Citrus Sinensis ID: 025778

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------25
MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGSKQTFNISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVNCLNSLCRE
ccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccHHHHHHHHHHHccHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHc
ccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHEHHHHEEEEEEccccccccccccccccccccHHHcccccccccHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHcc
MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGIlssadpslAAELFPYLVElqsspeslVRKSLIETIEDIGLKAMEHSSILMPVLLAFLrdgdsgvagksivcgTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLftsdsndfenftkegskqtfniswlsgghpfldpvsltSEANRMLGTLMDLLQSACNLPGSVIITVVNCLNSLCRE
MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGSKQTFNISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVNCLNSLCRE
MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGSKQTFNISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVNCLNSLCRE
*****************NHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGSKQTFNISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVNCLNSLC**
******D****LL************LSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLL********************NISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVNCLNSLCRE
********ALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGSKQTFNISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVNCLNSLCRE
******DQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSD**************TFNISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVNCLNSLCRE
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGSKQTFNISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVNCLNSLCRE
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

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 ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query248
147791250 409 hypothetical protein VITISV_001105 [Viti 0.975 0.591 0.727 3e-91
302142115242 unnamed protein product [Vitis vinifera] 0.967 0.991 0.725 7e-91
225458986241 PREDICTED: uncharacterized protein LOC10 0.967 0.995 0.725 7e-91
255537870 1390 conserved hypothetical protein [Ricinus 0.983 0.175 0.651 8e-89
356507969269 PREDICTED: symplekin-like [Glycine max] 0.967 0.892 0.652 9e-85
224067086251 predicted protein [Populus trichocarpa] 0.967 0.956 0.654 9e-85
449436918243 PREDICTED: uncharacterized protein LOC10 0.967 0.987 0.647 1e-83
363807220254 uncharacterized protein LOC100810420 [Gl 0.967 0.944 0.651 9e-83
388508130248 unknown [Medicago truncatula] 0.963 0.963 0.615 5e-78
297845704 1290 T17H3.9 [Arabidopsis lyrata subsp. lyrat 0.903 0.173 0.633 5e-75
>gi|147791250|emb|CAN63444.1| hypothetical protein VITISV_001105 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  340 bits (873), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 176/242 (72%), Positives = 201/242 (83%)

Query: 1   MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPES 60
           MA  SRDQAL+LLAAANNHGDLAVKLSSL+Q + IL +  PS AAELFPYLVELQSSPE+
Sbjct: 1   MAGASRDQALALLAAANNHGDLAVKLSSLRQAKDILLAVHPSFAAELFPYLVELQSSPET 60

Query: 61  LVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITM 120
           LVRKSLIE IE+IGLKAMEHSSIL+ VLL FLRDGDS +A +SIV GTNFFC VLEE+ +
Sbjct: 61  LVRKSLIEAIEEIGLKAMEHSSILVSVLLVFLRDGDSIIAKQSIVSGTNFFCSVLEELAL 120

Query: 121 QFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDF 180
           QF  HGKVERWLEELW WMV+ KDAV AIAL PG  G K+LA+KFLET+VL FTSD+NDF
Sbjct: 121 QFHRHGKVERWLEELWVWMVKLKDAVLAIALGPGPFGVKILAMKFLETYVLHFTSDANDF 180

Query: 181 ENFTKEGSKQTFNISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVN 240
           E  + EGS + FNISW+ GGHP LDP SL S+ANR++G L+ LLQSA +L G + ITVVN
Sbjct: 181 EKSSIEGSGRAFNISWVVGGHPVLDPASLMSDANRIIGVLLTLLQSASSLSGCLTITVVN 240

Query: 241 CL 242
           CL
Sbjct: 241 CL 242

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|302142115|emb|CBI19318.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|225458986|ref|XP_002283639.1| PREDICTED: uncharacterized protein LOC100260884 [Vitis vinifera] Back     alignment and taxonomy information
>gi|255537870|ref|XP_002510000.1| conserved hypothetical protein [Ricinus communis] gi|223550701|gb|EEF52187.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
>gi|356507969|ref|XP_003522735.1| PREDICTED: symplekin-like [Glycine max] Back     alignment and taxonomy information
>gi|224067086|ref|XP_002302348.1| predicted protein [Populus trichocarpa] gi|222844074|gb|EEE81621.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449436918|ref|XP_004136239.1| PREDICTED: uncharacterized protein LOC101221904 [Cucumis sativus] Back     alignment and taxonomy information
>gi|363807220|ref|NP_001242610.1| uncharacterized protein LOC100810420 [Glycine max] gi|255644520|gb|ACU22763.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|388508130|gb|AFK42131.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|297845704|ref|XP_002890733.1| T17H3.9 [Arabidopsis lyrata subsp. lyrata] gi|297336575|gb|EFH66992.1| T17H3.9 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query248
TAIR|locus:2196869264 AT1G27590 "AT1G27590" [Arabido 0.963 0.905 0.635 7.1e-77
TAIR|locus:2196914 649 AT1G27570 [Arabidopsis thalian 0.963 0.368 0.532 4.6e-57
TAIR|locus:2179137 1467 ESP4 "AT5G01400" [Arabidopsis 0.963 0.162 0.356 2.5e-31
TAIR|locus:2196869 AT1G27590 "AT1G27590" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 774 (277.5 bits), Expect = 7.1e-77, P = 7.1e-77
 Identities = 152/239 (63%), Positives = 186/239 (77%)

Query:     2 AAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESL 61
             AA +R QALSLLAAANNHGDLAVKLSSL+QV+ IL S +PSL+AE+FPYL EL  S E L
Sbjct:     6 AATARAQALSLLAAANNHGDLAVKLSSLRQVKEILLSLEPSLSAEIFPYLAELHLSREIL 65

