISPH, LYTB, 4-hydroxy-3-methylbut-2-ENYL diphosphate reductas; trilobal strucure, open alpha/beta, iron, iron-sulfur, isopr biosynthesis; 1.65A {Aquifex aeolicus} Back     alignment and structure
Probab=100.00  E-value=1.2e-101  Score=751.00  Aligned_cols=280  Identities=31%  Similarity=0.535  Sum_probs=261.5

Q ss_pred             ceEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEc
Q 016960           24 NVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLP  103 (380)
Q Consensus        24 ~mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIr  103 (380)
                      .|+|+||+++||||||+|||++|+++++++ ++|||++|||||||+|+++|+++|+.|+++       +++|+|++||||
T Consensus         1 ~m~I~lA~~~GFC~GV~RAI~~a~~al~~~-~~~iy~~g~IVHN~~Vv~~L~~~Gv~~v~~-------~ev~~g~~VIir   72 (297)
T 3dnf_A            1 MVDIIIAEHAGFCFGVKRAVKLAEESLKES-QGKVYTLGPIIHNPQEVNRLKNLGVFPSQG-------EEFKEGDTVIIR   72 (297)
T ss_dssp             CCEEEECTTCSSCHHHHHHHHHHHHHTTTC-CSCEEESSCSSSCHHHHHHHHHHTEEECCS-------SCCCTTCEEEEC
T ss_pred             CeEEEEeCCCCCCccHHHHHHHHHHHHHhc-CCCEEEeCCcccCHHHHHHHHhCCCEEech-------hhCCCCCEEEEE
Confidence            499999999999999999999999999876 478999999999999999999999999973       678889999999


Q ss_pred             CCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccC---C-cEEEEcChhhHHH
Q 016960          104 AFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFA---G-KYIIVKNMKEAEY  179 (380)
Q Consensus       104 AHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~---~-~~~vv~~~~e~~~  179 (380)
                      |||+||++++.|+++|+.|||||||||+|+|+.|++++++||+|||+|+++||||+|++||+   + .++||++++|++.
T Consensus        73 AHGv~~~v~~~a~~rgl~iiDATCP~V~Kvh~~v~~~~~~Gy~iiiiG~~~HpEV~G~~g~~~~~~~~~~vV~~~ed~~~  152 (297)
T 3dnf_A           73 SHGIPPEKEEALRKKGLKVIDATCPYVKAVHEAVCQLTREGYFVVLVGEKNHPEVIGTLGYLRACNGKGIVVETLEDIGE  152 (297)
T ss_dssp             TTCCCHHHHHHHHHTTCEEEECCCHHHHHHHHHHHHHHHTTCEEEEESCTTCHHHHHHHHHHHHTTCCEEEESSGGGGGG
T ss_pred             CCCCCHHHHHHHHHCCCEEEeCCCcchHHHHHHHHHHHhCCCEEEEEecCCCceEEeeccccccCCCcEEEEcCHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999   4 6899999999876


Q ss_pred             hhhhhcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccc
Q 016960          180 VCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFIS  259 (380)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~  259 (380)
                      +.                                  ..+++++++||||+.++|.+|++.|+++|          +++.+
T Consensus       153 l~----------------------------------~~~kv~~vsQTT~s~~~~~~iv~~L~~r~----------p~~~~  188 (297)
T 3dnf_A          153 AL----------------------------------KHERVGIVAQTTQNEEFFKEVVGEIALWV----------KEVKV  188 (297)
T ss_dssp             GG----------------------------------GCSEEEEEECTTCCHHHHHHHHHHHHHHS----------SEEEE
T ss_pred             cC----------------------------------CCCcEEEEEecCCcHHHHHHHHHHHHHhC----------CCCCC
Confidence            51                                  12589999999999999999999998743          24678


Q ss_pred             cccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcc
Q 016960          260 FNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKEN  339 (380)
Q Consensus       260 ~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~  339 (380)
                      +|||||||++||+|+++|| +++|+||||||+|||||+||+|+|++.|+++||||+++||++                 +
T Consensus       189 ~~tIC~AT~~RQ~av~~la-~~~D~miVVGg~nSSNT~rL~eia~~~~~~ty~Ie~~~el~~-----------------~  250 (297)
T 3dnf_A          189 INTICNATSLRQESVKKLA-PEVDVMIIIGGKNSGNTRRLYYISKELNPNTYHIETAEELQP-----------------E  250 (297)
T ss_dssp             ECCCCSHHHHHHHHHHHHG-GGSSEEEEESCTTCHHHHHHHHHHHHHCSSEEEESSGGGCCG-----------------G
T ss_pred             CCCccHHHHHHHHHHHHHH-hhCCEEEEECCCCCchhHHHHHHHHhcCCCEEEeCChHHCCH-----------------H
Confidence            9999999999999999999 699999999999999999999999999999999999999999                 9


