Citrus Sinensis ID: 034223

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-
Protein Sequence
MDLKVVMMLFMVAAAVVDSSAHGSSSWGRINNINRVEDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRPTATAPRRSDSLD
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHccccccccccccEEcccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHcccccccccEEccccccccccccccccHcHHHHHccccEEEHHHHHccccccccccccEEcccccccccccccccccccccc
Coil and Loop (DISEMBL)
MDLKVVMMLFMVAAAVVdssahgssswgrinninrvedpnemlmpteDSRRQLLGTWYSsygalegnsvpcdapgssyyncngrglsrptataprrsdsld
Flexible Loop (DISEMBL)
MDLKVVMMLFMVAAAVVdssahgssswgrinnINRVEDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYyncngrglsrptataprrsdsld
Low Complexity Region (SEG)
MDLKvvmmlfmvaaavvDSSAHGSSSWGRINNINRVEDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRPTATAPRRSDSLD
Disordered region (IsUnstruct)
***KVVMMLFMVAAAVVDS*******WGRIN********************QLLGTWYSSYGALEGNSVPCDAP**SYYNC********************
Disordered Region (DISOPRED)
*DLKVVMMLFMVAAAVVDSSAHGSSSWGRINNINRVEDPN**********RQLLGTWYSSYGALEGNSVPCDAPGSSYYN*********************
Disordered Region (DISEMBL)
MDLKVVMMLFMVAAAVV*********WGRINNINRVEDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRGL***************
Disordered Region (DISPRO)
MDLKVVMMLFMVAAAVVDSSAHGSSSWGRINNINRVEDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGR*****************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDLKVVMMLFMVAAAVVDSSAHGSSSWGRINNINRVEDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRPTATAPRRSDSLD
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]
Q8L9P8	116	Protein RALF-like 33 OS=A	yes	no	0.782	0.681	0.373	2e-06
Q9FZA0	110	Protein RALF-like 4 OS=Ar	no	no	0.881	0.809	0.329	8e-06
Q2HIM9	113	Protein RALF-like 31 OS=A	no	no	0.732	0.654	0.402	3e-05
Q6NME6	110	Protein RALF-like 19 OS=A	no	no	0.485	0.445	0.48	4e-05
Q945T0	115	Rapid alkalinization fact	N/A	no	0.752	0.660	0.360	4e-05
Q9SRY3	120	Protein RALF-like 1 OS=Ar	no	no	0.623	0.525	0.394	0.0002
Q9MA62	119	Protein RALF-like 22 OS=A	no	no	0.366	0.310	0.540	0.0004

>sp|Q8L9P8|RLF33_ARATH Protein RALF-like 33 OS=Arabidopsis thaliana GN=RALFL33 PE=2 SV=1

 Score = 51.2 bits (121), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 31/83 (37%), Positives = 41/83 (49%), Gaps = 4/83 (4%)

Query: 3  LKVVMMLFMVAAAVVDSSAH----GSSSWGRINNINRVEDPNEMLMPTEDSRRQLLGTWY 58
          + ++ + F+ AA    SS       S   G I   +      E  M +E +RR L  T Y
Sbjct: 13 IAILTVHFLFAAVTSQSSGDFVPIESKCNGTIAECSLSTAEEEFEMDSEINRRILATTKY 72

Query: 59 SSYGALEGNSVPCDAPGSSYYNC 81
           SYGAL  N+VPC   G+SYYNC
Sbjct: 73 ISYGALRRNTVPCSRRGASYYNC 95

Cell signaling peptide that may regulate plant stress, growth, and development. Mediates a rapid alkalinization of extracellular space by mediating a transient increase in the cytoplasmic Ca(2+) concentration leading to a calcium-dependent signaling events through a cell surface receptor and a concomitant activation of some intracellular mitogen-activated protein kinases.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9FZA0|RLF4_ARATH Protein RALF-like 4 OS=Arabidopsis thaliana GN=RALFL4 PE=3 SV=1

 Score = 49.3 bits (116), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 31/94 (32%), Positives = 52/94 (55%), Gaps = 5/94 (5%)

Query: 1  MDLKVVMMLFMVAAAVVDSSAHGSSSWGR--INNINRVEDPNEM--LMPTEDSRRQLL-G 55
          M +K++++  ++  A+V  S + +    +  IN    + + +E+  LM +E +RRQL  G
Sbjct: 1  MGVKMLLIFGLLILAMVAKSVNATYPLTKSCINGQGCIGEDDELESLMDSETNRRQLARG 60

Query: 56 TWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
            Y  Y AL+ N+VPC   G SYY+C  R  + P
Sbjct: 61 RRYIGYDALKKNNVPCSRRGRSYYDCKKRRRNNP 94

Cell signaling peptide that may regulate plant stress, growth, and development. Mediates a rapid alkalinization of extracellular space by mediating a transient increase in the cytoplasmic Ca(2+) concentration leading to a calcium-dependent signaling events through a cell surface receptor and a concomitant activation of some intracellular mitogen-activated protein kinases.