Query:    62 VRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQ 121
             VRKSLIE IE++GL+ ++HS +L+ VLL   RD D  VA KSI  GT FFC +LEE+ MQ
Sbjct:    66 VRKSLIEIIEEVGLRMLDHSYVLVSVLLVLSRDEDPTVAKKSISVGTTFFCTILEEMAMQ 125

Query:   122 FRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFE 181
             F   GKV+RW  ELWTWMV+FKD VFA ALEPG VG K+LALKF+ET +LLFT D++D E
Sbjct:   126 FHHRGKVDRWCGELWTWMVKFKDTVFATALEPGCVGVKVLALKFMETFILLFTPDASDPE 185

Query:   182 NFTKEGSKQTFNISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVN 240
               + EGS+  FNISWL+GGHP L+P +L SEANR  G L+D +QSA  LPG++ I+V++
Sbjct:   186 KASSEGSRHMFNISWLAGGHPILNPATLMSEANRTFGILVDFIQSANRLPGALTISVIS 244
GO:0003674 "molecular_function" evidence=ND
GO:0005737 "cytoplasm" evidence=ISM
GO:0008150 "biological_process" evidence=ND
TAIR|locus:2196914 AT1G27570 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2179137 ESP4 "AT5G01400" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00015043001
SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (1176 aa)
(Vitis vinifera)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query248
pfam11935233 pfam11935, DUF3453, Domain of unknown function (DU 1e-23
>gnl|CDD|221326 pfam11935, DUF3453, Domain of unknown function (DUF3453) Back     alignment and domain information 
 Score = 95.0 bits (237), Expect = 1e-23
 Identities = 35/156 (22%), Positives = 71/156 (45%), Gaps = 12/156 (7%)

Query: 92  LRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIAL 151
           LRD D  V  + I+C T+ +  V   +              E+LW  +   K+ +  +  
Sbjct: 2   LRDEDPSVVKRVILCSTSIYPLVFRLVA--------NNDNDEQLWDTLTALKNRILNL-W 52

Query: 152 EPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGSKQTFNISWLSGGHPFLDPVSLTS 211
           +    G KL A+KF+E  +L+ +   +D  +  +   +  F++S +   HP +   +L +
Sbjct: 53  DTDNPGVKLAAIKFVERVILVQSPGPSD--SDPRRKDENDFSLSKVPPNHPLIKYQNLEA 110

Query: 212 EANRMLGTLMDLLQSACNLPGSVIITVVNCLNSLCR 247
           EA  +L  L+ +LQ   ++   ++   +N L  + +
Sbjct: 111 EAKGLLDRLLKVLQED-SIDSPLLTATLNSLAIIAK 145

This presumed domain is functionally uncharacterized. This domain is found in eukaryotes. This domain is typically between 239 to 261 amino acids in length. Length = 233

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 248
PF11935239 DUF3453: Domain of unknown function (DUF3453); Int 100.0
KOG1895 957 consensus mRNA cleavage and polyadenylation factor 99.88
PF05918 556 API5: Apoptosis inhibitory protein 5 (API5); Inter 96.86
PF01602 526 Adaptin_N: Adaptin N terminal region; InterPro: IP 96.75
PRK09687280 putative lyase; Provisional 96.18
PTZ00429 746 beta-adaptin; Provisional 95.94
COG5096 757 Vesicle coat complex, various subunits [Intracellu 95.72
PF01602 526 Adaptin_N: Adaptin N terminal region; InterPro: IP 95.72
PF12830187 Nipped-B_C: Sister chromatid cohesion C-terminus 95.36
COG5096 757 Vesicle coat complex, various subunits [Intracellu 94.96
PF12717178 Cnd1: non-SMC mitotic condensation complex subunit 94.73
PF10508 503 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; 94.34
PF1364688 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2I 94.18
PTZ00429 746 beta-adaptin; Provisional 94.12
PF12348228 CLASP_N: CLASP N terminal; InterPro: IPR024395 Thi 94.08
PF1275597 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region 93.86
PF1364688 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2I 92.86
cd00020120 ARM Armadillo/beta-catenin-like repeats. An approx 92.65
PF1036392 DUF2435: Protein of unknown function (DUF2435) 92.46
cd00020120 ARM Armadillo/beta-catenin-like repeats. An approx 92.37
KOG1058 948 consensus Vesicle coat complex COPI, beta subunit 92.35
PF12717178 Cnd1: non-SMC mitotic condensation complex subunit 92.17
PF0298531 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT re 90.8
PF1351355 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O 90.51
KOG1060 968 consensus Vesicle coat complex AP-3, beta subunit 90.19
PRK09687280 putative lyase; Provisional 89.96
PF12530234 DUF3730: Protein of unknown function (DUF3730) ; I 89.2
PF0298531 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT re 87.89
KOG2011 1048 consensus Sister chromatid cohesion complex Cohesi 87.64
KOG2956516 consensus CLIP-associating protein [General functi 87.05
KOG1020 1692 consensus Sister chromatid cohesion protein SCC2/N 86.72
PF05918 556 API5: Apoptosis inhibitory protein 5 (API5); Inter 86.65
PF12348228 CLASP_N: CLASP N terminal; InterPro: IPR024395 Thi 85.91
KOG1525 1266 consensus Sister chromatid cohesion complex Cohesi 85.02
PF10274183 ParcG: Parkin co-regulated protein; InterPro: IPR0 84.83
KOG1059 877 consensus Vesicle coat complex AP-3, delta subunit 82.48
PF10521282 DUF2454: Protein of unknown function (DUF2454); In 82.42
PF10508 503 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; 81.34
PF1275597 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region 80.85
PF1276542 Cohesin_HEAT: HEAT repeat associated with sister c 80.63
>PF11935 DUF3453: Domain of unknown function (DUF3453); InterPro: IPR021850 This presumed domain is functionally uncharacterised Back     alignment and domain information 
Probab=100.00  E-value=4.6e-41  Score=296.53  Aligned_cols=146  Identities=32%  Similarity=0.552  Sum_probs=120.4

