Citrus Sinensis ID: 035345

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60-------
Protein Sequence
MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGKVDPPIRHGWFCCIQSPSAQS
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccEEHHHHHHHHHHccccccccccccccccccEEEEEccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccEEEEccHHHHcccccccccccccccccccEEEEEEccccccc
Coil and Loop (DISEMBL)
msdkgrplpkfgewdvndpasaegFTVIFNKArdekktggkpdspgkvdppirhgwfcciqspsaqs
Flexible Loop (DISEMBL)
msdkgrplpkfgewdvndpasaEGFTVIFNKardekktggkpdspgkvdppirHGWFCCIQSPSAQS
Low Complexity Region (SEG)
MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGKVDPPIRHGWFCCIQSPSAQS
Disordered region (IsUnstruct)
***********************GFTVIF**********************IRHGWFCCI*******
Disordered Region (DISOPRED)
******P***FGEWDVNDPASAEGFTVIFN*************************WFCC*QSP****
Disordered Region (DISEMBL)
MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARD************KVDPPIRHGWFCCIQSPSAQS
Disordered Region (DISPRO)
********PKFGEWDVNDPASAEGFTVIFNKARDE*****************RHGWFCCIQS*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGKVDPPIRHGWFCCIQSPSAQS
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	67	2.2.26 [Sep-21-2011]
Q8GYN5	211	RPM1-interacting protein	no	no	0.492	0.156	0.575	4e-06

>sp|Q8GYN5|RIN4_ARATH RPM1-interacting protein 4 OS=Arabidopsis thaliana GN=RIN4 PE=1 SV=1

 Score = 50.1 bits (118), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 19/33 (57%), Positives = 28/33 (84%)

Query: 8   LPKFGEWDVNDPASAEGFTVIFNKARDEKKTGG 40
           +PKFG+WD N+P+SA+G+T IFNK R+E+ +G 
Sbjct: 148 VPKFGDWDENNPSSADGYTHIFNKVREERSSGA 180


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.314    0.136    0.450 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31,783,680
Number of Sequences: 539616
Number of extensions: 1174213
Number of successful extensions: 1452
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1450
Number of HSP's gapped (non-prelim): 3
length of query: 67
length of database: 191,569,459
effective HSP length: 39
effective length of query: 28
effective length of database: 170,524,435
effective search space: 4774684180
effective search space used: 4774684180
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)

Essential regulator of plant defense, which plays a central role in resistance in case of infection by a pathogen. It is a common target for both type III avirulence proteins from P.syringae (AvrB, AvrRpm1 and AvrRpt2) and for the plant Resistance (R) proteins RPM1 and RPS2. In strains carrying the appropriate R gene for avirulence proteins of the pathogen, its association with avirulence proteins triggers a defense system including the hypersensitive response, which limits the spread of disease. In contrast, in plants lacking appropriate R genes, its association with avirulence proteins of the pathogen impairs the defense system and leads to the pathogen multiplication.
Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	67
449462389	77	PREDICTED: RPM1-interacting protein 4-li	1.0	0.870	0.740	3e-23
356553503	78	PREDICTED: RPM1-interacting protein 4-li	1.0	0.858	0.717	4e-22
359494187	77	PREDICTED: RPM1-interacting protein 4-li	1.0	0.870	0.662	6e-22
357495103	76	RPM1-interacting protein [Medicago trunc	0.970	0.855	0.706	8e-22
224114513	78	predicted protein [Populus trichocarpa]	1.0	0.858	0.717	9e-22
356527157	79	PREDICTED: RPM1-interacting protein 4 [G	1.0	0.848	0.696	1e-21
356566419	79	PREDICTED: RPM1-interacting protein 4 [G	1.0	0.848	0.696	1e-21
359485775	77	PREDICTED: uncharacterized protein LOC10	1.0	0.870	0.662	3e-21
449461053	76	PREDICTED: RPM1-interacting protein 4-li	1.0	0.881	0.723	3e-21
224056477	76	predicted protein [Populus trichocarpa]	0.970	0.855	0.736	4e-21

>gi|449462389|ref|XP_004148923.1| PREDICTED: RPM1-interacting protein 4-like [Cucumis sativus]