Arabidopsis thaliana (taxid: 3702)

>sp|Q2HIM9|RLF31_ARATH Protein RALF-like 31 OS=Arabidopsis thaliana GN=RALFL31 PE=3 SV=1

 Score = 47.0 bits (110), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 31/77 (40%), Positives = 39/77 (50%), Gaps = 3/77 (3%)

Query: 6  VMMLFMVAAAVVDSSAHGSSSWGRINNINRVEDPNEMLMPTEDSRRQLLGTW-YSSYGAL 64
          ++ L + A A    S +G      I N    ED  E LMPTE SRR L+    Y  Y  L
Sbjct: 12 ILFLLISADAFPIPSPNGEIDAMLIRNSIIGED--EDLMPTEISRRVLMAQKRYIGYETL 69

Query: 65 EGNSVPCDAPGSSYYNC 81
            + VPC  PG+SYY+C
Sbjct: 70 RRDMVPCQKPGASYYDC 86

Cell signaling peptide that may regulate plant stress, growth, and development. Mediates a rapid alkalinization of extracellular space by mediating a transient increase in the cytoplasmic Ca(2+) concentration leading to a calcium-dependent signaling events through a cell surface receptor and a concomitant activation of some intracellular mitogen-activated protein kinases.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NME6|RLF19_ARATH Protein RALF-like 19 OS=Arabidopsis thaliana GN=RALFL19 PE=3 SV=1

 Score = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/50 (48%), Positives = 30/50 (60%), Gaps = 1/50 (2%)

Query: 41 EMLMPTEDSRRQLLGTW-YSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
          + LM +E +RRQL     Y SYGAL  N+VPC   G SYY+C  R  + P
Sbjct: 45 DYLMDSETNRRQLAARRSYISYGALRKNNVPCSRRGRSYYDCKKRKRANP 94

Cell signaling peptide that may regulate plant stress, growth, and development. Mediates a rapid alkalinization of extracellular space by mediating a transient increase in the cytoplasmic Ca(2+) concentration leading to a calcium-dependent signaling events through a cell surface receptor and a concomitant activation of some intracellular mitogen-activated protein kinases.

Arabidopsis thaliana (taxid: 3702)

>sp|Q945T0|RALF_TOBAC Rapid alkalinization factor OS=Nicotiana tabacum GN=RALF PE=1 SV=1

 Score = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 31/86 (36%), Positives = 42/86 (48%), Gaps = 10/86 (11%)

Query: 5  VVMMLFMVAAAVVDSSAH--------GSSSWGRINNINRVEDPNEMLMPTEDSRRQLLGT 56
          ++   F+  AA  DS A+        G    G I     + +  E  + +E +RR L   
Sbjct: 12 LIGAFFISMAAAGDSGAYDWVMPARSGGGCKGSIGEC--IAEEEEFELDSESNRRILATK 69

Query: 57 WYSSYGALEGNSVPCDAPGSSYYNCN 82
           Y SYGAL+ NSVPC   G+SYYNC 
Sbjct: 70 KYISYGALQKNSVPCSRRGASYYNCK 95

Cell signaling peptide that may regulate plant stress, growth, and development. Mediates a rapid alkalinization of extracellular space by mediating a transient increase in the cytoplasmic Ca(2+) concentration leading to a calcium-dependent signaling events through a cell surface receptor and a concomitant activation of some intracellular mitogen-activated protein kinases. Prevents root growth and seedling development in heterologous system.

Nicotiana tabacum (taxid: 4097)

>sp|Q9SRY3|RLF1_ARATH Protein RALF-like 1 OS=Arabidopsis thaliana GN=RALF1 PE=1 SV=1

 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/71 (39%), Positives = 34/71 (47%), Gaps = 8/71 (11%)

Query: 19  SSAHGSSSWGRINNINRVEDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSY 78
           S  HGS        I       E  M +E +RR L  T Y SY +L+ NSVPC   G+SY
Sbjct: 45  SGCHGS--------IAECIGAEEEEMDSEINRRILATTKYISYQSLKRNSVPCSRRGASY 96

Query: 79  YNCNGRGLSRP 89
           YNC     + P
Sbjct: 97  YNCQNGAQANP 107

Cell signaling peptide that may regulate plant stress, growth, and development. Mediates a rapid alkalinization of extracellular space by mediating a transient increase in the cytoplasmic Ca(2+) concentration leading to a calcium-dependent signaling events through a cell surface receptor and a concomitant activation of some intracellular mitogen-activated protein kinases. Mostly active in roots. Prevents plant growth (e.g. root and leaf length).