Q ss_pred             hhccCChHHHHHHHHhhhhhhHHHHHHHhhHhhhcCCccchHHHHHHHHHHHHHHHHHHhccCCCcchHHHHHHHHhHHH
Q 025778           91 FLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHV  170 (248)
Q Consensus        91 lL~d~~~~V~K~aI~~~t~lY~~~l~~~a~~~~~~~~~~~~~~~~W~~m~~lK~~Il~~~~d~~n~Gvr~~aiKF~e~vI  170 (248)
                      ||+|+|+.|+|++|+|++++||.+|     +|++   .+++++++|++|+++|++|++ +|+++|+|||++|+||+|+||
T Consensus         1 Ll~d~d~~v~K~~I~~~~~iy~~~~-----~~i~---~~~~~~~~W~~~~~lK~~Il~-~~~~~~~gvk~~~iKFle~vI   71 (239)
T PF11935_consen    1 LLNDEDPAVVKRAIQCSTSIYPLVF-----RWIC---VNPSDEQLWESMNELKDRILS-LWDSENPGVKLAAIKFLERVI   71 (239)
T ss_dssp             HCT-SSHHHHHHHHHHHHHHHHHHH-----HHHS-----HHHHHHHHHHHHHHHHHHH-GGGSSSHHHHHHHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHHHHHHHHH-----HHHc---CCchHHHHHHHHHHHHHHHHH-HhcCCCchHHHHHHHHHHHHH
Confidence            6899999999999999999999999     6663   367899999999999999999 799999999999999999999


Q ss_pred             hhccCCCCCcccccccCCcccccccccCCCCCCCChhhHHHHHHHHHHHHHHHhhhccCCChhHHHHHHHHHHHHhhC
Q 025778          171 LLFTSDSNDFENFTKEGSKQTFNISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVNCLNSLCRE  248 (248)
Q Consensus       171 l~qt~~~~d~~~~~~~~~~~d~sl~~vP~~Hp~l~~~~Le~Ea~~lL~~LL~~l~~~ss~~~~l~~a~lnsL~~iakq  248 (248)
                      ++||+++++++.+  .++++||||++||+|||+|++++||+||+++||.||++++++. +++++++|++|||++|||+
T Consensus        72 l~qs~~~~~~~~~--~~~~~d~SL~~vp~~Hp~l~~~~Le~Ea~~lL~~Ll~~l~~~~-i~~~~~~a~insL~~Iak~  146 (239)
T PF11935_consen   72 LVQSPGSSDSPPR--RGSPNDFSLSSVPPNHPLLNPQQLEAEANGLLDRLLDVLQSPH-ISSPLLTAIINSLSNIAKQ  146 (239)
T ss_dssp             HHTS---TTS-----GGGTTS--GGGS-TT-SSS-HHHHHHHHHHHHHHHHHHHC-TT---HHHHHHHHHHHHHHHHH
T ss_pred             HhcCCCCCCCccc--cccccCCCHHHcCCCCCcCCHHHHHHHHHHHHHHHHHHHhhcc-cchHHHHHHHHHHHHHHHH
Confidence            9999998776543  2334799999999999999999999999999999999999776 4679999999999999985

This domain is found in eukaryotes. This domain is typically between 239 to 261 amino acids in length. ; PDB: 3ODS_A 3ODR_A 3O2Q_A 3O2T_A 3O2S_A 3GS3_A.
>KOG1895 consensus mRNA cleavage and polyadenylation factor II complex, subunit PTA1 [RNA processing and modification] Back     alignment and domain information
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms Back     alignment and domain information
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment Back     alignment and domain information
>PRK09687 putative lyase; Provisional Back     alignment and domain information
>PTZ00429 beta-adaptin; Provisional Back     alignment and domain information
>COG5096 Vesicle coat complex, various subunits [Intracellular trafficking and secretion] Back     alignment and domain information
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment Back     alignment and domain information
>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus Back     alignment and domain information
>COG5096 Vesicle coat complex, various subunits [Intracellular trafficking and secretion] Back     alignment and domain information
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1 Back     alignment and domain information
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells Back     alignment and domain information
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A Back     alignment and domain information
>PTZ00429 beta-adaptin; Provisional Back     alignment and domain information
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ] Back     alignment and domain information
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region Back     alignment and domain information
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A Back     alignment and domain information
>cd00020 ARM Armadillo/beta-catenin-like repeats Back     alignment and domain information
>PF10363 DUF2435: Protein of unknown function (DUF2435) Back     alignment and domain information
>cd00020 ARM Armadillo/beta-catenin-like repeats Back     alignment and domain information
>KOG1058 consensus Vesicle coat complex COPI, beta subunit [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1 Back     alignment and domain information
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 [] Back     alignment and domain information
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B Back     alignment and domain information
>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PRK09687 putative lyase; Provisional Back     alignment and domain information
>PF12530 DUF3730: Protein of unknown function (DUF3730) ; InterPro: IPR022542 This domain is found in eukaryotes, and is typically between 220 and 262 amino acids in length Back     alignment and domain information
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 [] Back     alignment and domain information
>KOG2011 consensus Sister chromatid cohesion complex Cohesin, subunit STAG/IRR1/SCC3 [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG2956 consensus CLIP-associating protein [General function prediction only] Back     alignment and domain information
>KOG1020 consensus Sister chromatid cohesion protein SCC2/Nipped-B [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair] Back     alignment and domain information
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms Back     alignment and domain information
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ] Back     alignment and domain information
>KOG1525 consensus Sister chromatid cohesion complex Cohesin, subunit PDS5 [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>PF10274 ParcG: Parkin co-regulated protein; InterPro: IPR019399 This family of proteins is transcribed anti-sense along the DNA to the Parkin gene product and the two appear to be transcribed under the same promoter Back     alignment and domain information
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF10521 DUF2454: Protein of unknown function (DUF2454); InterPro: IPR018870 Putative protein of unknown function; subunit of the ASTRA complex which is part of the chromatin remodeling machinery; similar to Schizosaccharomyces pombe (Fission yeast) Tti2p; may interact with Rsm23p [] Back     alignment and domain information
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells Back     alignment and domain information
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region Back     alignment and domain information
>PF12765 Cohesin_HEAT: HEAT repeat associated with sister chromatid cohesion Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query248
3o2q_A351 Crystal Structure Of The Human Symplekin-Ssu72-Ctd 7e-05
3o2t_A 386 Crystal Structure Of The N-Terminal Domain Of Human 1e-04
3odr_A 415 Crystal Structure Of The N-Terminal Domain Of Human 1e-04
3ods_A 415 Crystal Structure Of The K185a Mutant Of The N-Term 7e-04
>pdb|3O2Q|A Chain A, Crystal Structure Of The Human Symplekin-Ssu72-Ctd Phosphopeptide Complex Length = 351 Back     alignment and structure 
Iteration: 1