 Score =  112 bits (280), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 57/77 (74%), Positives = 61/77 (79%), Gaps = 10/77 (12%)

Query: 1  MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGKVDPPIRHG----- 55
          M+DKGRPLPKFGEWDVNDP SAEGFTVIFNKARDEKKTGGKPDSPGKVD   R+      
Sbjct: 1  MTDKGRPLPKFGEWDVNDPTSAEGFTVIFNKARDEKKTGGKPDSPGKVDAHGRNAPDPAK 60

Query: 56 -----WFCCIQSPSAQS 67
               W CCIQSP+A+S
Sbjct: 61 TPPKKWLCCIQSPTAES 77

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356553503|ref|XP_003545095.1| PREDICTED: RPM1-interacting protein 4-like [Glycine max]

 Score =  108 bits (270), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 56/78 (71%), Positives = 61/78 (78%), Gaps = 11/78 (14%)

Query: 1  MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGKVD-----PPI--- 52
          MSD GRPLPKFGEWDVNDPASAEG+TVIFNKAR+EKKTGGKPDSP KV+     PP+   
Sbjct: 1  MSDTGRPLPKFGEWDVNDPASAEGYTVIFNKARNEKKTGGKPDSPAKVNNPRTRPPLDPS 60

Query: 53 ---RHGWFCCIQSPSAQS 67
                WFCCIQSP A+S
Sbjct: 61 KTQSKKWFCCIQSPPAES 78

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359494187|ref|XP_003634735.1| PREDICTED: RPM1-interacting protein 4-like [Vitis vinifera] gi|296089934|emb|CBI39753.3| unnamed protein product [Vitis vinifera]

 Score =  108 bits (269), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 51/77 (66%), Positives = 60/77 (77%), Gaps = 10/77 (12%)

Query: 1  MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGKVDPPIRHG----- 55
          MSD GRPLPKFGEWDVNDPASAEGFTVIFNKARDEK+TGG+P+SP  V+  ++ G     
Sbjct: 1  MSDNGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKRTGGQPESPANVENNVKQGVEPSK 60

Query: 56 -----WFCCIQSPSAQS 67
               WFCC+Q+P A+S
Sbjct: 61 PQTKKWFCCLQAPRAES 77

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357495103|ref|XP_003617840.1| RPM1-interacting protein [Medicago truncatula] gi|355519175|gb|AET00799.1| RPM1-interacting protein [Medicago truncatula]

 Score =  107 bits (267), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 53/75 (70%), Positives = 59/75 (78%), Gaps = 10/75 (13%)

Query: 3  DKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGKVD----PPIRHG--- 55
          DKGRPLPKFGEWDVNDPASAEG+TVIFNKARDEKKTGGKP+SP K +    PP+ H    
Sbjct: 2  DKGRPLPKFGEWDVNDPASAEGYTVIFNKARDEKKTGGKPESPAKANTQTRPPLEHAKTH 61

Query: 56 ---WFCCIQSPSAQS 67
             WFCC+ SP A+S
Sbjct: 62 GKSWFCCLHSPPAES 76

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224114513|ref|XP_002316782.1| predicted protein [Populus trichocarpa] gi|222859847|gb|EEE97394.1| predicted protein [Populus trichocarpa]

 Score =  107 bits (267), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 56/78 (71%), Positives = 61/78 (78%), Gaps = 11/78 (14%)

Query: 1  MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGK-VDPPIRHG---- 55
          MSD GRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGG+P+SPGK VD  ++ G    
Sbjct: 1  MSDTGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGQPESPGKVVDSHVKPGLNPA 60

Query: 56 ------WFCCIQSPSAQS 67
                WFCCIQSP  +S
Sbjct: 61 KSQPKKWFCCIQSPHVES 78

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356527157|ref|XP_003532179.1| PREDICTED: RPM1-interacting protein 4 [Glycine max] gi|255626713|gb|ACU13701.1| unknown [Glycine max]

 Score =  107 bits (267), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 55/79 (69%), Positives = 61/79 (77%), Gaps = 12/79 (15%)

Query: 1  MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGKV------DPPIRH 54
          MS+KGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGG P+SPGK        P +  
Sbjct: 1  MSEKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGNPESPGKTATDPHSKPAVEP 60

