Citrus Sinensis ID: 030888

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170
Protein Sequence
MRSLRILTSIYHNHHLTLSQYRSIFTTRTLQGSWMDSIKGVFTGKKSSSEDGSVSSESFTLLRFADELKKARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQVSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQFG
Secondary Structure (PSIPRED)
cccHHHHHHHHHccHHHHHHHHHHccHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHHHHHHcccHHHHHcccccHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHcccHHEEEccccHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHEccc
Coil and Loop (DISEMBL)
MRSLRILTSiyhnhhltlSQYRSIFTTRTLQGSWMDSIKGvftgkksssedgsvssesfTLLRFADELKKARKLgtlkqyivgrssattfaDTFEKQEAVLRCLgafdpngenlqVSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEKLKeegkpmpksmaevqfg
Flexible Loop (DISEMBL)
MRSLRILTsiyhnhhltlsQYRSIFTTRTLQGSWMDSIKGVFTgkksssedgsvssesfTLLRFADELKKarklgtlkqyivgrssattfADTFEKQEAVLRCLGAFDPNGENLQVSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEklkeegkpmpksmaevqfg
Low Complexity Region (SEG)
MRSLRILTSIYHNHHLTLSQYRSIFTTRTLQGSWMDSIKGVFTgkksssedgsvssesFTLLRFADELKKARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQVSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQFG
Disordered region (IsUnstruct)
****RILTSIYHNHHLTLSQYRSIFTTRTLQGSWMDSIKGVFT***************FTLLRFADELKKARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPN************AKQCNCTIAEVENTLAKFTWAK**************************
Disordered Region (DISOPRED)
*********IYHNHHLTLSQ*R*****RTLQGSWMDSIK*********************LLRFADELKKARKLG********************KQEAVLRCLG******************KQCNCTIAEVENTLAKFTW**********************A*VQFG
Disordered Region (DISEMBL)
MRSLRILTSIYHNHHLTLSQYRSIFTTRTLQGSWMDSIKGVFT**************SFTLLRFADELKKARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENL***********CNCTIAEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQFG
Disordered Region (DISPRO)
MRSLRILTSIYHNHHLTLSQYRSIFTTRTLQGSWMDSIKGVFTGKK*****GSVSSESFTLLRFADELKKARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQVSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSM******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRSLRILTSIYHNHHLTLSQYRSIFTTRTLQGSWMDSIKGVFTGKKSSSEDGSVSSESFTLLRFADELKKARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQVSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQFG
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

No hits with e-value below 0.001 by BLAST

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	170
449435752	234	PREDICTED: uncharacterized protein LOC10	0.923	0.670	0.745	7e-63
225451203	227	PREDICTED: protein translocase subunit S	0.923	0.691	0.689	7e-59
359806862	211	uncharacterized protein LOC100791282 [Gl	0.988	0.796	0.633	4e-56
224123310	222	predicted protein [Populus trichocarpa]	0.929	0.711	0.654	6e-55
356504090	222	PREDICTED: uncharacterized protein LOC10	0.988	0.756	0.618	5e-54
357512173	254	hypothetical protein MTR_7g114390 [Medic	0.976	0.653	0.625	3e-53
255542408	224	conserved hypothetical protein [Ricinus	0.964	0.732	0.622	4e-53
388491116	213	unknown [Lotus japonicus]	0.976	0.779	0.624	8e-53
297829008	230	hypothetical protein ARALYDRAFT_477772 [	0.894	0.660	0.668	4e-52
79393348	231	uncharacterized protein [Arabidopsis tha	0.870	0.640	0.673	8e-51

>gi|449435752|ref|XP_004135658.1| PREDICTED: uncharacterized protein LOC101217561 [Cucumis sativus] gi|449485804|ref|XP_004157278.1| PREDICTED: uncharacterized protein LOC101225513 [Cucumis sativus]

 Score =  244 bits (624), Expect = 7e-63,   Method: Compositional matrix adjust.
 Identities = 117/157 (74%), Positives = 132/157 (84%)

Query: 12  HNHHLTLSQYRSIFTTRTLQGSWMDSIKGVFTGKKSSSEDGSVSSESFTLLRFADELKKA 71
           HN +LTL Q RSIF+T  L GSWMD IKGV +GKK+S+E   +SSESFTLLRFADELK A
Sbjct: 33  HNCYLTLLQSRSIFSTTQLHGSWMDKIKGVISGKKNSTEGTDISSESFTLLRFADELKNA 92

Query: 72  RKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQVSQKQEAAKQCNCTIA 131
           R++G LKQYIVGRSS  TFAD FEKQEA++R LG FD  GEN+Q SQKQEAAK CNCTIA
Sbjct: 93  RRVGALKQYIVGRSSEATFADAFEKQEAIIRYLGGFDSTGENIQTSQKQEAAKNCNCTIA 152

Query: 132 EVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQ 168
           EVEN L+KF WAKEAQKKIEKLKEEGKP+P ++AEVQ
Sbjct: 153 EVENALSKFLWAKEAQKKIEKLKEEGKPLPTNIAEVQ 189

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225451203|ref|XP_002274439.1| PREDICTED: protein translocase subunit SecA 1-like [Vitis vinifera]

 Score =  231 bits (589), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 109/158 (68%), Positives = 129/158 (81%), Gaps = 1/158 (0%)

Query: 11  YHNHHLTLSQYRSIFTTRTLQGSWMDSIKGVFTGKKSSSEDGSVSSESFTLLRFADELKK 70
           YH   L  SQ+RSIF+T  L  SWMD IKGV TGKK++  DG +++E FTLLRFA+ELK 
Sbjct: 29  YHYRQLPPSQHRSIFSTSHLDASWMDKIKGVLTGKKAAP-DGQITTEEFTLLRFANELKA 87

Query: 71  ARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQVSQKQEAAKQCNCTI 130
           AR  GT K+++VGRSS  TFAD F KQEA++R LG FDP+G+NLQ SQKQEAAK CNCTI
Sbjct: 88  ARAAGTFKRFVVGRSSEATFADAFGKQEAIIRYLGRFDPSGDNLQTSQKQEAAKNCNCTI 147

Query: 131 AEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQ 168
           A+VEN LAKFTWAK+A KK+EKLKEEGKP+PKSMAE+Q
Sbjct: 148 ADVENALAKFTWAKQAHKKLEKLKEEGKPIPKSMAELQ 185

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806862|ref|NP_001241571.1| uncharacterized protein LOC100791282 [Glycine max] gi|255636789|gb|ACU18728.1| unknown [Glycine max]

 Score =  222 bits (565), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 107/169 (63%), Positives = 131/169 (77%), Gaps = 1/169 (0%)

Query: 1   MRSLRILTSI-YHNHHLTLSQYRSIFTTRTLQGSWMDSIKGVFTGKKSSSEDGSVSSESF 59
           M SLRIL  I Y  +     QYR+I +T  LQGSWM+ +K V TG+ S+ +    +SESF
Sbjct: 1   MPSLRILNKICYSINQNCKCQYRTISSTAQLQGSWMEKVKNVITGQNSTPQSQGDASESF 60

Query: 60  TLLRFADELKKARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQVSQK 119
           +LLRFADE+K A+++G  K+++VGRSS  TF+  F+K EA++R LGA DP GENLQ +QK
Sbjct: 61  SLLRFADEMKNAKRIGAFKEFMVGRSSEATFSSAFDKYEAIIRFLGALDPTGENLQTTQK 120

Query: 120 QEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQ 168
           QEAAK CNCTIA+VEN LAKFTWAKEAQKK+EKLKEEGKPMPKS AEVQ
Sbjct: 121 QEAAKHCNCTIADVENALAKFTWAKEAQKKLEKLKEEGKPMPKSFAEVQ 169

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123310|ref|XP_002319047.1| predicted protein [Populus trichocarpa] gi|222857423|gb|EEE94970.1| predicted protein [Populus trichocarpa]

 Score =  218 bits (555), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 108/165 (65%), Positives = 132/165 (80%), Gaps = 7/165 (4%)

Query: 7   LTSIYHNH---HLTLSQYRSIFTTRTLQGSWMDSIKGVFTGKKSSSEDGSVSSESFTLLR 63
           L S+ ++H   HL  SQ+R I +T  +  SWMD+IKGVFTGKK+ +ED   + ESFTLL 
Sbjct: 20  LCSLSYSHIDSHLITSQHRLISSTAPV-SSWMDTIKGVFTGKKAETED---TPESFTLLS 75

Query: 64  FADELKKARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQVSQKQEAA 123
           FAD +K AR++G+LKQ++VGRSS  TF+  FEKQEA++R LGA DP GENLQ SQKQEAA
Sbjct: 76  FADGMKNARRVGSLKQFVVGRSSEATFSSAFEKQEAIIRYLGALDPTGENLQTSQKQEAA 135

Query: 124 KQCNCTIAEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQ 168
           K CNCTIA+VE TL+KF WAKEAQ K++KLKEEGKPMPK+MAEVQ
Sbjct: 136 KHCNCTIADVEITLSKFIWAKEAQNKLQKLKEEGKPMPKTMAEVQ 180

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356504090|ref|XP_003520832.1| PREDICTED: uncharacterized protein LOC100792311 [Glycine max]

 Score =  215 bits (547), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 107/173 (61%), Positives = 133/173 (76%), Gaps = 5/173 (2%)