Arabidopsis thaliana (taxid: 3702)

>sp|Q9MA62|RLF22_ARATH Protein RALF-like 22 OS=Arabidopsis thaliana GN=RALFL22 PE=3 SV=1

 Score = 43.1 bits (100), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 20/37 (54%), Positives = 24/37 (64%)

Query: 46 TEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCN 82
          ++ SRR L    Y SYGA+  NSVPC   G+SYYNC 
Sbjct: 63 SDISRRILAQKKYISYGAMRRNSVPCSRRGASYYNCQ 99

Cell signaling peptide that may regulate plant stress, growth, and development. Mediates a rapid alkalinization of extracellular space by mediating a transient increase in the cytoplasmic Ca(2+) concentration leading to a calcium-dependent signaling events through a cell surface receptor and a concomitant activation of some intracellular mitogen-activated protein kinases.

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	101
358346090	111	RALF [Medicago truncatula] gi|355503040|	0.881	0.801	0.378	7e-10
356548704	111	PREDICTED: uncharacterized protein LOC10	0.534	0.486	0.527	7e-07
388516439	110	unknown [Lotus japonicus]	0.683	0.627	0.430	9e-07
351725569	111	uncharacterized protein LOC100306584 pre	0.534	0.486	0.509	2e-06
116790941	121	unknown [Picea sitchensis] gi|224286958|	0.821	0.685	0.378	5e-06
356564045	120	PREDICTED: uncharacterized protein LOC10	0.504	0.425	0.508	6e-06
224123582	120	predicted protein [Populus trichocarpa]	0.534	0.45	0.5	6e-06
224285313	121	unknown [Picea sitchensis]	0.821	0.685	0.378	7e-06
116782892	122	unknown [Picea sitchensis]	0.574	0.475	0.482	9e-06
28628203	120	rapid alkalinization factor 1 precursor	0.534	0.45	0.5	9e-06

>gi|358346090|ref|XP_003637105.1| RALF [Medicago truncatula] gi|355503040|gb|AES84243.1| RALF [Medicago truncatula]

 Score = 68.2 bits (165), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 36/95 (37%), Positives = 54/95 (56%), Gaps = 6/95 (6%)

Query: 1  MDLKVVMMLFMVAAAVVDSSAHGSS----SWGRINNINRVEDPNEMLMPTEDSRRQLLGT 56
          +++K  +M F +A  +   SA  S     ++  +   + + D NEMLM +E +RR L G 
Sbjct: 2  LNIKSWIMFFFLAMLIAMVSAEASKVHDFTFASVRVGDLIGDDNEMLMDSESNRRTLAGR 61

Query: 57 W--YSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
             Y SYGAL+ N++PC   G SYY+CN RG + P
Sbjct: 62 KRRYISYGALKANNIPCGQKGQSYYDCNARGQANP 96

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356548704|ref|XP_003542740.1| PREDICTED: uncharacterized protein LOC100775865 [Glycine max]

 Score = 58.2 bits (139), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 29/55 (52%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 36 VEDPNEMLMPTEDSRRQLLGTW-YSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
          + D NEML+ +E +RR L G   Y SYGAL  N+VPC   G SYYNC  RG + P
Sbjct: 41 IGDDNEMLLDSESNRRTLTGRQRYISYGALNANNVPCGNRGRSYYNCQQRGRANP 95

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388516439|gb|AFK46281.1| unknown [Lotus japonicus]

 Score = 57.8 bits (138), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 31/72 (43%), Positives = 41/72 (56%), Gaps = 3/72 (4%)

Query: 19 SSAHGSSSWGRINNINRVEDPNEMLMPTEDSRRQLLGT-WYSSYGALEGNSVPCDAPGSS 77
          S  H    +G + ++  + + NEML+ +E SRR L G   Y SYGAL+   VPC   G S
Sbjct: 24 SKVHDFGYYGVVGDV--IGEDNEMLLDSEASRRTLRGRRGYISYGALKAGQVPCGRRGRS 81

Query: 78 YYNCNGRGLSRP 89
          YYNC  RG + P
Sbjct: 82 YYNCQQRGRANP 93

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351725569|ref|NP_001237097.1| uncharacterized protein LOC100306584 precursor [Glycine max] gi|255628965|gb|ACU14827.1| unknown [Glycine max]