Query: 55 G------WFCCIQSPSAQS 67
          G      WFCC+Q+PSA+S
Sbjct: 61 GKTQTKKWFCCMQNPSAES 79

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356566419|ref|XP_003551429.1| PREDICTED: RPM1-interacting protein 4 [Glycine max]

 Score =  106 bits (265), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 55/79 (69%), Positives = 60/79 (75%), Gaps = 12/79 (15%)

Query: 1  MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGKV------DPPIRH 54
          MS+KGRPLPKFGEWDVNDP SAEGFTVIFNKARDEKKTGG PDSPGK        P +  
Sbjct: 1  MSEKGRPLPKFGEWDVNDPTSAEGFTVIFNKARDEKKTGGNPDSPGKTATDPHSKPAVEP 60

Query: 55 G------WFCCIQSPSAQS 67
          G      WFCC+Q+PSA+S
Sbjct: 61 GKTQTKKWFCCMQNPSAES 79

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359485775|ref|XP_002267619.2| PREDICTED: uncharacterized protein LOC100254625 [Vitis vinifera] gi|296085047|emb|CBI28462.3| unnamed protein product [Vitis vinifera]

 Score =  105 bits (263), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 51/77 (66%), Positives = 59/77 (76%), Gaps = 10/77 (12%)

Query: 1  MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGKVDPPIRHG----- 55
          MS+KG+PLPKFG+WDVNDP SA+GFT+IFNKARDEKKTGGKPDSP K D   +HG     
Sbjct: 1  MSEKGQPLPKFGDWDVNDPTSADGFTMIFNKARDEKKTGGKPDSPAKEDSAFKHGADLGK 60

Query: 56 -----WFCCIQSPSAQS 67
               WFCC+QS  A+S
Sbjct: 61 PQSKKWFCCMQSTYAES 77

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449461053|ref|XP_004148258.1| PREDICTED: RPM1-interacting protein 4-like [Cucumis sativus] gi|449523147|ref|XP_004168586.1| PREDICTED: RPM1-interacting protein 4-like [Cucumis sativus]

 Score =  105 bits (263), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 55/76 (72%), Positives = 60/76 (78%), Gaps = 9/76 (11%)

Query: 1  MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGK-------VDP--P 51
          MS+KG+PLPKFGEWDVN+PASAEGFTVIFNKARDEKKTGG+P+SPGK        DP  P
Sbjct: 1  MSEKGQPLPKFGEWDVNNPASAEGFTVIFNKARDEKKTGGQPESPGKAPRAKNVADPGKP 60

Query: 52 IRHGWFCCIQSPSAQS 67
              WFCCIQSP  QS
Sbjct: 61 QAKKWFCCIQSPPTQS 76

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224056477|ref|XP_002298875.1| predicted protein [Populus trichocarpa] gi|222846133|gb|EEE83680.1| predicted protein [Populus trichocarpa]

 Score =  105 bits (261), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 56/76 (73%), Positives = 57/76 (75%), Gaps = 11/76 (14%)

Query: 3  DKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGKVD-----------PP 51
          D GRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKP+SPGKVD            P
Sbjct: 1  DTGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPESPGKVDDSHVKSGVNPAKP 60

Query: 52 IRHGWFCCIQSPSAQS 67
              WFCCIQSP A S
Sbjct: 61 QPKKWFCCIQSPPADS 76

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	67
TAIR|locus:2058284	73	AT2G04410 "AT2G04410" [Arabido	0.925	0.849	0.680	2.4e-21
TAIR|locus:2176620	130	NOI "AT5G55850" [Arabidopsis t	0.671	0.346	0.977	2.1e-20
TAIR|locus:2162002	80	AT5G63270 "AT5G63270" [Arabido	0.626	0.525	0.739	2.8e-15
TAIR|locus:505006667	73	AT5G40645 "AT5G40645" [Arabido	0.791	0.726	0.606	3.4e-13
TAIR|locus:4010713927	68	AT4G35655 "AT4G35655" [Arabido	0.820	0.808	0.612	7.1e-13
TAIR|locus:2827881	69	AT2G17660 "AT2G17660" [Arabido	0.850	0.826	0.564	1.2e-12
TAIR|locus:2101185	89	AT3G48450 "AT3G48450" [Arabido	0.537	0.404	0.777	8.2e-12
TAIR|locus:2090250	211	RIN4 "RPM1 interacting protein	0.552	0.175	0.540	1.5e-07
TAIR|locus:1009023455	99	AT5G19473 "AT5G19473" [Arabido	0.462	0.313	0.451	0.00073