Query: 1   MRSLRILTSI-YHNHHLTLSQYRSIFTTRTLQGSWMDSIKGVFTGKKSSSE---DGS-VS 55
           M SLRIL  I Y  +     +YR+I +T  LQGSWM+ +K V TG+KS+ +   D S V+
Sbjct: 1   MPSLRILNKICYSINQNCKYKYRTISSTAQLQGSWMEKVKNVITGQKSTPQSQGDASQVT 60

Query: 56  SESFTLLRFADELKKARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQ 115
           S+SFTLLRFADE+K A+++G  K+++ GRSS  TF+  F+K EA++R LGA DP GENL 
Sbjct: 61  SDSFTLLRFADEMKNAKRIGAFKEFMAGRSSEATFSSAFDKYEAIIRSLGALDPTGENLP 120

Query: 116 VSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQ 168
            +QKQEAAK CNCTIA+VE+ LAKFTWAKEAQKKI+KLKEEGKPMPKS AEVQ
Sbjct: 121 TAQKQEAAKHCNCTIADVEDALAKFTWAKEAQKKIQKLKEEGKPMPKSFAEVQ 173

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357512173|ref|XP_003626375.1| hypothetical protein MTR_7g114390 [Medicago truncatula] gi|355501390|gb|AES82593.1| hypothetical protein MTR_7g114390 [Medicago truncatula]

 Score =  212 bits (540), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 107/171 (62%), Positives = 123/171 (71%), Gaps = 5/171 (2%)

Query: 1   MRSLRILTSIYHNHHLTLS---QYRSIFTTRTLQGSWMDSIKGVFTGKKSSSEDGSVSSE 57
           M +LRI   I + HH  L    QYRSI TT  LQ SWMD +K VFTG+KS  E     + 
Sbjct: 1   MAALRIANRIINYHHNLLYNNYQYRSISTTVHLQSSWMDKVKNVFTGQKS--EGAPPDAS 58

Query: 58  SFTLLRFADELKKARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQVS 117
            FTLL FADE+KKARK+G  K+YIVGRSS  TF+   EK E ++R L AFD  GENL  +
Sbjct: 59  QFTLLNFADEMKKARKVGAFKEYIVGRSSEVTFSTAIEKYEVIIRYLAAFDYTGENLTTN 118

Query: 118 QKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQ 168
           QK EAAK CNCTIAEVEN LAKFTWAKEA KKI+KL +EGKPMPK+MAE+Q
Sbjct: 119 QKHEAAKHCNCTIAEVENALAKFTWAKEAHKKIQKLNQEGKPMPKNMAELQ 169

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542408|ref|XP_002512267.1| conserved hypothetical protein [Ricinus communis] gi|223548228|gb|EEF49719.1| conserved hypothetical protein [Ricinus communis]

 Score =  212 bits (540), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 104/167 (62%), Positives = 132/167 (79%), Gaps = 3/167 (1%)

Query: 2   RSLRILTSIYHNHHLTLSQYRSIFTTRTLQGSWMDSIKGVFTGKKSSSEDGSVSSESFTL 61
           +SL +  S  +   ++  Q+R IF+T +   SWMDSIKGVFTG+K  S+D +V  +SFTL
Sbjct: 16  KSLFLFYSRSNTRLISSQQHRFIFSTASAY-SWMDSIKGVFTGQKGDSKDTAV--QSFTL 72

Query: 62  LRFADELKKARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQVSQKQE 121
           +RFADELK AR++G+ K++IVGRSS  TF+D FEK E ++R L  FDP GENLQ +QKQE
Sbjct: 73  IRFADELKNARRVGSFKKFIVGRSSEATFSDAFEKMERIIRYLSGFDPTGENLQTTQKQE 132

Query: 122 AAKQCNCTIAEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQ 168
           AAK CNCTIAEVE +LA+FTWAKEAQKK++KLKEEGKP PKS+AE+Q
Sbjct: 133 AAKHCNCTIAEVERSLAQFTWAKEAQKKLQKLKEEGKPAPKSIAEIQ 179

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388491116|gb|AFK33624.1| unknown [Lotus japonicus]

 Score =  211 bits (537), Expect = 8e-53,   Method: Compositional matrix adjust.
 Identities = 108/173 (62%), Positives = 130/173 (75%), Gaps = 7/173 (4%)

Query: 1   MRSLRILTSIYHNHHLTLSQY---RSIFTTRTLQGSWMDSIKGVFTGKKSSS--EDGSVS 55
           M + RI  +I    H  LSQY   RSIF+T  LQ SW+D +K VFTG+K+++  E+ S +
Sbjct: 1   MAATRI--TIAKKIHHRLSQYSNSRSIFSTPQLQNSWVDKVKTVFTGQKTTTTTENPSST 58

Query: 56  SESFTLLRFADELKKARKLGTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQ 115
           ++SFTLL FADE+KKARK+G  K Y+VGRSS  TF   FEK EA++R LG  DP GE LQ
Sbjct: 59  TDSFTLLHFADEMKKARKIGAFKDYVVGRSSEVTFTTAFEKNEAIIRFLGVLDPTGEKLQ 118

Query: 116 VSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQ 168
            +QKQ AAK CNCTI +VEN LA+FTWAKEAQKKIEKLKEEGKPMP S+AEVQ
Sbjct: 119 SAQKQAAAKHCNCTIIDVENALAEFTWAKEAQKKIEKLKEEGKPMPTSIAEVQ 171

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297829008|ref|XP_002882386.1| hypothetical protein ARALYDRAFT_477772 [Arabidopsis lyrata subsp. lyrata] gi|297328226|gb|EFH58645.1| hypothetical protein ARALYDRAFT_477772 [Arabidopsis lyrata subsp. lyrata]

 Score =  209 bits (531), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 103/154 (66%), Positives = 122/154 (79%), Gaps = 2/154 (1%)

Query: 16  LTLSQYRSIFTTRTLQGSWMDSIKGVFTGKKSSS-EDGSVSSESFTLLRFADELKKARKL 74
           L  SQ+RSI +T  L G WMDSIKGVFTG K +  E+ ++  E+FTLLRFADELK AR+L
Sbjct: 36  LIPSQHRSITSTAPLNG-WMDSIKGVFTGNKDTPLEESNLPVEAFTLLRFADELKNARRL 94

Query: 75  GTLKQYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQVSQKQEAAKQCNCTIAEVE 134
           G  KQYIVGRSS  TF+D FEKQEAV+R LGA D  GENLQ SQKQ+AAK C CTI +VE
Sbjct: 95  GKFKQYIVGRSSEATFSDAFEKQEAVIRYLGALDATGENLQASQKQDAAKHCKCTITDVE 154

Query: 135 NTLAKFTWAKEAQKKIEKLKEEGKPMPKSMAEVQ 168
           NTLAKFTWA++A KK+ +LKE GKP+PK+M E+Q
Sbjct: 155 NTLAKFTWARQAHKKMAELKEGGKPLPKNMGELQ 188

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79393348|ref|NP_187146.2| uncharacterized protein [Arabidopsis thaliana] gi|51969142|dbj|BAD43263.1| unknown protein [Arabidopsis thaliana] gi|332640643|gb|AEE74164.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  204 bits (520), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 101/150 (67%), Positives = 119/150 (79%), Gaps = 2/150 (1%)

Query: 20  QYRSIFTTRTLQGSWMDSIKGVFTGKKSSS-EDGSVSSESFTLLRFADELKKARKLGTLK 78
           Q RSI +T  L G WMDSIKGVFTG K +  E+ ++  E+FTLLRFADELK AR+LG  K
Sbjct: 41  QQRSITSTAPLNG-WMDSIKGVFTGNKDTPLEESNLPVEAFTLLRFADELKNARRLGKFK 99

Query: 79  QYIVGRSSATTFADTFEKQEAVLRCLGAFDPNGENLQVSQKQEAAKQCNCTIAEVENTLA 138
           QYIVGRSS  TFAD FEKQEAV+R LGA D  GENLQ SQKQ+AAK C CTI +VENTL+
Sbjct: 100 QYIVGRSSEATFADAFEKQEAVIRYLGALDATGENLQASQKQDAAKHCKCTITDVENTLS 159

Query: 139 KFTWAKEAQKKIEKLKEEGKPMPKSMAEVQ 168
           KFTWA++A KK+ +LKE GKP+PK+M E+Q
Sbjct: 160 KFTWARQAHKKMTELKEGGKPLPKNMGELQ 189

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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)

No hits with e-value below 0.001 by BLAST

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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

Your Input: GSVIVG00031088001 SubName- Full=Chromosome chr14 scaffold_54, whole genome shotgun sequence; (231 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

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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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	170
PF02978	104	SRP_SPB: Signal peptide binding domain; InterPro:	98.23
PRK10867	433	signal recognition particle protein; Provisional	97.26
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.91
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	96.87
TIGR00959	428	ffh signal recognition particle protein. This mode	95.86
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.77

>PF02978 SRP_SPB: Signal peptide binding domain; InterPro: IPR004125 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=98.23  E-value=5.9e-06  Score=61.84  Aligned_cols=87  Identities=24%  Similarity=0.430  Sum_probs=67.1