 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 41/180 (22%), Positives = 80/180 (44%), Gaps = 7/180 (3%)
Query: 25  KLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSIL 84
           K++ LKQV+ ++ + DP+L       ++  Q+     VRK +I  IE+   + +E    L
Sbjct: 42  KITVLKQVQELIINKDPTLLDNFLDEIIAFQADKSIEVRKFVIGFIEEACKRDIELLLKL 101
Query: 85  MPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKD 144
           +  L   LRD +  V  K+I+  T  +     ++ +Q+    +V   L+E    MV    
Sbjct: 102 IANLNMLLRDENVNVVKKAILTMTQLY-----KVALQWMVKSRVISELQEACWDMVSAMA 156
Query: 145 AVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGSKQTFNISWLSGGHPFL 204
               + L+    G +  A+KF+E  ++  +    D E       +   ++  +   HP++
Sbjct: 157 GDIILLLDSDNDGIRTHAIKFVEGLIVTLSPRMADSE--IPRRQEHDISLDRIPRDHPYI 214
>pdb|3O2T|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Symplekin Length = 386 Back     alignment and structure
>pdb|3ODR|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Symplekin Length = 415 Back     alignment and structure
>pdb|3ODS|A Chain A, Crystal Structure Of The K185a Mutant Of The N-Terminal Domain Of Human Symplekin Length = 415 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query248
3gs3_A257 Symplekin, LD45768P; helix-turn-helix heat repeat 6e-47
3o2t_A 386 Symplekin; heat repeat, scaffold, protein binding; 2e-44
2db0_A253 253AA long hypothetical protein; heat repeats, hel 7e-04
>3gs3_A Symplekin, LD45768P; helix-turn-helix heat repeat extended loop, transcription, protein binding; 2.40A {Drosophila melanogaster} Length = 257 Back     alignment and structure
 Score =  155 bits (393), Expect = 6e-47
 Identities = 41/247 (16%), Positives = 90/247 (36%), Gaps = 12/247 (4%)

Query: 1   MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPES 60
             A +R + +            + K   L +V+  +  +   LA E    ++ L      
Sbjct: 9   KTATARAKVVDWCNELVIASP-STKCELLAKVQETVLGSCAELAEEFLESVLSLAHDSNM 67

Query: 61  LVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITM 120
            VRK ++  +E +    +E    ++ V+   LRD  + V  + I    + +   L+ +  
Sbjct: 68  EVRKQVVAFVEQVCKVKVELLPHVINVVSMLLRDNSAQVIKRVIQACGSIYKNGLQYLCS 127

Query: 121 QFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDF 180
                 +     E+ W  +   K  +  + ++    G +  A+KFLE  V+L +    D 
Sbjct: 128 ----LMEPGDSAEQAWNILSLIKAQILDM-IDNENDGIRTNAIKFLEGVVVLQSFADED- 181

Query: 181 ENFTKEGSKQTFNISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVN 240
                      F+++ +           L  E N +L  L+    +  ++    +I   +
Sbjct: 182 ----SLKRDGDFSLADVPDHCTLFRREKLQEEGNNILDILLQFHGTT-HISSVNLIACTS 236