TAIR|locus:2058284 AT2G04410 "AT2G04410" [Arabidopsis thaliana (taxid:3702)]

 Score = 250 (93.1 bits), Expect = 2.4e-21, P = 2.4e-21
 Identities = 49/72 (68%), Positives = 57/72 (79%)

Query:     1 MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGKVDPPI-RHG---- 55
             M+DKGRPLPKFGEWDVNDP+SAEGFTVIFNKAR+EKK GGK DSPGK +P   ++G    
Sbjct:     1 MADKGRPLPKFGEWDVNDPSSAEGFTVIFNKARNEKKGGGKSDSPGKDEPGYNKNGEVLE 60

Query:    56 -----WFCCIQS 62
                  WFCCI++
Sbjct:    61 KPAKKWFCCIRA 72

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005886 "plasma membrane" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2176620 NOI "AT5G55850" [Arabidopsis thaliana (taxid:3702)]

 Score = 241 (89.9 bits), Expect = 2.1e-20, P = 2.1e-20
 Identities = 44/45 (97%), Positives = 44/45 (97%)

Query:     3 DKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPDSPGK 47
             DKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKP SPGK
Sbjct:    19 DKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGGKPGSPGK 63

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0010167 "response to nitrate" evidence=ISS

GO:0005886 "plasma membrane" evidence=IDA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0048193 "Golgi vesicle transport" evidence=RCA

TAIR|locus:2162002 AT5G63270 "AT5G63270" [Arabidopsis thaliana (taxid:3702)]

 Score = 173 (66.0 bits), Expect = 2.8e-15, Sum P(2) = 2.8e-15
 Identities = 34/46 (73%), Positives = 39/46 (84%)

Query:     3 DKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKT----GGKPDS 44
             +KG+PLPKFGEWDVN+PASAEGFTVIF+KA DEKKT    G  P+S
Sbjct:     4 NKGKPLPKFGEWDVNNPASAEGFTVIFSKASDEKKTKKASGAGPNS 49

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0010167 "response to nitrate" evidence=ISS

TAIR|locus:505006667 AT5G40645 "AT5G40645" [Arabidopsis thaliana (taxid:3702)]

 Score = 173 (66.0 bits), Expect = 3.4e-13, P = 3.4e-13
 Identities = 37/61 (60%), Positives = 41/61 (67%)

Query:     6 RPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGG-------KPDSPGKVDPPIRHGWFC 58
             RPLPKFGEWDVNDPASAEGFTVIF KARD+KKT         + D+    D P +   FC
Sbjct:    13 RPLPKFGEWDVNDPASAEGFTVIFAKARDDKKTNASGRAASQRRDNNKSQDEPTKKR-FC 71

Query:    59 C 59
             C
Sbjct:    72 C 72

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0010167 "response to nitrate" evidence=ISS

TAIR|locus:4010713927 AT4G35655 "AT4G35655" [Arabidopsis thaliana (taxid:3702)]

 Score = 170 (64.9 bits), Expect = 7.1e-13, P = 7.1e-13
 Identities = 38/62 (61%), Positives = 43/62 (69%)

Query:     2 SDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTG---GKPDSPGKVD--PPIRHGW 56
             SD  RPLPKFGEWDVNDPA+AEGFTVIF+KA ++KKTG    K  S  K D   P +  W
Sbjct:     5 SD-ARPLPKFGEWDVNDPATAEGFTVIFSKAGEDKKTGRSSSKAPSQRKQDGVKPTKK-W 62

Query:    57 FC 58
              C
Sbjct:    63 LC 64

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2827881 AT2G17660 "AT2G17660" [Arabidopsis thaliana (taxid:3702)]

 Score = 168 (64.2 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 35/62 (56%), Positives = 43/62 (69%)

Query:     2 SDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTGG---KPDSPGKVD--PPIRHGW 56
             ++ GR LPKFGEWDVNDPA+A+GFTVIF+KA ++KKTG    K +S  K D   P    W
Sbjct:     4 NEAGRALPKFGEWDVNDPATADGFTVIFSKAGEDKKTGRSSTKTNSQRKQDGDKPAVKKW 63

Query:    57 FC 58
              C
Sbjct:    64 LC 65

GO:0003674 "molecular_function" evidence=ND

GO:0010167 "response to nitrate" evidence=ISS

TAIR|locus:2101185 AT3G48450 "AT3G48450" [Arabidopsis thaliana (taxid:3702)]

 Score = 160 (61.4 bits), Expect = 8.2e-12, P = 8.2e-12
 Identities = 28/36 (77%), Positives = 32/36 (88%)

Query:     3 DKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKT 38
             ++ RPLPKFGEWD  +P SAEGFTVIFNKARD+KKT
Sbjct:     5 NRARPLPKFGEWDATNPGSAEGFTVIFNKARDDKKT 40

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0010167 "response to nitrate" evidence=ISS

TAIR|locus:2090250 RIN4 "RPM1 interacting protein 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 121 (47.7 bits), Expect = 1.5e-07, P = 1.5e-07
 Identities = 20/37 (54%), Positives = 30/37 (81%)

Query:     3 DKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTG 39
             +K   +PKFG+WD N+P+SA+G+T IFNK R+E+ +G
Sbjct:   143 EKVTVVPKFGDWDENNPSSADGYTHIFNKVREERSSG 179

GO:0005634 "nucleus" evidence=ISM

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0006468 "protein phosphorylation" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA;TAS

GO:0002237 "response to molecule of bacterial origin" evidence=RCA;IMP

GO:0010204 "defense response signaling pathway, resistance gene-independent" evidence=IMP

GO:0034051 "negative regulation of plant-type hypersensitive response" evidence=IMP

GO:0019897 "extrinsic to plasma membrane" evidence=IDA

GO:0009617 "response to bacterium" evidence=RCA

GO:0045087 "innate immune response" evidence=RCA

TAIR|locus:1009023455 AT5G19473 "AT5G19473" [Arabidopsis thaliana (taxid:3702)]

 Score = 85 (35.0 bits), Expect = 0.00073, P = 0.00072
 Identities = 14/31 (45%), Positives = 21/31 (67%)

Query:     7 PLPKFGEWDVNDPASAEGFTVIFNKARDEKK 37
             P+P+FG WD   P  A  ++V+F+KAR  +K
Sbjct:    12 PVPQFGGWDQKGPNDATNYSVVFSKARANRK 42


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        0.314   0.136   0.450    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       67        67   0.00091  102 3  12 23  0.39    29
                                                     29  0.49    28


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:  9
  No. of states in DFA:  456 (49 KB)
  Total size of DFA:  80 KB (2064 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  6.14u 0.16s 6.30t   Elapsed:  00:00:00
  Total cpu time:  6.14u 0.16s 6.30t   Elapsed:  00:00:00
  Start:  Fri May 10 07:45:50 2013   End:  Fri May 10 07:45:50 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	67
pfam05627	39	pfam05627, AvrRpt-cleavage, Cleavage site for path	7e-16

>gnl|CDD|203293 pfam05627, AvrRpt-cleavage, Cleavage site for pathogenic type III effector avirulence factor Avr

 Score = 63.4 bits (154), Expect = 7e-16
 Identities = 30/39 (76%), Positives = 32/39 (82%)

Query: 1  MSDKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTG 39
              G  +PKFGEWD N+PASAEGFTVIFNKARDEKKTG
Sbjct: 1  TQVAGSAVPKFGEWDENNPASAEGFTVIFNKARDEKKTG 39

This domain is conserved in small families of otherwise unrelated proteins in both mono-cots and di-cots, suggesting that it has a conserved, plant-specific function. It is found both in the plant RIN4 (resistance R membrane-bound host-target protein) where it appears to contribute to the binding of the protein to both RCS (AvrRpt2 auto-cleavage site) and AvrB, the virulence factor from the infecting bacterium. The cleavage site for the AvrRpt2 avirulence protein would appear to be the sequence motifs VPQFGDW and LPKFGEW, both of which are highly conserved within the domain. Length = 39