Q ss_pred             cchHHHHHHHHHHhHHhccccchhc---cccch----------hhHHHHHHHHHHHHHHH---hccCCCCcccchhhHHH
Q 030888           58 SFTLLRFADELKKARKLGTLKQYIV---GRSSA----------TTFADTFEKQEAVLRCL---GAFDPNGENLQVSQKQE  121 (170)
Q Consensus        58 ~ftL~~FADelkkARr~Gsfk~fv~---Grsse----------at~~~afeK~EaiiR~L---~~~DptGE~l~asqk~~  121 (170)
                      .|||+.|-+.+++-.++|+|++++.   |-++.          ..-...|.++++||-..   -.-||  +.|..|.+.+
T Consensus         1 ~F~l~Df~~Q~~~i~kmG~l~~i~~miPG~~~~~~~~~~~~~~~~~~~~lk~~~~Ii~SMT~~Er~~p--~ll~~sR~~R   78 (104)
T PF02978_consen    1 KFTLRDFLEQLQQIKKMGPLSKIMSMIPGMGNMMESLPSEQEEEEDEKKLKRMEAIIDSMTPEERDNP--KLLNESRRRR   78 (104)
T ss_dssp             SSCHHHHHHHHHHHHHTSTTHHHHTTSSSSSSS-SSTTCSSSSHHHHHHHHHHHHHHTTSBHHHHHCG--GGHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHCcCccccccccchhcchhhhHHHHHHHHHHHHCcCHHHHhCc--cccchHHHHH
Confidence            4999999999999999999998764   32221          22356689999999221   11443  3777899999


Q ss_pred             HHhhcCccHHHHHHHHHHhHhHHHH
Q 030888          122 AAKQCNCTIAEVENTLAKFTWAKEA  146 (170)
Q Consensus       122 aAk~CnCTiadVE~~LAKftWaKeA  146 (170)
                      +|+-+|+|+.||...|..|.+.+.+
T Consensus        79 IA~GSG~~~~eV~~ll~~f~~~~~m  103 (104)
T PF02978_consen   79 IARGSGTTVQEVNELLKQFKQMKKM  103 (104)
T ss_dssp             HHHHTTS-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCCHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999998764

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the M domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle; PDB: 2FFH_B 3NDB_B 2V3C_C 1QZW_G 1QZX_B 3KL4_A 2JQE_A 1HQ1_A 1RY1_W 1MFQ_C ....

>PRK10867 signal recognition particle protein; Provisional

Probab=97.26  E-value=0.0015  Score=59.14  Aligned_cols=94  Identities=27%  Similarity=0.415  Sum_probs=72.3

Q ss_pred             ccchHHHHHHHHHHhHHhccccchh---ccccc--hhhHHHHHHHHHHHHHHHhc---cCCCCcccchhhHHHHHhhcCc
Q 030888           57 ESFTLLRFADELKKARKLGTLKQYI---VGRSS--ATTFADTFEKQEAVLRCLGA---FDPNGENLQVSQKQEAAKQCNC  128 (170)
Q Consensus        57 ~~ftL~~FADelkkARr~Gsfk~fv---~Grss--eat~~~afeK~EaiiR~L~~---~DptGE~l~asqk~~aAk~CnC  128 (170)
                      +.|||+.|-+.|++-+++|++++.+   -|-+.  ...-..-|.++++||...-.   -+|.  .|..|-|.+.|+-+|.
T Consensus       326 g~f~l~d~~~q~~~~~kmG~~~~~~~m~Pg~~~~~~~~~~~~~~~~~~ii~SMt~~Er~~p~--~~~~sR~~RIa~GsG~  403 (433)
T PRK10867        326 GKFDLEDFLEQLQQMKKMGGLGSLLGMLPGMGNMKAQLDDKELKRIEAIINSMTPKERANPD--ILNGSRKRRIAKGSGT  403 (433)
T ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHhCCCcccccccccHHHHHHHHHHHHcCCHHHHhCcc--ccchHHHHHHHccCCC
Confidence            6799999999999999999998863   23221  11223788999999944321   2554  6778999999999999


Q ss_pred             cHHHHHHHHHHhHhHHHHHHHHHH
Q 030888          129 TIAEVENTLAKFTWAKEAQKKIEK  152 (170)
Q Consensus       129 TiadVE~~LAKftWaKeA~kKi~K  152 (170)
                      ++.||...|..|.=.+.+-+++.+
T Consensus       404 ~~~~v~~ll~~~~~~~~~~~~~~~  427 (433)
T PRK10867        404 TVQEVNRLLKQFEQMKKMMKKMKG  427 (433)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHhcC
Confidence            999999999999877766666654

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.91  E-value=0.0038  Score=56.59  Aligned_cols=93  Identities=23%  Similarity=0.381  Sum_probs=72.3

Q ss_pred             ccchHHHHHHHHHHhHHhccccchh---cccc---ch---hhHHHHHHHHHHHHHHHhc---cCCCCcccchhhHHHHHh
Q 030888           57 ESFTLLRFADELKKARKLGTLKQYI---VGRS---SA---TTFADTFEKQEAVLRCLGA---FDPNGENLQVSQKQEAAK  124 (170)
Q Consensus        57 ~~ftL~~FADelkkARr~Gsfk~fv---~Grs---se---at~~~afeK~EaiiR~L~~---~DptGE~l~asqk~~aAk  124 (170)
                      +.|||+.|-+.|++-+++|++.+.+   -|-+   ++   ..-..-|.++++||...-.   -+|.  -|..|-|.+.|+
T Consensus       318 ~~f~l~d~~~q~~~~~kmG~~~~~~~m~pg~~~~~~~~~~~~~~~~~~~~~~ii~SMt~~Er~~p~--~~~~sR~~Ria~  395 (437)
T PRK00771        318 GKFTLKDMYKQLEAMNKMGPLKQILQMLPGLGGKLPDEALEVTEEKLKKYKAIMDSMTEEELENPE--IINASRIRRIAR  395 (437)
T ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHhCcCccccchhhhhcccHHHHHHHHHHHHcCCHHHHhCcc--cccHHHHHHHHc
Confidence            6799999999999999999998862   2322   11   1234678999999944321   2554  677899999999


Q ss_pred             hcCccHHHHHHHHHHhHhHHHHHHHHH
Q 030888          125 QCNCTIAEVENTLAKFTWAKEAQKKIE  151 (170)
Q Consensus       125 ~CnCTiadVE~~LAKftWaKeA~kKi~  151 (170)
                      -+|.|+.||...|.+|.=.+.+-+++.
T Consensus       396 GsG~~~~~v~~ll~~~~~~~~~~~~~~  422 (437)
T PRK00771        396 GSGTTVEDVRELLKYYKMMKKAMKQLK  422 (437)
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999999999999987777776664

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.87  E-value=0.00079  Score=62.44  Aligned_cols=119  Identities=20%  Similarity=0.351  Sum_probs=84.5

Q ss_pred             chhhhhhhcccccCCCCCCCCCCCCccchHHHHHHHHHHhHHhccccchh---cccc---ch---hhHHHHHHHHHHHHH
Q 030888           32 GSWMDSIKGVFTGKKSSSEDGSVSSESFTLLRFADELKKARKLGTLKQYI---VGRS---SA---TTFADTFEKQEAVLR  102 (170)
Q Consensus        32 ~sW~dkiKgvftG~K~~~~~~~~~~~~ftL~~FADelkkARr~Gsfk~fv---~Grs---se---at~~~afeK~EaiiR  102 (170)
                      .|-++|+..++.-.+.......-..+.|||+.|.+-|..-+++|.+.+.+   -|-+   +.   ..-..-|.++++||.
T Consensus       300 ~sLvEk~~~~~d~e~a~~~~~kl~~g~FtL~Df~~Ql~~m~kmGpl~~ll~miPG~~~~~~~~~~~~~e~~~kr~~aIi~  379 (451)
T COG0541         300 LSLIEKAEEVVDEEEAEKLAEKLKKGKFTLEDFLEQLEQMKKMGPLSKLLSMIPGMGMKDSDKDIELDEKKLKRIEAIID  379 (451)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCCHHHHHHhCCCCCCCCchhhhhccHHHHHHHHHHHH
Confidence            45677777777554333211222336799999999999999999998765   3432   22   122566999999995


Q ss_pred             HHh---ccCCCCcccchhhHHHHHhhcCccHHHHHHHHHHhHhHHHHHHHHHH
Q 030888          103 CLG---AFDPNGENLQVSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEK  152 (170)
Q Consensus       103 ~L~---~~DptGE~l~asqk~~aAk~CnCTiadVE~~LAKftWaKeA~kKi~K  152 (170)
                      ..-   .-+|.  .|.+|.|.+.|+-||+++.||...|-.|.=++.+-|++..
T Consensus       380 SMT~~Er~nP~--ii~~SR~rRIA~GSG~sv~dVn~Llkq~~~m~~mmk~m~~  430 (451)
T COG0541         380 SMTPEERENPD--IINASRKRRIARGSGTSVQDVNKLLKQFKQMKKMMKKMSG  430 (451)
T ss_pred             cCCHHHhhCcc--ccChHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence            542   23443  6779999999999999999999999999766655555543

>TIGR00959 ffh signal recognition particle protein

Probab=95.86  E-value=0.034  Score=50.43  Aligned_cols=88  Identities=22%  Similarity=0.418  Sum_probs=67.6