 Score = 56.2 bits (134), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/55 (50%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 36 VEDPNEMLMPTEDSRRQLLGT-WYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
          + D NEML+ ++ +RR L G   Y SYGAL  N+VPC   G SYYNC  RG + P
Sbjct: 41 IGDDNEMLLDSKTNRRTLAGRRQYISYGALNANNVPCGNRGRSYYNCQQRGRANP 95

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|116790941|gb|ABK25798.1| unknown [Picea sitchensis] gi|224286958|gb|ACN41181.1| unknown [Picea sitchensis]

 Score = 55.1 bits (131), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 36/95 (37%), Positives = 48/95 (50%), Gaps = 12/95 (12%)

Query: 7   MMLFMVAAAVVDSSAHGSS--SWGRINN----------INRVEDPNEMLMPTEDSRRQLL 54
           ++L  V +A +  SA GS   +WG + +          I    + +EM M +E +RR L 
Sbjct: 11  LLLLSVLSADLIGSAAGSEMDAWGVLWDSKPRPRCEGLIGECFEEDEMQMDSEINRRFLA 70

Query: 55  GTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
           G  Y SY AL  NSVPC   GSSYYNC     + P
Sbjct: 71  GRTYISYAALRANSVPCSKRGSSYYNCRSTSQANP 105

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356564045|ref|XP_003550267.1| PREDICTED: uncharacterized protein LOC100775931 [Glycine max]

 Score = 54.7 bits (130), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 29/57 (50%), Positives = 34/57 (59%), Gaps = 6/57 (10%)

Query: 37  EDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRPTATA 93
           +D  E LM +E +RR L G  Y SYGAL  N+VPC   G+SYYNC      RP A A
Sbjct: 55  DDDTEFLMESESNRRILAGRSYISYGALRRNTVPCSRRGASYYNC------RPGAQA 105

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123582|ref|XP_002330157.1| predicted protein [Populus trichocarpa] gi|118484425|gb|ABK94089.1| unknown [Populus trichocarpa] gi|222871613|gb|EEF08744.1| predicted protein [Populus trichocarpa]

 Score = 54.7 bits (130), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 31/62 (50%), Positives = 35/62 (56%), Gaps = 8/62 (12%)

Query: 37  EDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCN--------GRGLSR 88
           ED  E  M TE +RR L  T Y SYGAL+ N+VPC   G+SYYNC          RG SR
Sbjct: 55  EDGEEFEMDTEINRRILATTKYVSYGALQRNNVPCSRRGASYYNCQRGAQANPYSRGCSR 114

Query: 89  PT 90
            T
Sbjct: 115 IT 116

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224285313|gb|ACN40381.1| unknown [Picea sitchensis]

 Score = 54.7 bits (130), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 36/95 (37%), Positives = 48/95 (50%), Gaps = 12/95 (12%)

Query: 7   MMLFMVAAAVVDSSAHGSS--SWGRINN----------INRVEDPNEMLMPTEDSRRQLL 54
           ++L  V +A +  SA GS   +WG + +          I    + +EM M +E +RR L 
Sbjct: 11  LLLLSVLSADLIGSAAGSEMDAWGVLWDSKPRPRCEGLIGECFEEDEMQMDSEINRRFLA 70

Query: 55  GTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
           G  Y SY AL  NSVPC   GSSYYNC     + P
Sbjct: 71  GRTYISYAALRANSVPCSRRGSSYYNCRSTSQANP 105

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|116782892|gb|ABK22709.1| unknown [Picea sitchensis]

 Score = 54.3 bits (129), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 28/58 (48%), Positives = 33/58 (56%)

Query: 32  NINRVEDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
           +I    +  EM M +E +RR L G  Y SYGAL  NSVPC   GSSYYNC     + P
Sbjct: 49  SIGECFEDEEMQMDSEINRRFLAGRTYVSYGALRSNSVPCSRRGSSYYNCGSTSQANP 106

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|28628203|gb|AAO27366.1| rapid alkalinization factor 1 precursor [Populus trichocarpa x Populus deltoides]

 Score = 54.3 bits (129), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 31/62 (50%), Positives = 35/62 (56%), Gaps = 8/62 (12%)

Query: 37  EDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCN--------GRGLSR 88
           ED  E  M TE +RR L  T Y SYGAL+ N+VPC   G+SYYNC          RG SR
Sbjct: 55  EDGEEFEMDTEINRRILATTKYVSYGALQRNNVPCSRRGASYYNCQRGAQANPYSRGCSR 114