Query: 241 CLNSLCR 247
            L ++ +
Sbjct: 237 SLCTIAK 243
>3o2t_A Symplekin; heat repeat, scaffold, protein binding; 1.40A {Homo sapiens} PDB: 3odr_A 3ods_A 3o2q_A* 3o2s_A Length = 386 Back     alignment and structure
>2db0_A 253AA long hypothetical protein; heat repeats, helical structure, structural genomics; 2.20A {Pyrococcus horikoshii} Length = 253 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query248
3gs3_A257 Symplekin, LD45768P; helix-turn-helix heat repeat 100.0
3o2t_A 386 Symplekin; heat repeat, scaffold, protein binding; 100.0
2qk1_A249 Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, h 96.92
2vgl_B 591 AP-2 complex subunit beta-1; cytoplasmic vesicle, 96.75
2qk2_A242 LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2 96.59
2qk2_A242 LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2 96.4
3ltm_A211 Alpha-REP4; protein engineering, heat-like repeat, 96.38
2vgl_B 591 AP-2 complex subunit beta-1; cytoplasmic vesicle, 96.27
1oyz_A280 Hypothetical protein YIBA; structural genomics, PS 96.22
2db0_A253 253AA long hypothetical protein; heat repeats, hel 96.2
3u0r_A 507 Apoptosis inhibitor 5; heat repeat, armadillo repe 95.91
2qk1_A249 Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, h 95.67
4fdd_A 852 Transportin-1; heat repeats, karyopherin, nuclear 95.65
4db6_A210 Armadillo repeat protein; solenoid repeat, armadil 95.62
1b3u_A 588 Protein (protein phosphatase PP2A); scaffold prote 95.57
1b3u_A588 Protein (protein phosphatase PP2A); scaffold prote 95.53
3ltm_A211 Alpha-REP4; protein engineering, heat-like repeat, 95.43
4fdd_A 852 Transportin-1; heat repeats, karyopherin, nuclear 95.07
3ltj_A201 Alpharep-4; protein engineering, heat-like repeat, 94.84
3ltj_A201 Alpharep-4; protein engineering, heat-like repeat, 94.77
2vgl_A 621 Adaptor protein complex AP-2, alpha 2 subunit; cyt 94.55
4hxt_A252 De novo protein OR329; structural genomics, PSI-bi 94.4
1te4_A131 Conserved protein MTH187; methanobacterium thermoa 94.37
1ibr_B 462 P95, importin beta-1 subunit, nuclear factor; smal 94.04
2jdq_A 450 Importin alpha-1 subunit; transport, PB2 subunit, 93.89
4hxt_A252 De novo protein OR329; structural genomics, PSI-bi 93.8
1u6g_C 1230 TIP120 protein, CAND1; cullin repeat, heat repeat, 93.69
3tpo_A 529 Importin subunit alpha-2; nuclear import, protein 93.62
1w63_A 618 Adapter-related protein complex 1 gamma 1 subunit; 93.37
1oyz_A280 Hypothetical protein YIBA; structural genomics, PS 93.34
3ul1_B 510 Importin subunit alpha-2; arm repeat, armadillo re 93.25
3tjz_B355 Coatomer subunit gamma; protein trafficking, golgi 93.16
2jdq_A450 Importin alpha-1 subunit; transport, PB2 subunit, 93.16
1u6g_C 1230 TIP120 protein, CAND1; cullin repeat, heat repeat, 93.1
4db6_A210 Armadillo repeat protein; solenoid repeat, armadil 93.07
2bpt_A 861 Importin beta-1 subunit; nuclear transport, nucleo 92.71
2bpt_A 861 Importin beta-1 subunit; nuclear transport, nucleo 92.62
3tjz_B355 Coatomer subunit gamma; protein trafficking, golgi 92.52
1ibr_B462 P95, importin beta-1 subunit, nuclear factor; smal 92.38
4db8_A252 Armadillo-repeat protein; solenoid repeat, de novo 92.31
4db8_A252 Armadillo-repeat protein; solenoid repeat, de novo 92.27
1wa5_B530 Importin alpha subunit; nuclear transport/complex, 91.91
4b8j_A528 Importin subunit alpha-1A; transport protein, nucl 91.73
4b8j_A 528 Importin subunit alpha-1A; transport protein, nucl 91.69
1qgr_A 876 Protein (importin beta subunit); transport recepto 91.53
1xqr_A296 HSPBP1 protein; armadillo repeat, superhelical twi 90.71
1wa5_B 530 Importin alpha subunit; nuclear transport/complex, 90.4
1qgr_A 876 Protein (importin beta subunit); transport recepto 89.87
1xqr_A296 HSPBP1 protein; armadillo repeat, superhelical twi 89.45
3ul1_B510 Importin subunit alpha-2; arm repeat, armadillo re 88.27
1te4_A131 Conserved protein MTH187; methanobacterium thermoa 87.8
1w63_A 618 Adapter-related protein complex 1 gamma 1 subunit; 87.64
3u0r_A 507 Apoptosis inhibitor 5; heat repeat, armadillo repe 86.51
2x19_B 963 Importin-13; nuclear transport, protein transport; 86.04
4ady_A 963 RPN2, 26S proteasome regulatory subunit RPN2; prot 83.48
4ffb_C278 Protein STU2; tubulin fold, heat repeats, cytoskel 82.59
2of3_A266 ZYG-9; multifunctional macromolecule, kinetochore, 81.87
1xm9_A 457 Plakophilin 1; armadillo repeat, cell adhesion; 2. 80.95
2db0_A253 253AA long hypothetical protein; heat repeats, hel 80.68
3tpo_A529 Importin subunit alpha-2; nuclear import, protein 80.24
>3gs3_A Symplekin, LD45768P; helix-turn-helix heat repeat extended loop, transcription, protein binding; 2.40A {Drosophila melanogaster} Back     alignment and structure
Probab=100.00  E-value=9.8e-68  Score=469.07  Aligned_cols=233  Identities=18%  Similarity=0.261  Sum_probs=215.8