Q ss_pred             ccchHHHHHHHHHHhHHhccccchh---ccccc-----h--hhHHHHHHHHHHHHHHHhc---cCCCCcccchhhHHHHH
Q 030888           57 ESFTLLRFADELKKARKLGTLKQYI---VGRSS-----A--TTFADTFEKQEAVLRCLGA---FDPNGENLQVSQKQEAA  123 (170)
Q Consensus        57 ~~ftL~~FADelkkARr~Gsfk~fv---~Grss-----e--at~~~afeK~EaiiR~L~~---~DptGE~l~asqk~~aA  123 (170)
                      +.|||+.|-+.|++-+++|++++.+   -|-+.     +  .--.+-|.|+++||...-.   -+|.  -|..|-+.+.|
T Consensus       325 ~~f~l~d~~~q~~~~~kmG~~~~~~~~~Pg~~~~~~~~~~~~~~~~~~~~~~~ii~SMt~~Er~~p~--~~~~sR~~RIa  402 (428)
T TIGR00959       325 GQFDLEDFLEQLRQIKKMGPLSSLLKMIPGMGGVKPSLSDLELDEKQFKRIEAIISSMTPEERRNPK--ILNPSRRKRIA  402 (428)
T ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHhCcCccccccccccccccHHHHHHHHHHHHcCCHHHHhCcc--cccHHHHHHHH
Confidence            6799999999999999999998862   24221     1  1234689999999944321   2554  66689999999


Q ss_pred             hhcCccHHHHHHHHHHhHhHHHH
Q 030888          124 KQCNCTIAEVENTLAKFTWAKEA  146 (170)
Q Consensus       124 k~CnCTiadVE~~LAKftWaKeA  146 (170)
                      +-+|.++.||...|.+|.=.+.+
T Consensus       403 ~GsG~~~~~v~~ll~~~~~~~~~  425 (428)
T TIGR00959       403 AGSGTTVQDVNKLIKRFEQMKKM  425 (428)
T ss_pred             ccCCCCHHHHHHHHHHHHHHHHH
Confidence            99999999999999999765544

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.77  E-value=0.016  Score=52.93  Aligned_cols=88  Identities=22%  Similarity=0.300  Sum_probs=66.5

Q ss_pred             ccchHHHHHHHHHHhHHhccccchh---cccc----ch---hhHHHHHHHHHHHHHHHhc---cCCCCccc--chhhHHH
Q 030888           57 ESFTLLRFADELKKARKLGTLKQYI---VGRS----SA---TTFADTFEKQEAVLRCLGA---FDPNGENL--QVSQKQE  121 (170)
Q Consensus        57 ~~ftL~~FADelkkARr~Gsfk~fv---~Grs----se---at~~~afeK~EaiiR~L~~---~DptGE~l--~asqk~~  121 (170)
                      +.|||+.|-+.|+.-+++|++++.+   -|-+    .+   ..-..-|.++++||...-.   -+|.-+.|  ..|.|.+
T Consensus       325 ~~f~l~D~~~q~~~i~kmG~~~~i~~m~Pg~~~~~~~~~~~~~~~~~~~~~~aii~SMT~~Er~~~~p~i~~~~~sR~~R  404 (429)
T TIGR01425       325 GTFTLRDMYEQFQNLLKMGPLGQILSMIPGFSTDFMSKGNEEESMAKIKKLMTIMDSMTDQELDSTDGKVFSKQPSRIQR  404 (429)
T ss_pred             CCCCHHHHHHHHHHHHhccCHHHHHHhCcCcchhhhhhhcccccHHHHHhHHHHHhcCCHHHHccCCCccccCCccHHHH
Confidence            6799999999999999999998762   2321    11   1233689999999965422   22222466  6799999


Q ss_pred             HHhhcCccHHHHHHHHHHhHhHH
Q 030888          122 AAKQCNCTIAEVENTLAKFTWAK  144 (170)
Q Consensus       122 aAk~CnCTiadVE~~LAKftWaK  144 (170)
                      .|+-+|-++.||...|..|.=.+
T Consensus       405 Ia~GSG~~~~~V~~ll~~~~~~~  427 (429)
T TIGR01425       405 VARGSGRSIRDVQELLEQYKKFA  427 (429)
T ss_pred             HHccCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999999997544

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

---

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

ID	Length	Definition	Probability
Query	170
2jqe_A	119	SRP54, signal recognition 54 kDa protein; AF54, st	97.98
1hq1_A	105	Signal recognition particle protein; protein-RNA c	97.6
1mfq_C	129	SRP54, signal recognition particle 54KDA protein;	97.44
1qb2_A	109	SRP54, human signal recognition particle 54 KD pro	97.35
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.23
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	97.16
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.9
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.87
2xxa_A	433	Signal recognition particle protein; protein trans	95.64
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.69
1dul_A	69	Signal recognition particle protein (fifty-four ho	94.25
1fi6_A	92	EH domain protein REPS1; EPS15 homology domain, EF	80.64

>2jqe_A SRP54, signal recognition 54 kDa protein; AF54, structure, solution, signaling protein; NMR {Archaeoglobus fulgidus}

Probab=97.98  E-value=2.2e-06  Score=65.15  Aligned_cols=93  Identities=17%  Similarity=0.292  Sum_probs=72.5

Q ss_pred             ccchHHHHHHHHHHhHHhccccchh---c-cccc------hhhHHHHHHHHHHHHHHHh---ccCCCCcccchhhHHHHH
Q 030888           57 ESFTLLRFADELKKARKLGTLKQYI---V-GRSS------ATTFADTFEKQEAVLRCLG---AFDPNGENLQVSQKQEAA  123 (170)
Q Consensus        57 ~~ftL~~FADelkkARr~Gsfk~fv---~-Grss------eat~~~afeK~EaiiR~L~---~~DptGE~l~asqk~~aA  123 (170)
                      +.|||+.|.+-|..-+++|++.+.+   - |-+.      ..--...|.++|+||...-   .-+|  +.|..|-|.+.|
T Consensus         8 g~Ftl~Df~~Ql~qi~kMG~l~~i~~MiP~G~~~~~~~~~~~~~e~~lkr~~aII~SMT~~Er~~P--~ii~~SR~~RIA   85 (119)
T 2jqe_A            8 GTFTLKDIYKQIEAMNKMGPVRKIFEMLPFGLGLKVDNDVMEMTQEKMKKFRVIMDSMTEEELLNP--KIIDSSRIRRIA   85 (119)
T ss_dssp             CSSCTHHHHHHHTTCCCCCCCSCSSCCCCSCCCSSCCCCSSCCCCCHHHHHHHHHHHSCHHHHHCG--GGCCHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHCccchhhccchhhHhhhHHHHHHHHHHHHhCCHHHHhCh--hhcCHHHHHHHH
Confidence            4799999999999999999998875   3 4321      1112357999999994321   1144  477899999999


Q ss_pred             hhcCccHHHHHHHHHHhHhHHHHHHHHH
Q 030888          124 KQCNCTIAEVENTLAKFTWAKEAQKKIE  151 (170)
Q Consensus       124 k~CnCTiadVE~~LAKftWaKeA~kKi~  151 (170)
                      +-+|+++.||...|..|...+.+-|++.
T Consensus        86 ~GSG~~v~eVn~LLkqf~~m~kmmk~m~  113 (119)
T 2jqe_A           86 IGSGTSPQEVKELLNYYKTMKNLMKKMK  113 (119)
T ss_dssp             HHHTSCHHHHHHHHHHHHHHHHHTTTCC
T ss_pred             ccCCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999998887766553

>1hq1_A Signal recognition particle protein; protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.52A {Escherichia coli} SCOP: a.36.1.1 PDB: 3lqx_A* 2pxb_A 2pxd_A 2pxe_A 2pxf_A 2pxk_A 2pxl_A 2pxp_A 2pxq_A 2pxt_A 2pxu_A 2pxv_A

Probab=97.60  E-value=9.4e-05  Score=55.18  Aligned_cols=91  Identities=20%  Similarity=0.350  Sum_probs=57.5

Q ss_pred             cchHHHHHHHHHHhHHhccccchhc---cccc--h----hhHHHHHHHHHHHHHHHh---ccCCCCcccchhhHHHHHhh
Q 030888           58 SFTLLRFADELKKARKLGTLKQYIV---GRSS--A----TTFADTFEKQEAVLRCLG---AFDPNGENLQVSQKQEAAKQ  125 (170)
Q Consensus        58 ~ftL~~FADelkkARr~Gsfk~fv~---Grss--e----at~~~afeK~EaiiR~L~---~~DptGE~l~asqk~~aAk~  125 (170)
                      .|||+.|-+-|..-+++|++.+.+-   |-+.  .    .--...|.++|+||...-   .-+|  +.|..|-|.+.|+-
T Consensus         1 ~F~l~Df~~Ql~qi~kMG~l~~i~~miPG~~~~~~~~~~~~~~~~lkr~~aII~SMT~~Er~~P--~ii~~SR~~RIA~G   78 (105)
T 1hq1_A            1 GFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQIPDNVKSQMDDKVLVRMEAIINSMTMKERAKP--EIIKGSRKRRIAAG   78 (105)
T ss_dssp             CCCHHHHHHHHTC----------------------------CCSSHHHHHHHHHTSCHHHHHCG--GGCCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHCCCCCcccchhhhhhhHHHHHHHHHHHHcCCHHHhhCh--hhcCHHHHHHHHcc
Confidence            4999999999999999999988643   4221  1    011346889999993221   1144  47889999999999