Query: 89  PT 90
            T
Sbjct: 115 IT 116

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

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	101
UNIPROTKB|Q945T0	115	RALF "Rapid alkalinization fac	0.534	0.469	0.425	3.8e-07
TAIR|locus:2032195	110	RALFL4 "ralf-like 4" [Arabidop	0.524	0.481	0.462	4.8e-07
TAIR|locus:2130724	116	RALFL33 "ralf-like 33" [Arabid	0.435	0.379	0.555	6.1e-07
TAIR|locus:2079787	119	RALFL22 "ralf-like 22" [Arabid	0.613	0.521	0.454	7.8e-07
TAIR|locus:504955964	110	RALFL19 "ralf-like 19" [Arabid	0.485	0.445	0.48	1e-06
TAIR|locus:2024730	120	RALF1 "rapid alkalinization fa	0.643	0.541	0.397	2.1e-06
TAIR|locus:2089323	138	RALF23 "rapid alkalinization f	0.435	0.318	0.511	3.4e-06
TAIR|locus:2129261	113	RALFL31 "ralf-like 31" [Arabid	0.475	0.424	0.469	3.4e-06
TAIR|locus:505006366	118	RALFL24 "ralf-like 24" [Arabid	0.445	0.381	0.456	7e-06

UNIPROTKB|Q945T0 RALF "Rapid alkalinization factor" [Nicotiana tabacum (taxid:4097)]

 Score = 116 (45.9 bits), Expect = 3.8e-07, P = 3.8e-07
 Identities = 23/54 (42%), Positives = 31/54 (57%)

Query:    36 VEDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
             + +  E  + +E +RR L    Y SYGAL+ NSVPC   G+SYYNC     + P
Sbjct:    49 IAEEEEFELDSESNRRILATKKYISYGALQKNSVPCSRRGASYYNCKPGAQANP 102

GO:0004871 "signal transducer activity" evidence=IDA

GO:0005179 "hormone activity" evidence=IDA

GO:0019722 "calcium-mediated signaling" evidence=IDA

TAIR|locus:2032195 RALFL4 "ralf-like 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 115 (45.5 bits), Expect = 4.8e-07, P = 4.8e-07
 Identities = 25/54 (46%), Positives = 32/54 (59%)

Query:    37 EDPNEMLMPTEDSRRQLL-GTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
             +D  E LM +E +RRQL  G  Y  Y AL+ N+VPC   G SYY+C  R  + P
Sbjct:    41 DDELESLMDSETNRRQLARGRRYIGYDALKKNNVPCSRRGRSYYDCKKRRRNNP 94

GO:0005576 "extracellular region" evidence=ISM

GO:0004871 "signal transducer activity" evidence=TAS

GO:0007267 "cell-cell signaling" evidence=ISS

GO:0048046 "apoplast" evidence=ISS

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

TAIR|locus:2130724 RALFL33 "ralf-like 33" [Arabidopsis thaliana (taxid:3702)]

 Score = 114 (45.2 bits), Expect = 6.1e-07, P = 6.1e-07
 Identities = 25/45 (55%), Positives = 29/45 (64%)

Query:    41 EMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRG 85
             E  M +E +RR L  T Y SYGAL  N+VPC   G+SYYNC  RG
Sbjct:    55 EFEMDSEINRRILATTKYISYGALRRNTVPCSRRGASYYNCR-RG 98

GO:0005576 "extracellular region" evidence=ISM

GO:0004871 "signal transducer activity" evidence=TAS

GO:0007267 "cell-cell signaling" evidence=ISS

GO:0048046 "apoplast" evidence=ISS

GO:0009505 "plant-type cell wall" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2079787 RALFL22 "ralf-like 22" [Arabidopsis thaliana (taxid:3702)]

 Score = 113 (44.8 bits), Expect = 7.8e-07, P = 7.8e-07
 Identities = 30/66 (45%), Positives = 37/66 (56%)

Query:    23 GSSSW--GRINNINR-VEDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYY 79
             GSSS   G   +I   + +  EM   ++ SRR L    Y SYGA+  NSVPC   G+SYY
Sbjct:    37 GSSSLFSGCTGSIAECIAEEEEMEFDSDISRRILAQKKYISYGAMRRNSVPCSRRGASYY 96

Query:    80 NCNGRG 85
             NC  RG
Sbjct:    97 NCQ-RG 101

GO:0005576 "extracellular region" evidence=ISM

GO:0004871 "signal transducer activity" evidence=TAS

GO:0007267 "cell-cell signaling" evidence=ISS

GO:0048046 "apoplast" evidence=ISS

GO:0009506 "plasmodesma" evidence=IDA

GO:0006598 "polyamine catabolic process" evidence=RCA

GO:0009698 "phenylpropanoid metabolic process" evidence=RCA

GO:0042398 "cellular modified amino acid biosynthetic process" evidence=RCA

GO:0048767 "root hair elongation" evidence=RCA

TAIR|locus:504955964 RALFL19 "ralf-like 19" [Arabidopsis thaliana (taxid:3702)]