Q ss_pred             cchHHHHHHHHHHhhcCCChHHHHHHHHHHHHHHhcCCCchHHhhhHHHHhccCCchhHHHHHHHHHHHHHhhhhhhhhh
Q 025778            3 AVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSS   82 (248)
Q Consensus         3 ~s~~~~~~~lln~A~~~~d~~~k~~~L~q~relll~~~p~ll~~~l~~il~~~~~~~~~vrk~~~~fiee~~~~~~e~~~   82 (248)
                      +++++|+++|||+|+.++| ++|+++|+||||+++++||+++|+|||++++|+++++.+||||+++||||+|++++++++
T Consensus        11 ~~~~~~v~~lln~A~~~~~-~~kl~~L~qa~el~~~~dp~ll~~~l~~il~~~~~~~~~vrk~~~~Fi~e~~~~k~~l~~   89 (257)
T 3gs3_A           11 ATARAKVVDWCNELVIASP-STKCELLAKVQETVLGSCAELAEEFLESVLSLAHDSNMEVRKQVVAFVEQVCKVKVELLP   89 (257)
T ss_dssp             HHHHHHHHHHHHHHTTCCH-HHHHHHHHHHHHHHTTTTGGGHHHHHHHHHGGGGCSCHHHHHHHHHHHHHHHHHCGGGHH
T ss_pred             ccHHHHHHHHHHHhhhcCc-HHHHHHHHHHHHHHHccCHhHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5899999999999999988 699999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHhhccCChHHHHHHHHhhhhhhHHHHHHHhhHhhhcCC-ccchHHHHHHHHHHHHHHHHHHhccCCCcchHHH
Q 025778           83 ILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGK-VERWLEELWTWMVRFKDAVFAIALEPGLVGTKLL  161 (248)
Q Consensus        83 ~~l~~L~~lL~d~~~~V~K~aI~~~t~lY~~~l~~~a~~~~~~~~-~~~~~~~~W~~m~~lK~~Il~~~~d~~n~Gvr~~  161 (248)
                      +++++|.+|++|+|++|+|++|+|++++||.+|     +|++.++ ++++++++|++|+++|++|++ +|+++|+|||++
T Consensus        90 ~~l~~L~~Ll~d~d~~V~K~~I~~~~~iY~~~l-----~~i~~~~~~~~~~~~~W~~m~~lK~~Il~-~~~s~n~gvkl~  163 (257)
T 3gs3_A           90 HVINVVSMLLRDNSAQVIKRVIQACGSIYKNGL-----QYLCSLMEPGDSAEQAWNILSLIKAQILD-MIDNENDGIRTN  163 (257)
T ss_dssp             HHHHHHHHHTTCSCHHHHHHHHHHHHHHHHHHH-----HHHTTSSSCCHHHHHHHHHHHHHHHHHHH-GGGSSCHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHH-----HHHhcCCCCcchHHHHHHHHHHHHHHHHH-HHccCCcchHHH
Confidence            999999999999999999999999999999999     6666665 566789999999999999999 799999999999


Q ss_pred             HHHHHhHHHhhccCCCCCcccccccCCcccccccccCCCCCCCChhhHHHHHHHHHHHHHHHhhhccCCChhHHHHHHHH
Q 025778          162 ALKFLETHVLLFTSDSNDFENFTKEGSKQTFNISWLSGGHPFLDPVSLTSEANRMLGTLMDLLQSACNLPGSVIITVVNC  241 (248)
Q Consensus       162 aiKF~e~vIl~qt~~~~d~~~~~~~~~~~d~sl~~vP~~Hp~l~~~~Le~Ea~~lL~~LL~~l~~~ss~~~~l~~a~lns  241 (248)
                      |+||+|+||++||++.++  .++++   +||||++||+|||+|++++||+||+++||+||+++.++. ++.++++|++||
T Consensus       164 ~iKF~e~vIl~qT~~~~~--~~~~~---~d~SL~~Vp~~Hp~l~~~~Le~Ea~~lL~~LL~~~~~~~-iss~~l~a~lns  237 (257)
T 3gs3_A          164 AIKFLEGVVVLQSFADED--SLKRD---GDFSLADVPDHCTLFRREKLQEEGNNILDILLQFHGTTH-ISSVNLIACTSS  237 (257)
T ss_dssp             HHHHHHHHHHHTSCCCTT--SCCCT---TCCCGGGSCSSCCSSCHHHHHHHHHHHHHHHHHHHTCTT-CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCCCcc--cCCCC---CCCCHHHCCCCCCcCCHHHHHHHHHHHHHHHHHHHcCCc-cchHHHHHHHHH
Confidence            999999999999976544  34444   499999999999999999999999999999999977553 345679999999