Q ss_pred             cCccHHHHHHHHHHhHhHHHHHHHH
Q 030888          126 CNCTIAEVENTLAKFTWAKEAQKKI  150 (170)
Q Consensus       126 CnCTiadVE~~LAKftWaKeA~kKi  150 (170)
                      +|.++.||...|..|.=.+.+-|++
T Consensus        79 SG~~v~eVn~LLkqf~~m~kmmk~m  103 (105)
T 1hq1_A           79 SGMQVQDVNRLLKQFDDMQRMMKKM  103 (105)
T ss_dssp             HTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999998776666554

>1mfq_C SRP54, signal recognition particle 54KDA protein; RNA-protein complex, A-minor motif, 3-helix junction, signaling protein/RNA complex; HET: CCC; 3.10A {Homo sapiens} SCOP: a.36.1.1

Probab=97.44  E-value=0.0001  Score=57.04  Aligned_cols=94  Identities=18%  Similarity=0.310  Sum_probs=68.5

Q ss_pred             ccchHHHHHHHHHHhHHhccccchhc---cccc-------hhhHHHHHHHHHHHHHHHh--ccCCC--Cccc--chhhHH
Q 030888           57 ESFTLLRFADELKKARKLGTLKQYIV---GRSS-------ATTFADTFEKQEAVLRCLG--AFDPN--GENL--QVSQKQ  120 (170)
Q Consensus        57 ~~ftL~~FADelkkARr~Gsfk~fv~---Grss-------eat~~~afeK~EaiiR~L~--~~Dpt--GE~l--~asqk~  120 (170)
                      +.|||+.|-+-|..-+++|++.+.+-   |-+.       +.--...|.++|+||...-  -.|-+  .+.|  ..|-|.
T Consensus        13 g~Ftl~Df~~Ql~qi~KMG~l~~im~MiPGm~~~~~~~~~~~~~e~~lkr~eaII~SMT~~Er~n~~~P~ii~~~~SRk~   92 (129)
T 1mfq_C           13 GQFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIMDSMNDQELDSTDGAKVFSKQPGRIQ   92 (129)
T ss_dssp             SSCCHHHHHHHHHHTTSSHHHHHTTTTCSCC--------CCHHHHHHHHHHHHHHTTSCHHHHTCTTHHHHHHHCTHHHH
T ss_pred             CCcCHHHHHHHHHHHHHcCCHHHHHHHCCCCCccccchhhhhhhHHHHHHHHHHHHccCHHHHhcCCCcccccCChHHHH
Confidence            57999999999999999999987642   4321       1112456888888884321  11211  2466  689999


Q ss_pred             HHHhhcCccHHHHHHHHHHhHhHHHHHHHH
Q 030888          121 EAAKQCNCTIAEVENTLAKFTWAKEAQKKI  150 (170)
Q Consensus       121 ~aAk~CnCTiadVE~~LAKftWaKeA~kKi  150 (170)
                      ++|+-+|.++.||...|..|.=.+.+=|++
T Consensus        93 RIA~GSG~~v~eVn~LLkqf~qm~kmmKkm  122 (129)
T 1mfq_C           93 RVARGSGVSTRDVQELLTQYTKFAQMVKKM  122 (129)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHccCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999997666555544

>1qb2_A SRP54, human signal recognition particle 54 KD protein; alpha-helix, helix-turn-helix, signaling protein; 2.10A {Homo sapiens} SCOP: a.36.1.1 PDB: 1ry1_W* 2go5_W

Probab=97.35  E-value=0.00014  Score=54.52  Aligned_cols=90  Identities=14%  Similarity=0.273  Sum_probs=65.6

Q ss_pred             cchHHHHHHHHHHhHHhccccchhc---cccc-------hhhHHHHHHHHHHHHHHHhc--c-CCC-Ccccc--hhhHHH
Q 030888           58 SFTLLRFADELKKARKLGTLKQYIV---GRSS-------ATTFADTFEKQEAVLRCLGA--F-DPN-GENLQ--VSQKQE  121 (170)
Q Consensus        58 ~ftL~~FADelkkARr~Gsfk~fv~---Grss-------eat~~~afeK~EaiiR~L~~--~-Dpt-GE~l~--asqk~~  121 (170)
                      .|||+.|-+-|..-+++|++.+.+-   |-+.       ..--...|.++|+||...-.  . +.+ .+.|.  .|-|.+
T Consensus         1 ~Ftl~Df~~Ql~qi~kMG~l~~i~~MiPG~~~~~~~~~~~~~~~~~lkr~~aII~SMT~~Er~~~~~P~ii~~~~SR~~R   80 (109)
T 1qb2_A            1 QFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIMDSMNDQELDSTDGAKVFSKQPGRIQR   80 (109)
T ss_dssp             CCCHHHHHHHHHHHHHTHHHHHHHHHSTTSCTTTTCTTCHHHHHHHHHHHHHHHTTSCHHHHHSTTTHHHHHHSTHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHCCCCcccccchhhhhhhHHHHHHHHHHHHcCCHHHHhcCCCccccccchHHHHH
Confidence            4999999999999999999987642   4221       11124578889999832211  1 101 24666  789999


Q ss_pred             HHhhcCccHHHHHHHHHHhHhHHHHH
Q 030888          122 AAKQCNCTIAEVENTLAKFTWAKEAQ  147 (170)
Q Consensus       122 aAk~CnCTiadVE~~LAKftWaKeA~  147 (170)
                      .|+-+|.++.||...|..|.=.+.+-
T Consensus        81 IA~GSG~~v~eVn~LLkqf~~m~kmm  106 (109)
T 1qb2_A           81 VARGSGVSTRDVQELLTQYTKFAQMV  106 (109)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHC
T ss_pred             HHccCCCCHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999997655543

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.23  E-value=0.00054  Score=60.50  Aligned_cols=101  Identities=20%  Similarity=0.338  Sum_probs=68.5

Q ss_pred             ccchHHHHHHHHHHhHHhccccchh---ccccc------hhhHHHHHHHHHHHHHHHh---ccCCCCcccchhhHHHHHh
Q 030888           57 ESFTLLRFADELKKARKLGTLKQYI---VGRSS------ATTFADTFEKQEAVLRCLG---AFDPNGENLQVSQKQEAAK  124 (170)
Q Consensus        57 ~~ftL~~FADelkkARr~Gsfk~fv---~Grss------eat~~~afeK~EaiiR~L~---~~DptGE~l~asqk~~aAk  124 (170)
                      +.|||+.|-+.|++-+++|++++.+   -|-+.      +.--..-|.++|+||...-   .-+|  +-|..|-|.+.|+
T Consensus       326 ~~f~l~d~~~q~~~~~kmg~~~~~~~m~pg~~~~~~~~~~~~~~~~~~~~~~ii~smt~~e~~~p--~~~~~sr~~ria~  403 (443)
T 3dm5_A          326 GKFTLKDMYAQLEAMRKMGPLKQILRMIPGLGYSLPDDVISIGEERLKKFKVIMDSMTEEELLNP--EIINYSRIKRIAR  403 (443)
T ss_dssp             TCCCHHHHHHHHHHHHTTCC-------------------CCCCHHHHHHHHHHHTTSCHHHHHCG--GGCCHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHhccCHHHHHHHCCCchhhcchhhhhhhHHHHHHHHHHHHcCCHHHhcCc--hhcChHHHHHHHc
Confidence            5799999999999999999999874   23221      1122568889999993221   1355  5778999999999


Q ss_pred             hcCccHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCCCcc
Q 030888          125 QCNCTIAEVENTLAKFTWAKEAQKKIEKLKEEGKPMPKSM  164 (170)
Q Consensus       125 ~CnCTiadVE~~LAKftWaKeA~kKi~KLkeEGKPlPks~  164 (170)
                      -+|.++.||...|..|.=++.+-|++   +  |.-||+=|
T Consensus       404 gsg~~~~~v~~ll~~~~~~~~~~~~~---~--~~~~~~~~  438 (443)
T 3dm5_A          404 GSGTSTKDVKELLDQYRQMKKLFKSM---N--KRQLSRLA  438 (443)
T ss_dssp             HHTSCHHHHHHHHHHHHHHHHHHHTC---C--SCCCC---
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHHHHH---c--CCCHHHHH
Confidence            99999999999999998666665555   3  23566544

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=97.16  E-value=0.0011  Score=57.89  Aligned_cols=95  Identities=21%  Similarity=0.316  Sum_probs=72.1