 Score = 112 (44.5 bits), Expect = 1.0e-06, P = 1.0e-06
 Identities = 24/50 (48%), Positives = 30/50 (60%)

Query:    41 EMLMPTEDSRRQLLGTW-YSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
             + LM +E +RRQL     Y SYGAL  N+VPC   G SYY+C  R  + P
Sbjct:    45 DYLMDSETNRRQLAARRSYISYGALRKNNVPCSRRGRSYYDCKKRKRANP 94

GO:0005576 "extracellular region" evidence=ISM

GO:0004871 "signal transducer activity" evidence=TAS

GO:0007267 "cell-cell signaling" evidence=ISS

GO:0048046 "apoplast" evidence=ISS

TAIR|locus:2024730 RALF1 "rapid alkalinization factor 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 109 (43.4 bits), Expect = 2.1e-06, P = 2.1e-06
 Identities = 27/68 (39%), Positives = 35/68 (51%)

Query:    22 HGSSSWGRINNINRVEDPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNC 81
             +GS   G I      E+     M +E +RR L  T Y SY +L+ NSVPC   G+SYYNC
Sbjct:    43 NGSGCHGSIAECIGAEEEE---MDSEINRRILATTKYISYQSLKRNSVPCSRRGASYYNC 99

Query:    82 NGRGLSRP 89
                  + P
Sbjct:   100 QNGAQANP 107

GO:0005576 "extracellular region" evidence=ISM

GO:0004871 "signal transducer activity" evidence=TAS

GO:0007267 "cell-cell signaling" evidence=ISS

GO:0048046 "apoplast" evidence=ISS

GO:0019722 "calcium-mediated signaling" evidence=IDA

TAIR|locus:2089323 RALF23 "rapid alkalinization factor 23" [Arabidopsis thaliana (taxid:3702)]

 Score = 107 (42.7 bits), Expect = 3.4e-06, P = 3.4e-06
 Identities = 23/45 (51%), Positives = 28/45 (62%)

Query:    41 EMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRG 85
             E  M +E +RR L    Y SYGAL  N++PC   G+SYYNC  RG
Sbjct:    76 EFEMDSEINRRILATRRYISYGALRRNTIPCSRRGASYYNCR-RG 119

GO:0005576 "extracellular region" evidence=ISM

GO:0004871 "signal transducer activity" evidence=TAS

GO:0007267 "cell-cell signaling" evidence=ISS

GO:0048046 "apoplast" evidence=ISS

GO:0009741 "response to brassinosteroid stimulus" evidence=IEP

GO:0045926 "negative regulation of growth" evidence=IMP

GO:0030003 "cellular cation homeostasis" evidence=RCA

GO:0070838 "divalent metal ion transport" evidence=RCA

TAIR|locus:2129261 RALFL31 "ralf-like 31" [Arabidopsis thaliana (taxid:3702)]

 Score = 107 (42.7 bits), Expect = 3.4e-06, P = 3.4e-06
 Identities = 23/49 (46%), Positives = 29/49 (59%)

Query:    34 NRVEDPNEMLMPTEDSRRQLLGTW-YSSYGALEGNSVPCDAPGSSYYNC 81
             N +   +E LMPTE SRR L+    Y  Y  L  + VPC  PG+SYY+C
Sbjct:    38 NSIIGEDEDLMPTEISRRVLMAQKRYIGYETLRRDMVPCQKPGASYYDC 86

GO:0005576 "extracellular region" evidence=ISM

GO:0004871 "signal transducer activity" evidence=TAS

GO:0007267 "cell-cell signaling" evidence=ISS

GO:0048046 "apoplast" evidence=ISS

TAIR|locus:505006366 RALFL24 "ralf-like 24" [Arabidopsis thaliana (taxid:3702)]

 Score = 104 (41.7 bits), Expect = 7.0e-06, P = 7.0e-06
 Identities = 21/46 (45%), Positives = 28/46 (60%)

Query:    37 EDPNEMLMPTEDSRR-QLLGTWYSSYGALEGNSVPCDAPGSSYYNC 81
             E+  E +MP+E SRR  ++   Y SY  L  + VPC  PG+SYY C
Sbjct:    46 EEEGEEMMPSEISRRVMMMRKQYISYETLRRDMVPCQKPGASYYAC 91