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	67
PF05627	39	AvrRpt-cleavage: Cleavage site for pathogenic type	99.85

>PF05627 AvrRpt-cleavage: Cleavage site for pathogenic type III effector avirulence factor Avr; InterPro: IPR008700 This domain is conserved in small families of otherwise unrelated proteins in both mono-cots and di-cots, suggesting that it has a conserved, plant-specific function

Probab=99.85  E-value=7.3e-23  Score=116.06  Aligned_cols=37  Identities=76%  Similarity=1.278  Sum_probs=13.9

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCceehhHHHHHhhhcC
Q 035345            3 DKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEKKTG   39 (67)
Q Consensus         3 ~~~~~VPKFG~WD~~~p~sa~~yTviF~KaReeKk~~   39 (67)
                      +++++|||||+||++||+++++|||||+|||++||++
T Consensus         3 ~~~~~vPkFG~WD~~~~~~~~~yT~iF~kar~~Kk~~   39 (39)
T PF05627_consen    3 QKGSHVPKFGEWDENNPASAEGYTVIFEKAREEKKTG   39 (39)
T ss_dssp             ---------SGGGTT-TT---SS-EEEE---------
T ss_pred             cCCCCCCCCCcccCCCCCCCCCeeehHHHHhhhccCC
Confidence            5679999999999999999999999999999999974

It is found both in the plant RIN4 (resistance R membrane-bound host-target protein) where it appears to contribute to the binding of the protein to both RCS (AvrRpt2 auto-cleavage site) and AvrB, the virulence factor from the infecting bacterium []. The cleavage site for the AvrRpt2 avirulence protein would appear to be the sequence motifs VPQFGDW and LPKFGEW, both of which are highly conserved within the domain []. ; PDB: 2NUD_C.

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	67
2nud_C	35	The Structure Of The Type Iii Effector Avrb Complex		5e-06

>pdb|2NUD|C Chain C, The Structure Of The Type Iii Effector Avrb Complexed With A High-Affinity Rin4 Peptide Length = 35

Iteration: 1
 Score = 45.8 bits (107), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 19/34 (55%), Positives = 28/34 (82%)
Query: 3  DKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEK 36
          +K   +PKFG+WD N+P+SA+G+T IFNK R+E+
Sbjct: 2  EKVTVVPKFGDWDENNPSSADGYTHIFNKVREER 35

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	67
2nud_C	35	RIN4, RPM1-interacting protein 4; AVRB RIN4 high-a	3e-13

>2nud_C RIN4, RPM1-interacting protein 4; AVRB RIN4 high-affinity toxin/protein binding complex; 2.30A {Pseudomonas syringae PV} Length = 35

 Score = 56.2 bits (135), Expect = 3e-13
 Identities = 19/34 (55%), Positives = 28/34 (82%)

Query: 3  DKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEK 36
          +K   +PKFG+WD N+P+SA+G+T IFNK R+E+
Sbjct: 2  EKVTVVPKFGDWDENNPSSADGYTHIFNKVREER 35

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	67
2nud_C	35	RIN4, RPM1-interacting protein 4; AVRB RIN4 high-a	99.85

>2nud_C RIN4, RPM1-interacting protein 4; AVRB RIN4 high-affinity toxin/protein binding complex; 2.30A {Pseudomonas syringae PV}

Probab=99.85  E-value=9.2e-23  Score=112.69  Aligned_cols=34  Identities=56%  Similarity=1.102  Sum_probs=22.9

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCceehhHHHHHhh
Q 035345            3 DKGRPLPKFGEWDVNDPASAEGFTVIFNKARDEK   36 (67)
Q Consensus         3 ~~~~~VPKFG~WD~~~p~sa~~yTviF~KaReeK   36 (67)
                      +++++|||||+||++||+++++|||||+|||++|
T Consensus         2 ~~~~~vPkFG~WD~~n~~s~~~yT~iF~k~re~K   35 (35)
T 2nud_C            2 EKVTVVPKFGDWDENNPSSADGYTHIFNKVREER   35 (35)
T ss_dssp             -------CCSGGGTTCTTCCCSSCEEEECC----
T ss_pred             CCCCCCCCCCcccCCCCCCCCCEeehhhhhhhcC
Confidence            5789999999999999999999999999999997

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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