Q ss_pred             HHHHhhC
Q 025778          242 LNSLCRE  248 (248)
Q Consensus       242 L~~iakq  248 (248)
                      |++|||+
T Consensus       238 L~~Iak~  244 (257)
T 3gs3_A          238 LCTIAKM  244 (257)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9999995
>3o2t_A Symplekin; heat repeat, scaffold, protein binding; 1.40A {Homo sapiens} PDB: 3odr_A 3ods_A 4h3k_A* 3o2s_A 3o2q_A* 4h3h_A* Back     alignment and structure
>2qk1_A Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, heat repeat, microtubule plus END, +TIP, protein binding; 1.70A {Saccharomyces cerevisiae} Back     alignment and structure
>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Homo sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B 1w63_B Back     alignment and structure
>2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat, micro plus END, +TIP, protein binding; 2.10A {Drosophila melanogaster} Back     alignment and structure
>2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat, micro plus END, +TIP, protein binding; 2.10A {Drosophila melanogaster} Back     alignment and structure
>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic} Back     alignment and structure
>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Homo sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B 1w63_B Back     alignment and structure
>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16 Back     alignment and structure
>2db0_A 253AA long hypothetical protein; heat repeats, helical structure, structural genomics; 2.20A {Pyrococcus horikoshii} Back     alignment and structure
>3u0r_A Apoptosis inhibitor 5; heat repeat, armadillo repeat, lysine acetylation; 2.50A {Homo sapiens} PDB: 3v6a_A Back     alignment and structure
>2qk1_A Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, heat repeat, microtubule plus END, +TIP, protein binding; 1.70A {Saccharomyces cerevisiae} Back     alignment and structure
>4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein transport importin, transportin, transport protein; 2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A 2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B* Back     alignment and structure
>4db6_A Armadillo repeat protein; solenoid repeat, armadillo repeat motif, de novo protein; 1.80A {Synthetic construct} PDB: 4db9_A 4dba_A Back     alignment and structure
>1b3u_A Protein (protein phosphatase PP2A); scaffold protein, phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP: a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A* 3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A 3c5w_A Back     alignment and structure
>1b3u_A Protein (protein phosphatase PP2A); scaffold protein, phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP: a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A* 3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A 3c5w_A Back     alignment and structure
>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic} Back     alignment and structure
>4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein transport importin, transportin, transport protein; 2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A 2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B* Back     alignment and structure
>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic} Back     alignment and structure
>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic} Back     alignment and structure
>2vgl_A Adaptor protein complex AP-2, alpha 2 subunit; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Rattus norvegicus} PDB: 2xa7_A 2jkr_A 2jkt_A Back     alignment and structure
>4hxt_A De novo protein OR329; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.95A {Artificial gene} Back     alignment and structure
>1te4_A Conserved protein MTH187; methanobacterium thermoautotrophicum, structural proteomics, heat-like repeat; NMR {Methanothermobacterthermautotrophicus} SCOP: a.118.1.16 Back     alignment and structure
>1ibr_B P95, importin beta-1 subunit, nuclear factor; small GTPase, nuclear transport receptor, cell cycle, translation; HET: GNP; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1m5n_S 1gcj_A 1f59_A 1o6o_A 1o6p_A Back     alignment and structure
>2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein, protein transport, armadillo repeats; 2.2A {Homo sapiens} PDB: 3tj3_A Back     alignment and structure
>4hxt_A De novo protein OR329; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.95A {Artificial gene} Back     alignment and structure
>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A Back     alignment and structure
>3tpo_A Importin subunit alpha-2; nuclear import, protein transport; 2.10A {Mus musculus} PDB: 1qgk_B 1qgr_B Back     alignment and structure
>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1 Back     alignment and structure
>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16 Back     alignment and structure
>3ul1_B Importin subunit alpha-2; arm repeat, armadillo repeat, nuclear transport, nuclear LOC signal binding, importin beta binding; 1.90A {Mus musculus} PDB: 3ukx_B 3uky_B 3ukz_B 3ukw_B 3ul0_B 3oqs_A 3rz9_A 3rzx_A 3uvu_A 1q1s_C 1q1t_C 3knd_A 1ejy_I 1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C 3fex_C ... Back     alignment and structure
>3tjz_B Coatomer subunit gamma; protein trafficking, golgi membrane, protein transport-prote binding complex; HET: GNP; 2.90A {Bos taurus} Back     alignment and structure
>2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein, protein transport, armadillo repeats; 2.2A {Homo sapiens} PDB: 3tj3_A Back     alignment and structure
>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A Back     alignment and structure
>4db6_A Armadillo repeat protein; solenoid repeat, armadillo repeat motif, de novo protein; 1.80A {Synthetic construct} PDB: 4db9_A 4dba_A Back     alignment and structure
>2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic transport, nuclear trafficking, importin- beta, complex; 1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 2bku_B 3ea5_B* 3nd2_A Back     alignment and structure
>2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic transport, nuclear trafficking, importin- beta, complex; 1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 2bku_B 3ea5_B* 3nd2_A Back     alignment and structure
>3tjz_B Coatomer subunit gamma; protein trafficking, golgi membrane, protein transport-prote binding complex; HET: GNP; 2.90A {Bos taurus} Back     alignment and structure
>1ibr_B P95, importin beta-1 subunit, nuclear factor; small GTPase, nuclear transport receptor, cell cycle, translation; HET: GNP; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1m5n_S 1gcj_A 1f59_A 1o6o_A 1o6p_A Back     alignment and structure
>4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct} Back     alignment and structure
>4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct} Back     alignment and structure
>1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A Back     alignment and structure
>4b8j_A Importin subunit alpha-1A; transport protein, nuclear localization signal; 2.00A {Oryza sativa japonica group} PDB: 4b8o_A 2yns_A 4b8p_A Back     alignment and structure
>4b8j_A Importin subunit alpha-1A; transport protein, nuclear localization signal; 2.00A {Oryza sativa japonica group} PDB: 4b8o_A 2yns_A 4b8p_A Back     alignment and structure
>1qgr_A Protein (importin beta subunit); transport receptor, nuclear import, heat motif, NLS-binding; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A 2qna_A Back     alignment and structure
>1xqr_A HSPBP1 protein; armadillo repeat, superhelical twist, chaperone; 2.10A {Homo sapiens} SCOP: a.118.1.21 PDB: 1xqs_A* Back     alignment and structure
>1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A Back     alignment and structure
>1qgr_A Protein (importin beta subunit); transport receptor, nuclear import, heat motif, NLS-binding; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A 2qna_A Back     alignment and structure
>1xqr_A HSPBP1 protein; armadillo repeat, superhelical twist, chaperone; 2.10A {Homo sapiens} SCOP: a.118.1.21 PDB: 1xqs_A* Back     alignment and structure
>3ul1_B Importin subunit alpha-2; arm repeat, armadillo repeat, nuclear transport, nuclear LOC signal binding, importin beta binding; 1.90A {Mus musculus} PDB: 3ukx_B 3uky_B 3ukz_B 3ukw_B 3ul0_B 3oqs_A 3rz9_A 3rzx_A 3uvu_A 1q1s_C 1q1t_C 3knd_A 1ejy_I 1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C 3fex_C ... Back     alignment and structure
>1te4_A Conserved protein MTH187; methanobacterium thermoautotrophicum, structural proteomics, heat-like repeat; NMR {Methanothermobacterthermautotrophicus} SCOP: a.118.1.16 Back     alignment and structure
>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1 Back     alignment and structure
>3u0r_A Apoptosis inhibitor 5; heat repeat, armadillo repeat, lysine acetylation; 2.50A {Homo sapiens} PDB: 3v6a_A Back     alignment and structure
>2x19_B Importin-13; nuclear transport, protein transport; HET: GTP; 2.80A {Homo sapiens} PDB: 2xwu_B Back     alignment and structure
>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N Back     alignment and structure
>4ffb_C Protein STU2; tubulin fold, heat repeats, cytoskeleton, microtubule, tubul domain, hydrolase; HET: GTP; 2.88A {Saccharomyces cerevisiae} Back     alignment and structure
>2of3_A ZYG-9; multifunctional macromolecule, kinetochore, microtubule, XMAP215, STU2, DIS1, microtubule associated protein, structural protein; 1.90A {Caenorhabditis elegans} Back     alignment and structure
>1xm9_A Plakophilin 1; armadillo repeat, cell adhesion; 2.80A {Homo sapiens} SCOP: a.118.1.24 Back     alignment and structure
>2db0_A 253AA long hypothetical protein; heat repeats, helical structure, structural genomics; 2.20A {Pyrococcus horikoshii} Back     alignment and structure
>3tpo_A Importin subunit alpha-2; nuclear import, protein transport; 2.10A {Mus musculus} PDB: 1qgk_B 1qgr_B Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 248
d1b3ua_588 a.118.1.2 (A:) Constant regulatory domain of prote 4e-05
>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 588 Back     information, alignment and structure