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        0.310   0.128   0.393    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        88   0.00091  102 3  11 23  0.41    30
                                                     29  0.49    30


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:  574 (61 KB)
  Total size of DFA:  119 KB (2077 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:  10.09u 0.11s 10.20t   Elapsed:  00:00:00
  Total cpu time:  10.09u 0.11s 10.20t   Elapsed:  00:00:00
  Start:  Mon May 20 15:42:33 2013   End:  Mon May 20 15:42:33 2013

GO:0005576 "extracellular region" evidence=ISM

GO:0004871 "signal transducer activity" evidence=TAS

GO:0007267 "cell-cell signaling" evidence=ISS

GO:0048046 "apoplast" evidence=ISS

---

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

No confident hit detected by STRING

---

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
pfam05498	66	pfam05498, RALF, Rapid ALkalinization Factor (RALF	1e-08
PLN03222	119	PLN03222, PLN03222, rapid alkalinization factor 23	3e-08
PLN03221	137	PLN03221, PLN03221, rapid alkalinization factor 23	6e-07

>gnl|CDD|218610 pfam05498, RALF, Rapid ALkalinization Factor (RALF)

 Score = 47.4 bits (113), Expect = 1e-08
 Identities = 21/41 (51%), Positives = 25/41 (60%)

Query: 41 EMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNC 81
           ++M +   RR L    Y SYGAL  NSVPC   G+SYYNC
Sbjct: 5  LVVMDSPAGRRVLAARRYISYGALRRNSVPCSRRGASYYNC 45

RALF, a 5-kDa ubiquitous polypeptide in plants, arrests root growth and development. Length = 66

>gnl|CDD|178761 PLN03222, PLN03222, rapid alkalinization factor 23-like protein; Provisional

 Score = 47.0 bits (111), Expect = 3e-08
 Identities = 24/49 (48%), Positives = 29/49 (59%)

Query: 41  EMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
           E  M +E +RR L  T Y SYGAL  N+VPC   G+SYYNC     + P
Sbjct: 58  EFEMDSEINRRILATTKYISYGALRRNTVPCSRRGASYYNCRRGAQANP 106

Length = 119

>gnl|CDD|178760 PLN03221, PLN03221, rapid alkalinization factor 23; Provisional

 Score = 44.3 bits (104), Expect = 6e-07
 Identities = 22/49 (44%), Positives = 28/49 (57%)

Query: 41  EMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP 89
           E  M +E +RR L    Y SYGAL  N++PC   G+SYYNC     + P
Sbjct: 76  EFEMDSEINRRILATRRYISYGALRRNTIPCSRRGASYYNCRRGAQANP 124

Length = 137

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	101
PLN03222	119	rapid alkalinization factor 23-like protein; Provi	100.0
PLN03221	137	rapid alkalinization factor 23; Provisional	99.97
PF05498	66	RALF: Rapid ALkalinization Factor (RALF) ; InterPr	99.92
PF07172	95	GRP: Glycine rich protein family; InterPro: IPR010	81.66

>PLN03222 rapid alkalinization factor 23-like protein; Provisional

Probab=100.00  E-value=5.1e-36  Score=215.10  Aligned_cols=87  Identities=34%  Similarity=0.510  Sum_probs=75.9

Q ss_pred             HHHHHHHhccccCCc-CC----cccccc-cccc---CCccccCCchhhhhcccCccccccCCCCCCCCCCCCCCCCcccC
Q 034223           11 MVAAAVVDSSAHGSS-SW----GRINNI-NRVE---DPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNC   81 (101)
Q Consensus        11 ~l~la~v~~~a~~~~-~~----~~C~Gs-~Ec~---~eeE~~m~SE~sRR~L~~~~YISYgAL~~d~VPC~~rG~SYynC   81 (101)
                      .+++|.|++++++-. ||    +.|+|+ +||.   +|+||+||||++||+|++++||||+||++|+|||+++|+|||||
T Consensus        19 ~~~~~~~~~~~~~~~~~~~~~~~~C~Gsi~EC~~~~~e~e~~mdSe~sRR~L~~~rYISYgALrrd~vPCsrrG~SYynC   98 (119)
T PLN03222         19 HFLFAAVTSQSTGFSGDFMPIDSKCNGTIAECSLSTAEEEFEMDSEINRRILATTKYISYGALRRNTVPCSRRGASYYNC   98 (119)
T ss_pred             HHHHHHhhcccccccccccCCCCcCCCCHHHhhcccccchhccccHHHHHHHhhcCeecHHHhcCCCCCCCCCCCCcccc
Confidence            457888888866411 22    369999 9996   47789999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCCCCCCCCC
Q 034223           82 NGRGLSRPTATAPRRS   97 (101)
Q Consensus        82 ~p~~~aNPY~Rg~~~~   97 (101)
                      ++++++|||+|||++.
T Consensus        99 ~~~~~ANPY~RGCs~I  114 (119)
T PLN03222         99 RRGAQANPYSRGCSAI  114 (119)
T ss_pred             CCCCCCCCCCCCchhh
Confidence            9999999999999875

>PLN03221 rapid alkalinization factor 23; Provisional

Probab=99.97  E-value=5.1e-33  Score=203.34  Aligned_cols=70  Identities=31%  Similarity=0.516  Sum_probs=63.7

Q ss_pred             cccccc-cccc--------------CC---ccccCCchhhhhcccCccccccCCCCCCCCCCCCCCCCcccCCCCCCCCC
Q 034223           28 GRINNI-NRVE--------------DP---NEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRP   89 (101)
Q Consensus        28 ~~C~Gs-~Ec~--------------~e---eE~~m~SE~sRR~L~~~~YISYgAL~~d~VPC~~rG~SYynC~p~~~aNP   89 (101)
                      ..|+|+ +||.              ++   +|++||||++||+|++++||||+||++|+|||+++|+|||||++++++||
T Consensus        45 ~~C~GsiaEC~~~~~~~~d~e~~~g~~~~~~e~~MdSE~sRR~L~~~rYISYgALrrd~vPCsrrG~SYynC~~~~pANP  124 (137)
T PLN03221         45 TECRGTIAECSVSAALGDDGDLFYGGGEMGAEFEMDSEINRRILATRRYISYGALRRNTIPCSRRGASYYNCRRGAQANP  124 (137)
T ss_pred             CcccCCHHHHhhhhccccccccccccchhhhhhhcccHHHHHHHhcCCccCHHHhccCCCCCCCCCCCccccCCCCCCCC
Confidence            359999 9994              12   27799999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCC
Q 034223           90 TATAPRRS   97 (101)
Q Consensus        90 Y~Rg~~~~   97 (101)
                      |+|||++.
T Consensus       125 Y~RGCs~I  132 (137)
T PLN03221        125 YSRGCSAI  132 (137)
T ss_pred             CCCCcccc
Confidence            99999875

>PF05498 RALF: Rapid ALkalinization Factor (RALF) ; InterPro: IPR008801 RALF, a 5 kDa ubiquitous polypeptide in plants, arrests root growth and development

Probab=99.92  E-value=1.6e-26  Score=150.92  Aligned_cols=61  Identities=39%  Similarity=0.692  Sum_probs=57.6

Q ss_pred             CCccccCCchhhhhcccCccccccCCCCCCCCCCCCCCCCcccCCCCCCCCCCCCCCCCCC
Q 034223           38 DPNEMLMPTEDSRRQLLGTWYSSYGALEGNSVPCDAPGSSYYNCNGRGLSRPTATAPRRSD   98 (101)
Q Consensus        38 ~eeE~~m~SE~sRR~L~~~~YISYgAL~~d~VPC~~rG~SYynC~p~~~aNPY~Rg~~~~~   98 (101)
                      +|+|++|+||++||+|++++||||+||++|.+||+.+|.+||||.+++++|||+|||++..
T Consensus         2 ee~~~~~~s~~~~R~~a~~~yIsYgaL~~~~~pc~~~g~~~~~c~~~~paNpY~RGC~~~~   62 (66)
T PF05498_consen    2 EEEEVVMESEASRRILAARRYISYGALRRDRVPCSPRGCSYYNCCPRQPANPYSRGCSKIT   62 (66)
T ss_pred             hhHHhhhhhHHHHHHHhcCCeecchhccCCCCCCCcccCCCcccCCCCCCCCCCCCCCccc
Confidence            5778999999999999999999999999999999999999999999999999999999853

>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins

Probab=81.66  E-value=1.3  Score=30.58  Aligned_cols=12  Identities=25%  Similarity=0.398  Sum_probs=8.6

Q ss_pred             CchHHHHHHHHH
Q 034223            1 MDLKVVMMLFMV   12 (101)
Q Consensus         1 M~~k~~l~~~~l   12 (101)
                      |..|.+|+|.++
T Consensus         1 MaSK~~llL~l~   12 (95)
T PF07172_consen    1 MASKAFLLLGLL   12 (95)
T ss_pred             CchhHHHHHHHH
Confidence            888987776543

Some of them may be involved in resistance to environmental stress [].

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

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