Q ss_pred             cchHHHHHHHHHHhHHhccccchhc---cccchh-hHHHHHHHHHHHHHHHh---ccCCCCcccchhhHHHHHhhcCccH
Q 030888           58 SFTLLRFADELKKARKLGTLKQYIV---GRSSAT-TFADTFEKQEAVLRCLG---AFDPNGENLQVSQKQEAAKQCNCTI  130 (170)
Q Consensus        58 ~ftL~~FADelkkARr~Gsfk~fv~---Grssea-t~~~afeK~EaiiR~L~---~~DptGE~l~asqk~~aAk~CnCTi  130 (170)
                      .|||+.|-+.|+..+++|.|.+.+-   |-+... --..-|.++|+||...-   .-+  .+.+..|-|.+.|+-+|.++
T Consensus       319 ~f~~~d~~~ql~~~~kmg~~~~~~~~~Pg~~~~~~~~~~~~~~~~~i~~smt~~e~~~--p~~~~~sr~~ria~gsg~~~  396 (425)
T 2ffh_A          319 ELSLEDFLKQMQNLKRLGPFSEILGLLPGVPQGLKVDEKAIKRLEAIVLSMTPEERKD--PRILNGSRRKRIAKGSGTSV  396 (425)
T ss_dssp             CCCHHHHHHHHHHHHHTCCCTTGGGTSCSCSCCTTSCHHHHHHHHHHHHTSCHHHHHC--GGGCCHHHHHHHHHHHTSCH
T ss_pred             hcCHHHHHHHHHHhhCcCChhhhhccCCCchhhccccHHHHHHHHHHHHcCCHHHhcC--ccccChHHHHHHHccCCCCH
Confidence            7999999999999999999877543   432211 12567999999994321   114  34788999999999999999


Q ss_pred             HHHHHHHHHhHhHHHHHHHHHHHH
Q 030888          131 AEVENTLAKFTWAKEAQKKIEKLK  154 (170)
Q Consensus       131 adVE~~LAKftWaKeA~kKi~KLk  154 (170)
                      .||...|..|.=++.+-|++.+.+
T Consensus       397 ~~v~~ll~~~~~~~~~~~~~~~~~  420 (425)
T 2ffh_A          397 QEVNRFIKAFEEMKALMKSLEKKK  420 (425)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTC--
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCC
Confidence            999999999987777766665433

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.90  E-value=0.00013  Score=64.98  Aligned_cols=133  Identities=16%  Similarity=0.266  Sum_probs=88.3

Q ss_pred             chhhhhhhcccccCCCCCCCCCCCCccchHHHHHHHHHHhHHhccccchh---ccccch-------hhHHHHHHHHHHHH
Q 030888           32 GSWMDSIKGVFTGKKSSSEDGSVSSESFTLLRFADELKKARKLGTLKQYI---VGRSSA-------TTFADTFEKQEAVL  101 (170)
Q Consensus        32 ~sW~dkiKgvftG~K~~~~~~~~~~~~ftL~~FADelkkARr~Gsfk~fv---~Grsse-------at~~~afeK~Eaii  101 (170)
                      .+++++|..+.. ...+....-...+.|||+.|-+.|..+.++|++++.+   -|-+..       .--.+-+.+.++||
T Consensus       301 ~~Lie~i~e~~~-~~~~~l~~k~~~g~~~l~d~~~~l~~~~~~G~~~~~~~~ipg~~~~~~~~~~~~~~~~~~~~~~~ii  379 (504)
T 2j37_W          301 EGLIDKVNELKL-DDNEALIEKLKHGQFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIM  379 (504)
T ss_dssp             TTTHHHHTTTTT-CCCTTTTTSCTTSGGGGCCCHHHHHHCCCCCCCCSSCCCCSCCSCGGGCSCCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-HHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHhccccchhhccccccccChHhhhhhHHHH
Confidence            466777776621 1111111222345899999999999999999998753   243221       11246788899999


Q ss_pred             HHHhcc---CCC-Cccc--chhhHHHHHhhcCccHHHHHHHHHHhHhHHHHHHHHHHHHh--cCCCCCCccc
Q 030888          102 RCLGAF---DPN-GENL--QVSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEKLKE--EGKPMPKSMA  165 (170)
Q Consensus       102 R~L~~~---Dpt-GE~l--~asqk~~aAk~CnCTiadVE~~LAKftWaKeA~kKi~KLke--EGKPlPks~~  165 (170)
                      +..-..   +.. .+.|  ..|-+.+.|+-++.++.||...|..|.=++.+-|++.+++.  .|.+|++.++
T Consensus       380 ~smt~~Er~~~~~p~~~~~~~sr~~ria~gsg~~~~~v~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  451 (504)
T 2j37_W          380 DSMNDQELDSTDGAKVFSKQPGRIQRVARGSGVSTRDVQELLTQYTKFAQMVKKMGGIKGLFKGGDMSKNVS  451 (504)
T ss_dssp             TTSCHHHHHCTTHHHHHHHCTHHHHHHHHHTTCCHHHHHHHHHHHHHHHCCCCCCSCTTHHHHTCCCCSSHH
T ss_pred             HhCCHHHhcCCCCCcccCCChHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhcccccCCcCCchhhhhh
Confidence            743221   211 2466  68899999999999999999999999888777776654332  2455776553

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.87  E-value=0.00071  Score=59.29  Aligned_cols=116  Identities=18%  Similarity=0.207  Sum_probs=74.0

Q ss_pred             hhhhhhhcccccCCCCCCCCCCCCc--cchHHHHHHHHHHhHHhccccchh---ccccchhh---------HHHHHHHHH
Q 030888           33 SWMDSIKGVFTGKKSSSEDGSVSSE--SFTLLRFADELKKARKLGTLKQYI---VGRSSATT---------FADTFEKQE   98 (170)
Q Consensus        33 sW~dkiKgvftG~K~~~~~~~~~~~--~ftL~~FADelkkARr~Gsfk~fv---~Grsseat---------~~~afeK~E   98 (170)
                      +-++++..++--.+.......-..+  .|||+.|-+-|++-+++|++++.+   -|-+....         -..-|.+++
T Consensus       300 ~l~e~~~~~~~~~~~~~~~~k~~~g~~~f~~~d~~~q~~~~~kmg~~~~~~~m~pg~~~~~~~~~~~~~~~~~~~~~~~~  379 (433)
T 3kl4_A          300 SILEKVKGLEEYDKIQKKMEDVMEGKGKLTLRDVYAQIIALRKMGPLSKVLQHIPGLGIMLPTPSEDQLKIGEEKIRRWL  379 (433)
T ss_dssp             HHHHHHHHC-------------------CCHHHHHHHHHHHHHCCSSSGGGGTTTCCCCCSSTTHHHHHHTTSSCCCSHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhccCHHHHHHhCCCCccccccchhhhhhhhHHHHHHHH
Confidence            3455555555433322111122335  899999999999999999999875   33221111         123567889


Q ss_pred             HHHHHHhc---cCCCCcccchhhHHHHHhhcCccHHHHHHHHHHhHhHHHHHHHH
Q 030888           99 AVLRCLGA---FDPNGENLQVSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKI  150 (170)
Q Consensus        99 aiiR~L~~---~DptGE~l~asqk~~aAk~CnCTiadVE~~LAKftWaKeA~kKi  150 (170)
                      +||...-.   -+|  +-|..|-|.+.|+-+|.++.||...|..|.=++.+-|++
T Consensus       380 ~ii~smt~~e~~~p--~~~~~sr~~ria~gsg~~~~~v~~ll~~~~~~~~~~~~~  432 (433)
T 3kl4_A          380 AALNSMTYKELENP--NIIDKSRMRRIAEGSGLEVEEVRELLEWYNNMNRLLKMV  432 (433)
T ss_dssp             HHHHSSCSSTTTCG--GGCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHcCCHHHhhCc--hhccHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHHhC
Confidence            99955432   345  567899999999999999999999999998766665553

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.64  E-value=0.013  Score=50.67  Aligned_cols=91  Identities=20%  Similarity=0.370  Sum_probs=64.7

Q ss_pred             cchHHHHHHHHHHhHHhccccchhc---cccch-hhH-----HHHHHHHHHHHHHH---hccCCCCcccchhhHHHHHhh
Q 030888           58 SFTLLRFADELKKARKLGTLKQYIV---GRSSA-TTF-----ADTFEKQEAVLRCL---GAFDPNGENLQVSQKQEAAKQ  125 (170)
Q Consensus        58 ~ftL~~FADelkkARr~Gsfk~fv~---Grsse-at~-----~~afeK~EaiiR~L---~~~DptGE~l~asqk~~aAk~  125 (170)
                      .||++.|-+-|+.+.++|.|.+.+-   |-+.- ..+     .+.+.+.++||...   -.-+|  +.+..|-+.+.|+-
T Consensus       328 ~f~~~d~~~ql~~~~~~g~~~~~~~~lPg~~~~~~~~~~~~~~~~~~~~~~ii~smt~~er~~~--~~~~~sr~~ria~g  405 (433)
T 2xxa_A          328 GFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQIPDNVKSQMDDKVLVRMEAIINSMTMKERAKP--EIIKGSRKRRIAAG  405 (433)
T ss_dssp             SCCHHHHHHHHHHHHSCSSCHHHHCC---------------CHHHHHHHHHHHHTSCHHHHHCG--GGCCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcCCchhhhhcCcCcchhhhhhhccccHHHHHHHHHHHHcCCHHHhcCc--cccCHHHHHHHHcc
Confidence            6999999999999999999977543   32210 011     23467777877511   11133  35678999999999


Q ss_pred             cCccHHHHHHHHHHhHhHHHHHHHH
Q 030888          126 CNCTIAEVENTLAKFTWAKEAQKKI  150 (170)
Q Consensus       126 CnCTiadVE~~LAKftWaKeA~kKi  150 (170)
                      +|.++.||...|..|.=++.+-|++
T Consensus       406 sg~~~~~v~~l~~~~~~~~~~~~~~  430 (433)
T 2xxa_A          406 SGMQVQDVNRLLKQFDDMQRMMKKM  430 (433)
T ss_dssp             HTCCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999998666665554

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=94.69  E-value=0.022  Score=49.27  Aligned_cols=88  Identities=19%  Similarity=0.283  Sum_probs=54.1

Q ss_pred             ccchHHHHHHHHHHhHHhccccchh---ccccchh---hH---HHHHHHHHHHHH---HHhccCCCCcccchhhHHHHHh
Q 030888           57 ESFTLLRFADELKKARKLGTLKQYI---VGRSSAT---TF---ADTFEKQEAVLR---CLGAFDPNGENLQVSQKQEAAK  124 (170)
Q Consensus        57 ~~ftL~~FADelkkARr~Gsfk~fv---~Grssea---t~---~~afeK~EaiiR---~L~~~DptGE~l~asqk~~aAk  124 (170)
                      +.||++.|-+.|...+++|++++.+   -|-+...   .+   .+-+-+.++||.   .--.-+|.  .+..|-+.+.|+
T Consensus       323 ~~~~~~~~~~~l~~~~~~g~~~~~~~~~P~~~~~~~~~~~~~~~~~~~~~~a~i~smt~~er~~~~--~i~~sr~~rI~~  400 (432)
T 2v3c_C          323 GKFTLNELMTQLEAIENMGSMKKILSMIPGFGGAMPKELSHLTEAKIKKYKVIISSMTKEERENPK--IIKASRIRRIAR  400 (432)
T ss_dssp             SCCHHHHHHHHTTTTSCC-----------------------CCHHHHHHHHHHHTTSCHHHHSSCT--TCCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHccccccccchhhhcccHHHHHHHHHHHHhCCHHHhhCcc--ccCHHHHHHHHh
Confidence            5799999999999999999988743   3422110   01   123444555553   01111244  678899999999


Q ss_pred             hcCccHHHHHHHHHHhHhHHHH
Q 030888          125 QCNCTIAEVENTLAKFTWAKEA  146 (170)
Q Consensus       125 ~CnCTiadVE~~LAKftWaKeA  146 (170)
                      -++.++.||...|..|.=++.+
T Consensus       401 gsg~~~~~v~~ll~~~~~~~~~  422 (432)
T 2v3c_C          401 GSGTTENDVREVLRYYETTKNA  422 (432)
T ss_dssp             HTTSCHHHHHHHHHHHHHHHHH
T ss_pred             hcCCCHHHHHHHHHHHHHHHHH
Confidence            9999999999999999755444

>1dul_A Signal recognition particle protein (fifty-four homolog); protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.80A {Escherichia coli} SCOP: a.36.1.1 PDB: 2xkv_C

Probab=94.25  E-value=0.1  Score=36.44  Aligned_cols=56  Identities=20%  Similarity=0.266  Sum_probs=42.5

Q ss_pred             HHHHHHHHHHHHHh---ccCCCCcccchhhHHHHHhhcCccHHHHHHHHHHhHhHHHHHHH
Q 030888           92 DTFEKQEAVLRCLG---AFDPNGENLQVSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKK  149 (170)
Q Consensus        92 ~afeK~EaiiR~L~---~~DptGE~l~asqk~~aAk~CnCTiadVE~~LAKftWaKeA~kK  149 (170)
                      .-|.++++||...-   .-+  .+.|..|-|.+.|+-+|.++.||...|..|.=.+.+-|+
T Consensus        10 ~~lkr~~aII~SMT~~Er~n--P~ii~~SR~~RIA~GSG~~v~eVn~Llkqf~~m~kmmk~   68 (69)
T 1dul_A           10 KVLVRMEAIINSMTMKERAK--PEIIKGSRKRRIAAGSGMQVQDVNRLLKQFDDMQRMMKK   68 (69)
T ss_dssp             CHHHHHHHHHHTSCHHHHHC--GGGCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHhC--ccccCHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhc
Confidence            35788999993221   114  347888999999999999999999999999766555443

>1fi6_A EH domain protein REPS1; EPS15 homology domain, EF hand, calcium, RAS signal transduction, endocytosis/exocytosis complex; NMR {Mus musculus} SCOP: a.39.1.6

Probab=80.64  E-value=9.6  Score=24.91  Aligned_cols=67  Identities=12%  Similarity=0.192  Sum_probs=41.3

Q ss_pred             HHHHHHHhccCCCCc-ccchhhHHHHHhhcCccHHHHHHHHHHh-----------HhHHHHHHHHHHHHhcCCCCCCccc
Q 030888           98 EAVLRCLGAFDPNGE-NLQVSQKQEAAKQCNCTIAEVENTLAKF-----------TWAKEAQKKIEKLKEEGKPMPKSMA  165 (170)
Q Consensus        98 EaiiR~L~~~DptGE-~l~asqk~~aAk~CnCTiadVE~~LAKf-----------tWaKeA~kKi~KLkeEGKPlPks~~  165 (170)
                      +.+.+....||..|. .|...+=..+-..++.+..+++.++..+           .+..-++ .+ .....|.|+|.++-
T Consensus         9 ~~~~~~F~~~D~d~dG~I~~~el~~~l~~~g~~~~~~~~i~~~~D~d~dG~i~~~EF~~~~~-~~-~~~~~g~~lp~~lp   86 (92)
T 1fi6_A            9 QYYVNQFKTIQPDLNGFIPGSAAKEFFTKSKLPILELSHIWELSDFDKDGALTLDEFCAAFH-LV-VARKNGYDLPEKLP   86 (92)
T ss_dssp             HHHHHHHTTTCCSTTCEEEHHHHHHHHHHHSSCHHHHHHHHHHHCTTCSSEEEHHHHHHHHH-HH-HHHHHSCCCCCCSC
T ss_pred             HHHHHHHHHHCCCCCCcCcHHHHHHHHHHcCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHH-HH-HHHHcCCCCCccCC
Confidence            344556677777554 3666566666666777877888776653           2333332 22 34467999999874


Q ss_pred             c
Q 030888          166 E  166 (170)
Q Consensus       166 E  166 (170)
                      .
T Consensus        87 ~   87 (92)
T 1fi6_A           87 E   87 (92)
T ss_dssp             S
T ss_pred             H
Confidence            3

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	170
d2ffha2	100	a.36.1.1 (A:319-418) Signal sequence binding prote	0.002

>d2ffha2 a.36.1.1 (A:319-418) Signal sequence binding protein Ffh {Thermus aquaticus [TaxId: 271]} Length = 100

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Thermus aquaticus [TaxId: 271]

 Score = 34.1 bits (78), Expect = 0.002
 Identities = 19/100 (19%), Positives = 40/100 (40%), Gaps = 7/100 (7%)

Query: 59  FTLLRFADELKKARKLGTLKQYIVGRSSATTF-----ADTFEKQEAVLRCLGAF-DPNGE 112
            +L  F  +++  ++LG   + I+G                ++ EA++  +      +  
Sbjct: 2   LSLEDFLKQMQNLKRLGPFSE-ILGLLPGVPQGLKVDEKAIKRLEAIVLSMTPEERKDPR 60

Query: 113 NLQVSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKKIEK 152
            L  S+++  AK    ++ EV   +  F   K   K +EK
Sbjct: 61  ILNGSRRKRIAKGSGTSVQEVNRFIKAFEEMKALMKSLEK 100

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	170
d2ffha2	100	Signal sequence binding protein Ffh {Thermus aquat	98.87
d1hq1a_	104	Signal sequence binding protein Ffh {Escherichia c	97.27
d1qzxa2	138	Signal sequence binding protein Ffh {Archaeon Sulf	97.01
d1qb2a_	107	SRP54M {Human (Homo sapiens) [TaxId: 9606]}	96.31
d1dula_	69	Signal sequence binding protein Ffh {Escherichia c	94.24

>d2ffha2 a.36.1.1 (A:319-418) Signal sequence binding protein Ffh {Thermus aquaticus [TaxId: 271]}

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=98.87  E-value=2.1e-09  Score=77.88  Aligned_cols=92  Identities=20%  Similarity=0.305  Sum_probs=75.6

Q ss_pred             cchHHHHHHHHHHhHHhccccchhcc---cc-chhhHHHHHHHHHHHHHHH---hccCCCCcccchhhHHHHHhhcCccH
Q 030888           58 SFTLLRFADELKKARKLGTLKQYIVG---RS-SATTFADTFEKQEAVLRCL---GAFDPNGENLQVSQKQEAAKQCNCTI  130 (170)
Q Consensus        58 ~ftL~~FADelkkARr~Gsfk~fv~G---rs-seat~~~afeK~EaiiR~L---~~~DptGE~l~asqk~~aAk~CnCTi  130 (170)
                      +|||+.|.+.|++-+++|++++.+.-   -+ .-..-.+.|.++++||...   -.-+|  +.|.+|.+.++|+-||||+
T Consensus         1 eFtl~Df~~Ql~~i~kmG~l~~i~~miPG~~~~~~~~e~~lkr~~~Ii~SMT~~Er~~p--~ll~~sR~~RIA~GSG~~~   78 (100)
T d2ffha2           1 ELSLEDFLKQMQNLKRLGPFSEILGLLPGVPQGLKVDEKAIKRLEAIVLSMTPEERKDP--RILNGSRRKRIAKGSGTSV   78 (100)
T ss_dssp             CCCHHHHHHHHHHHHHTCCCTTGGGTSCSCSCCTTSCHHHHHHHHHHHHTSCHHHHHCG--GGCCHHHHHHHHHHHTSCH
T ss_pred             CCCHHHHHHHHHHHHhhcCHHHHHhhCcccchhhhhhHHHHHHHHHHHHHcCHhhccCc--hhccHHHHHHHHccCCCCH
Confidence            59999999999999999999987643   11 1122357899999999655   34455  4788999999999999999


Q ss_pred             HHHHHHHHHhHhHHHHHHHHH
Q 030888          131 AEVENTLAKFTWAKEAQKKIE  151 (170)
Q Consensus       131 adVE~~LAKftWaKeA~kKi~  151 (170)
                      .||...|.+|.+.+.+-|++.
T Consensus        79 ~eV~~Llkqf~~m~~mmk~m~   99 (100)
T d2ffha2          79 QEVNRFIKAFEEMKALMKSLE   99 (100)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999888764

>d1hq1a_ a.36.1.1 (A:) Signal sequence binding protein Ffh {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Escherichia coli [TaxId: 562]

Probab=97.27  E-value=9.6e-05  Score=53.12  Aligned_cols=90  Identities=20%  Similarity=0.388  Sum_probs=56.8

Q ss_pred             chHHHHHHHHHHhHHhccccchh---ccccc-----hhhH-HHHHHHHHHHHHHHh---ccCCCCcccchhhHHHHHhhc
Q 030888           59 FTLLRFADELKKARKLGTLKQYI---VGRSS-----ATTF-ADTFEKQEAVLRCLG---AFDPNGENLQVSQKQEAAKQC  126 (170)
Q Consensus        59 ftL~~FADelkkARr~Gsfk~fv---~Grss-----eat~-~~afeK~EaiiR~L~---~~DptGE~l~asqk~~aAk~C  126 (170)
                      |||+.|-+.|++-+++|++.+.+   -|-+.     .... ...|.++++||...-   .-+|  +.|.+|-+.++|+-+
T Consensus         2 Ftl~Df~~Q~~~i~kMG~l~~im~miPG~~~~~~~~~~~~~e~~lk~~~aIi~SMT~~Er~~p--~~l~~SR~~RIA~GS   79 (104)
T d1hq1a_           2 FDLNDFLEQLRQMKNMGGMASLMGKLPGMGQIPDNVKSQMDDKVLVRMEAIINSMTMKERAKP--EIIKGSRKRRIAAGS   79 (104)
T ss_dssp             CCHHHHHHHHTC----------------------------CCSSHHHHHHHHHTSCHHHHHCG--GGCCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhccCHHHHHHHhhcccchhhhhhhhhHHHHHHHHHHHHHhcCHHHhhcc--ccccccHHHHHHccC
Confidence            99999999999999999998754   23221     1112 244889999994432   2355  378899999999999


Q ss_pred             CccHHHHHHHHHHhHhHHHHHHHH
Q 030888          127 NCTIAEVENTLAKFTWAKEAQKKI  150 (170)
Q Consensus       127 nCTiadVE~~LAKftWaKeA~kKi  150 (170)
                      |-|+.||...|.+|.=.+.+-|++
T Consensus        80 G~~~~eV~~Llkqf~~m~kmmk~m  103 (104)
T d1hq1a_          80 GMQVQDVNRLLKQFDDMQRMMKKM  103 (104)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHhc
Confidence            999999999999997666555443

>d1qzxa2 a.36.1.1 (A:295-432) Signal sequence binding protein Ffh {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=97.01  E-value=0.00027  Score=52.58  Aligned_cols=92  Identities=20%  Similarity=0.231  Sum_probs=67.4

Q ss_pred             CccchHHHHHHHHHHhHHhccccchh---cccc------chhh---HHHHHHHHHHHHHHHh---ccCCCCcccchhhHH
Q 030888           56 SESFTLLRFADELKKARKLGTLKQYI---VGRS------SATT---FADTFEKQEAVLRCLG---AFDPNGENLQVSQKQ  120 (170)
Q Consensus        56 ~~~ftL~~FADelkkARr~Gsfk~fv---~Grs------seat---~~~afeK~EaiiR~L~---~~DptGE~l~asqk~  120 (170)
                      .+.|||..|-+-|++-+++|++.+.+   -|-+      ++..   -..-|.++++||...-   .-+|.  .|.+|-+.
T Consensus        30 ~G~Ftl~Df~~Q~~~i~kmG~l~~im~miPG~~~~~~~~~~~~~~~~e~~lk~~~~Ii~SMT~~Er~~P~--il~~SR~~  107 (138)
T d1qzxa2          30 KGKLTLRDVYAQIIALRKMGPLSKVLQHIPGLGIMLPTPSEDQLKIGEEKIRRWLAALNSMTYKELENPN--IIDKSRMR  107 (138)
T ss_dssp             ---CCCSTTHHHHHHHHHSCSSHHHHTTCCCSSCSCSCSTTSCSSCCSSTHHHHTHHHHSCBHHHHHCGG--GCCHHHHH
T ss_pred             cCCccHHHHHHHHHHHHccCcHHHHHHHHHhhcccccchhhhcccccHHHHHHHHHHHHHccHHHHcCcc--ccchHHHH
Confidence            36799999999999999999998753   2311      2222   2356999999993221   12443  78899999


Q ss_pred             HHHhhcCccHHHHHHHHHHhHhHHHHHHH
Q 030888          121 EAAKQCNCTIAEVENTLAKFTWAKEAQKK  149 (170)
Q Consensus       121 ~aAk~CnCTiadVE~~LAKftWaKeA~kK  149 (170)
                      +.|+-+|+++.||...|..|.=.+.+-|+
T Consensus       108 RIA~GSG~~~~eV~~Llkqf~~m~kmmK~  136 (138)
T d1qzxa2         108 RIAEGSGLEVEEVRELLEWYNNMNRLLKM  136 (138)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999866555444

>d1qb2a_ a.36.1.1 (A:) SRP54M {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: SRP54M
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.31  E-value=0.003  Score=44.91  Aligned_cols=87  Identities=17%  Similarity=0.273  Sum_probs=61.3

Q ss_pred             cchHHHHHHHHHHhHHhccccchh---ccccc----h---hhHHHHHHHHHHHHHHHhc---cCCCC---cccchhhHHH
Q 030888           58 SFTLLRFADELKKARKLGTLKQYI---VGRSS----A---TTFADTFEKQEAVLRCLGA---FDPNG---ENLQVSQKQE  121 (170)
Q Consensus        58 ~ftL~~FADelkkARr~Gsfk~fv---~Grss----e---at~~~afeK~EaiiR~L~~---~DptG---E~l~asqk~~  121 (170)
                      .|||+.|.+-|+.-+++|++.+.+   =|-++    .   ..-...|.++++||-..-.   -+|.+   ..+.+|-+.+
T Consensus         1 qFtl~Df~~Q~~~i~KMG~l~~ll~miPG~~~~~~~~~~~~~~~~~lk~~~~ii~SMT~~Er~~p~~~~~~~~~~sR~~R   80 (107)
T d1qb2a_           1 QFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIMDSMNDQELDSTDGAKVFSKQPGRIQR   80 (107)
T ss_dssp             CCCHHHHHHHHHHHHHTHHHHHHHHHSTTSCTTTTCTTCHHHHHHHHHHHHHHHTTSCHHHHHSTTTHHHHHHSTHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHhhccHhhcCCCchhhhhccChHHHHH
Confidence            499999999999999999998654   23221    1   1123457777777722111   13332   1245789999


Q ss_pred             HHhhcCccHHHHHHHHHHhHhHH
Q 030888          122 AAKQCNCTIAEVENTLAKFTWAK  144 (170)
Q Consensus       122 aAk~CnCTiadVE~~LAKftWaK  144 (170)
                      .|+-.|+|+.||...|..|.=.+
T Consensus        81 IA~GSG~~~~eVn~Llkqf~~m~  103 (107)
T d1qb2a_          81 VARGSGVSTRDVQELLTQYTKFA  103 (107)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHhccCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999996544

>d1dula_ a.36.1.1 (A:) Signal sequence binding protein Ffh {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Escherichia coli [TaxId: 562]

Probab=94.24  E-value=0.033  Score=37.50  Aligned_cols=55  Identities=22%  Similarity=0.325  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHH---hccCCCCcccchhhHHHHHhhcCccHHHHHHHHHHhHhHHHHHHH
Q 030888           93 TFEKQEAVLRCL---GAFDPNGENLQVSQKQEAAKQCNCTIAEVENTLAKFTWAKEAQKK  149 (170)
Q Consensus        93 afeK~EaiiR~L---~~~DptGE~l~asqk~~aAk~CnCTiadVE~~LAKftWaKeA~kK  149 (170)
                      .|.+.||||...   -.-+|  +.|.+|-+.++|+-+|.++.||...|..|.=.+.+-|+
T Consensus        11 ~l~r~eaiI~SMT~~ER~~P--~ll~~SR~~RIA~GSG~~~~eVn~Llkqf~~m~kmmk~   68 (69)
T d1dula_          11 VLVRMEAIINSMTMKERAKP--EIIKGSRKRRIAAGSGMQVQDVNRLLKQFDDMQRMMKK   68 (69)
T ss_dssp             HHHHHHHHHHTSCHHHHHCG--GGCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHhCh--HhhchhHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhc
Confidence            478889999332   22466  47889999999999999999999999999766655444