Q ss_pred             cCCCCCCEEEEEeCCCCCHHHHHHHHHHHHhhhhh
Q 016960          340 WLPKGQITIGITSGASTPDKAVEDVLKKVFEIKRE  374 (380)
Q Consensus       340 wl~~~~~~VGITAGASTP~~lI~eV~~~l~~~~~~  374 (380)
                      || .++.+||||||||||+|||++|+++|+++...
T Consensus       251 wl-~~~~~VGITAGASTP~~li~eVi~~l~~~~~~  284 (297)
T 3dnf_A          251 WF-RGVKRVGISAGASTPDWIIEQVKSRIQEICEG  284 (297)
T ss_dssp             GG-TTCSEEEEEECTTCCHHHHHHHHHHHHHC---
T ss_pred             Hh-CCCCEEEEeecCCCCHHHHHHHHHHHHHhccC
Confidence            99 69999999999999999999999999987544
>3szu_A ISPH, 4-hydroxy-3-methylbut-2-ENYL diphosphate reductas; 3Fe-4S iron-sulfur cluster, conserved cysteine, IPP and DMAP production final STEP; HET: H6P; 1.40A {Escherichia coli} PDB: 3szl_A* 3f7t_A* 3szo_A* 3t0f_A* 3t0g_A* 3urk_A* 3utc_A* 3utd_A* 3uv3_A* 3uv6_A* 3uv7_A* 3uwm_A* 3ke8_A* 3ke9_A* 3kef_A* 3kel_A 3kem_A* Back     alignment and structure
>3szu_A ISPH, 4-hydroxy-3-methylbut-2-ENYL diphosphate reductas; 3Fe-4S iron-sulfur cluster, conserved cysteine, IPP and DMAP production final STEP; HET: H6P; 1.40A {Escherichia coli} PDB: 3szl_A* 3f7t_A* 3szo_A* 3t0f_A* 3t0g_A* 3urk_A* 3utc_A* 3utd_A* 3uv3_A* 3uv6_A* 3uv7_A* 3uwm_A* 3ke8_A* 3ke9_A* 3kef_A* 3kel_A 3kem_A* Back     alignment and structure
>3dnf_A ISPH, LYTB, 4-hydroxy-3-methylbut-2-ENYL diphosphate reductas; trilobal strucure, open alpha/beta, iron, iron-sulfur, isopr biosynthesis; 1.65A {Aquifex aeolicus} Back     alignment and structure
>1vq8_F 50S ribosomal protein L7AE; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: d.79.3.1 PDB: 1vq4_F* 1vq5_F* 1vq6_F* 1vq7_F* 1s72_F* 1vq9_F* 1vqk_F* 1vql_F* 1vqm_F* 1vqn_F* 1vqo_F* 1vqp_F* 1yhq_F* 1yi2_F* 1yij_F* 1yit_F* 1yj9_F* 1yjn_F* 1yjw_F* 2otj_F* ... Back     alignment and structure
>1rlg_A 50S ribosomal protein L7AE; protein-RNA, structural protein/RNA complex; HET: 5BU; 2.70A {Archaeoglobus fulgidus} SCOP: d.79.3.1 Back     alignment and structure
>3k4h_A Putative transcriptional regulator; structural genomics, protein structure INI NEW YORK structural genomix research consortium; HET: MAL; 2.80A {Bacillus cytotoxicus nvh 391-98} Back     alignment and structure
>3huu_A Transcription regulator like protein; PSI-II, NYSGXRC, LAC I, STR genomics, protein structure initiative; 1.95A {Staphylococcus haemolyticus} Back     alignment and structure
>1xbi_A 50S ribosomal protein L7AE; alpha-beta-alpha sandwich fold, RNA binding protein/structural protein complex; HET: EPE; 1.45A {Methanocaldococcus jannaschii} SCOP: d.79.3.1 PDB: 1ra4_A* 1sds_A 3paf_A Back     alignment and structure
>2xdq_A Light-independent protochlorophyllide reductase S; oxidoreductase, DPOR, (bacterio)chlorophyll biosynthesis, photosynthesis; 2.40A {Thermosynechococcus elongatus} Back     alignment and structure
>3qk7_A Transcriptional regulators; structural genomics, NEW YORK structural genomix research CO NYSGXRC, PSI-2, protein structur initiative; 2.70A {Yersinia pestis} Back     alignment and structure
>2h3h_A Sugar ABC transporter, periplasmic sugar-binding protein; glucose binding protein, periplasmic binding protein, GBP; HET: BGC; 1.70A {Thermotoga maritima} PDB: 2qvc_A* 3c6q_B* Back     alignment and structure

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 ?Alignment Graph ?Length ? Definition ? Probability ?
Query380
d1p3da196 UDP-N-acetylmuramate-alanine ligase MurC {Haemophi 81.39
>d1p3da1 c.5.1.1 (A:11-106) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=81.39  E-value=3.8  Score=30.78  Aligned_cols=69  Identities=14%  Similarity=0.127  Sum_probs=43.9

Q ss_pred             HHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHH--HHHHHHhcCCcEE
Q 016960           46 AYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVE--EMVTLNNKNVQIV  123 (380)
Q Consensus        46 a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~--~~~~l~~~g~~vi  123 (380)
                      |.-+.++  + --.+-.+.-.|+.+ ++|+++|+.+...-.    -+.+++-|.| |.+=+++++  .+.+++++|+.||
T Consensus        25 A~~L~~~--G-~~VsGSD~~~~~~~-~~L~~~Gi~v~~g~~----~~~i~~~d~v-V~S~AI~~~npel~~A~~~gipii   95 (96)
T d1p3da1          25 AEILLNE--G-YQISGSDIADGVVT-QRLAQAGAKIYIGHA----EEHIEGASVV-VVSSAIKDDNPELVTSKQKRIPVI   95 (96)
T ss_dssp             HHHHHHH--T-CEEEEEESCCSHHH-HHHHHTTCEEEESCC----GGGGTTCSEE-EECTTSCTTCHHHHHHHHTTCCEE
T ss_pred             HHHHHhC--C-CEEEEEeCCCChhh-hHHHHCCCeEEECCc----cccCCCCCEE-EECCCcCCCCHHHHHHHHcCCCEE
Confidence            5444443  2 24445577777766 788889998776431    2334444545 555567654  6778999999986