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HEAT repeat
domain: Constant regulatory domain of protein phosphatase 2a, pr65alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.1 bits (97), Expect = 4e-05
 Identities = 15/98 (15%), Positives = 42/98 (42%), Gaps = 3/98 (3%)

Query: 5   SRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAE-LFPYLVELQSSPESLVR 63
           +    +  + A +   +   ++++L  +  +       +  + + P ++ +   P + VR
Sbjct: 477 AHATIIPKVLAMSGDPNYLHRMTTLFCINVLSEVCGQDITTKHMLPTVLRMAGDPVANVR 536

Query: 64  KSLIETIEDIG--LKAMEHSSILMPVLLAFLRDGDSGV 99
            ++ ++++ IG  L      S + P+L    +D D  V
Sbjct: 537 FNVAKSLQKIGPILDNSTLQSEVKPILEKLTQDQDVDV 574

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query248
d2vglb_ 579 Adaptin beta subunit N-terminal fragment {Human (H 96.48
d2vglb_ 579 Adaptin beta subunit N-terminal fragment {Human (H 95.58
d1te4a_111 MTH187 {Archaeon Methanobacterium thermoautotrophi 95.11
d1te4a_111 MTH187 {Archaeon Methanobacterium thermoautotrophi 94.38
d1b3ua_588 Constant regulatory domain of protein phosphatase 94.19
d1b3ua_588 Constant regulatory domain of protein phosphatase 93.99
d1q1sc_ 434 Importin alpha {Mouse (Mus musculus) [TaxId: 10090 93.45
d1oyza_276 Hypothetical protein YibA {Escherichia coli [TaxId 93.41
d1xqra1264 Hsp70-binding protein 1 (HspBP1) {Human (Homo sapi 92.65
d2bpta1 861 Importin beta {Baker's yeast (Saccharomyces cerevi 92.6
d1q1sc_434 Importin alpha {Mouse (Mus musculus) [TaxId: 10090 92.35
d1wa5b_ 503 Karyopherin alpha {Baker's yeast (Saccharomyces ce 91.23
d2vgla_ 584 Adaptin alpha C subunit N-terminal fragment {Mouse 90.96
d1qbkb_ 888 Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96 90.58
d1jdha_ 529 beta-Catenin {Human (Homo sapiens) [TaxId: 9606]} 90.23
d1oyza_276 Hypothetical protein YibA {Escherichia coli [TaxId 89.86
d1xm9a1 457 Plakophilin 1 {Human (Homo sapiens) [TaxId: 9606]} 89.08
d1u6gc_ 1207 Cullin-associated NEDD8-dissociated protein 1 (Tip 88.24
d1xqra1264 Hsp70-binding protein 1 (HspBP1) {Human (Homo sapi 88.15
d1qbkb_ 888 Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96 85.0
d1u6gc_1207 Cullin-associated NEDD8-dissociated protein 1 (Tip 84.84
d1ibrb_458 Importin beta {Human (Homo sapiens) [TaxId: 9606]} 83.33
d2bpta1 861 Importin beta {Baker's yeast (Saccharomyces cerevi 81.93
d2vgla_584 Adaptin alpha C subunit N-terminal fragment {Mouse 81.17
d1xm9a1 457 Plakophilin 1 {Human (Homo sapiens) [TaxId: 9606]} 80.64
d1wa5b_503 Karyopherin alpha {Baker's yeast (Saccharomyces ce 80.06
>d1te4a_ a.118.1.16 (A:) MTH187 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Back     information, alignment and structure
>d1te4a_ a.118.1.16 (A:) MTH187 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Back     information, alignment and structure
>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1q1sc_ a.118.1.1 (C:) Importin alpha {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1oyza_ a.118.1.16 (A:) Hypothetical protein YibA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1xqra1 a.118.1.21 (A:87-350) Hsp70-binding protein 1 (HspBP1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2bpta1 a.118.1.1 (A:1-861) Importin beta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1q1sc_ a.118.1.1 (C:) Importin alpha {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1wa5b_ a.118.1.1 (B:) Karyopherin alpha {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1qbkb_ a.118.1.1 (B:) Karyopherin beta2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jdha_ a.118.1.1 (A:) beta-Catenin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1oyza_ a.118.1.16 (A:) Hypothetical protein YibA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1xm9a1 a.118.1.24 (A:244-700) Plakophilin 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1xqra1 a.118.1.21 (A:87-350) Hsp70-binding protein 1 (HspBP1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1qbkb_ a.118.1.1 (B:) Karyopherin beta2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ibrb_ a.118.1.1 (B:) Importin beta {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2bpta1 a.118.1.1 (A:1-861) Importin beta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1xm9a1 a.118.1.24 (A:244-700) Plakophilin 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wa5b_ a.118.1.1 (B:) Karyopherin alpha {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure