Citrus Sinensis ID: 040579

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--
Protein Sequence
MLKSSDGEVFEHMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLATTSIDDDLKAWDADLVKVD
Secondary Structure (PSIPRED)
ccccccccHHHHHHHcccccccEEcccccHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccccccccEHHHHccccccccccccccccHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MLKSSDGEVFEHMieddcavdriplpnvTIKIFYKAIKYCnkhdeasmfddlattsidddLKAWDADLVKVD
Flexible Loop (DISEMBL)
MLKSSDGEVFEHMieddcavdriplPNVTIKIFYKAIKYCNKHDEASMFDDLATTSIDDDLKAWDADLVKVD
Low Complexity Region (SEG)
MLKSSDGEVFEHMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLATTSIDDDLKAWDADLVKVD
Disordered region (IsUnstruct)
********VFEHMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLATTSIDDDLKAWDAD*****
Disordered Region (DISOPRED)
MLKSSDGEVFEHMIEDDCAVDRIPLPNVTIKIFYKAIKYCNK*******************KAWDADLVKVD
Disordered Region (DISEMBL)
********VFEHMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLATTSIDDDLKAWDADLVKVD
Disordered Region (DISPRO)
*****DGEVFEHMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDE*************DDLKAWDADLVKVD
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MLKSSDGEVFEHMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLATTSIDDDLKAWDADLVKVD
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	72	2.2.26 [Sep-21-2011]
Q39255	160	SKP1-like protein 1A OS=A	yes	no	0.986	0.443	0.505	2e-14
Q9LNT9	163	SKP1-like protein 4 OS=Ar	no	no	1.0	0.441	0.483	2e-13
Q9FHW7	171	SKP1-like protein 1B OS=A	no	no	0.986	0.415	0.443	2e-12
Q9SL93	163	SKP1-like protein 3 OS=Ar	no	no	1.0	0.441	0.471	2e-12
Q9LSX9	153	SKP1-like protein 9 OS=Ar	no	no	0.930	0.437	0.441	7e-10
Q9M1X4	153	SKP1-like protein 5 OS=Ar	no	no	0.861	0.405	0.440	9e-10
Q9M1X5	154	SKP1-like protein 13 OS=A	no	no	0.916	0.428	0.421	9e-10
Q9LSX8	152	SKP1-like protein 10 OS=A	no	no	0.902	0.427	0.433	5e-09
Q9LSY0	125	SKP1-like protein 7 OS=Ar	no	no	0.930	0.536	0.411	2e-08
O81057	149	SKP1-like protein 14 OS=A	no	no	0.819	0.395	0.411	3e-08

>sp|Q39255|SKP1A_ARATH SKP1-like protein 1A OS=Arabidopsis thaliana GN=SKP1A PE=1 SV=1

 Score = 78.2 bits (191), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/89 (50%), Positives = 55/89 (61%), Gaps = 18/89 (20%)

Query: 1  MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
          +LKSSDGE FE             HM+EDDC  + +PLPNVT KI  K I+YC +H EA+
Sbjct: 7  VLKSSDGESFEVEEAVALESQTIAHMVEDDCVDNGVPLPNVTSKILAKVIEYCKRHVEAA 66

Query: 48 MFD----DLATTSIDDDLKAWDADLVKVD 72
                 + A TS DDDLKAWDAD +K+D
Sbjct: 67 ASKAEAVEGAATS-DDDLKAWDADFMKID 94

Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1. SCF(UFO) is required for vegetative and floral organ development as well as for male gametogenesis. SCF(TIR1) is involved in auxin signaling pathway. SCF(COI1) regulates responses to jasmonates. SCF(EID1) and SCF(AFR) are implicated in phytochrome A light signaling. SCF(ADO1), SCF(ADO2), SCF(ADO3) are related to the circadian clock. SCF(ORE9) seems to be involved in senescence. SCF(EBF1/EBF2) may regulate ethylene signaling. Plays a role during embryogenesis and early postembryonic development, especially during cell elongation and division. Contributes to the correct chromosome segregation during tetrad formation.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9LNT9|ASK4_ARATH SKP1-like protein 4 OS=Arabidopsis thaliana GN=ASK4 PE=1 SV=1

 Score = 74.7 bits (182), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 43/89 (48%), Positives = 53/89 (59%), Gaps = 17/89 (19%)

Query: 1  MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
          +LKSSDGE FE             HMIEDDCA + IPLPNVT  I  K I+YC KH EA+
Sbjct: 9  ILKSSDGESFEIEEAVAVKSQTIKHMIEDDCADNGIPLPNVTGAILAKVIEYCKKHVEAA 68

Query: 48 MF----DDLATTSIDDDLKAWDADLVKVD 72
                 D   ++ +D+LK WD++ VKVD
Sbjct: 69 AEAGGDKDFYGSAENDELKNWDSEFVKVD 97

Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHW7|SKP1B_ARATH SKP1-like protein 1B OS=Arabidopsis thaliana GN=SKP1B PE=1 SV=1

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 43/97 (44%), Positives = 54/97 (55%), Gaps = 26/97 (26%)

Query: 2   LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASM 48
           LKSSDGE FE             HMIEDDC  + IPLPNVT KI  K I+YC +H EA+ 
Sbjct: 9   LKSSDGENFEIDEAVALESQTIKHMIEDDCTDNGIPLPNVTSKILSKVIEYCKRHVEAAE 68

Query: 49  FDD-------------LATTSIDDDLKAWDADLVKVD 72
             +             +A+ S D+DLK WD++ +KVD
Sbjct: 69  KSETTADAAAATTTTTVASGSSDEDLKTWDSEFIKVD 105

Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1. SCF(UFO) is required for vegetative and floral organ development as well as for male gametogenesis. SCF(TIR1) is involved in auxin signaling pathway. SCF(COI1) regulates responses to jasmonates. SCF(EID1) and SCF(AFR) are implicated in phytochrome A light signaling. SCF(ADO1), SCF(ADO2), SCF(ADO3) are related to the circadian clock. SCF(ORE9) seems to be involved in senescence. SCF(EBF1/EBF2) may regulate ethylene signaling. Plays a role during embryogenesis and early postembryonic development, especially during cell elongation and division. Contributes to the correct chromosome segregation during tetrad formation.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SL93|ASK3_ARATH SKP1-like protein 3 OS=Arabidopsis thaliana GN=ASK3 PE=1 SV=1

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/89 (47%), Positives = 50/89 (56%), Gaps = 17/89 (19%)

Query: 1  MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
          +LKSSDGE FE             HMIEDDC  + IPLPNVT  I  K I+YC KH EA+
Sbjct: 9  ILKSSDGESFEVEEAVAVESQTIKHMIEDDCVDNGIPLPNVTGAILAKVIEYCKKHVEAA 68

Query: 48 MF----DDLATTSIDDDLKAWDADLVKVD 72
                 D   ++ + +LK WD D VKVD
Sbjct: 69 AEAGGDKDFYGSTENHELKTWDNDFVKVD 97

Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSX9|ASK9_ARATH SKP1-like protein 9 OS=Arabidopsis thaliana GN=ASK9 PE=1 SV=1

 Score = 62.8 bits (151), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 38/86 (44%), Positives = 45/86 (52%), Gaps = 19/86 (22%)

Query: 1  MLKSSDGEVFE--------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEA 46
          +LKSSDG  FE              HM E+DC  + IPLPNVT KI    I+YCNKH   
Sbjct: 7  ILKSSDGHSFEVEEEAARQCQIIIAHMSENDCTDNGIPLPNVTGKILAMVIEYCNKH--- 63

Query: 47 SMFDDLATTSIDDDLKAWDADLVKVD 72
              D A    DDDLK WD + ++ D
Sbjct: 64 --HVDAANPCSDDDLKKWDKEFMEKD 87

Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M1X4|ASK5_ARATH SKP1-like protein 5 OS=Arabidopsis thaliana GN=ASK5 PE=1 SV=1

 Score = 62.0 bits (149), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 37/84 (44%), Positives = 43/84 (51%), Gaps = 22/84 (26%)

Query: 1  MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
          MLKSSDG+ FE             HM+ED CA D IPL NVT KI    I YC KH    
Sbjct: 6  MLKSSDGKSFEIDEDVARKSIAINHMVEDGCATDVIPLRNVTSKILKIVIDYCEKH---- 61

Query: 48 MFDDLATTSIDDDLKAWDADLVKV 71
                 +  ++DLK WDAD +K 
Sbjct: 62 -----VKSKEEEDLKEWDADFMKT 80

Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M1X5|ASK13_ARATH SKP1-like protein 13 OS=Arabidopsis thaliana GN=ASK13 PE=1 SV=1

 Score = 62.0 bits (149), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 35/83 (42%), Positives = 44/83 (53%), Gaps = 17/83 (20%)

Query: 1  MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
          ML SSDGE F+             HMIEDDC  + +P+ NVT  I  K I+YC KH    
Sbjct: 6  MLLSSDGESFQVEEAVAVQSQTIAHMIEDDCVANGVPIANVTGVILSKVIEYCKKH---- 61

Query: 48 MFDDLATTSIDDDLKAWDADLVK 70
          +  D  T    D+LK WDA+ +K
Sbjct: 62 VVSDSPTEESKDELKKWDAEFMK 84

Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSX8|ASK10_ARATH SKP1-like protein 10 OS=Arabidopsis thaliana GN=ASK10 PE=1 SV=1

 Score = 59.7 bits (143), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 36/83 (43%), Positives = 43/83 (51%), Gaps = 18/83 (21%)

Query: 1  MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
          +LKSSDG  FE             HM EDDC  + IPLP VT KI    I+YCNKH    
Sbjct: 7  ILKSSDGHSFEVEEEAACQCQTIAHMSEDDCTDNGIPLPEVTGKILEMVIEYCNKH---- 62

Query: 48 MFDDLATTSIDDDLKAWDADLVK 70
             D A    D+DLK WD + ++
Sbjct: 63 -HVDAANPCSDEDLKKWDKEFME 84

Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSY0|ASK7_ARATH SKP1-like protein 7 OS=Arabidopsis thaliana GN=ASK7 PE=2 SV=1

 Score = 58.2 bits (139), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 35/85 (41%), Positives = 46/85 (54%), Gaps = 18/85 (21%)

Query: 1  MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
          MLKSSDG++FE             HMIE +C  + IP+ NVT +I    I+YCNKH    
Sbjct: 7  MLKSSDGKMFEIEEETARQCQTIAHMIEAECTDNVIPVSNVTSEILEMVIEYCNKH---- 62

Query: 48 MFDDLATTSIDDDLKAWDADLVKVD 72
             D A    D+DLK WD + ++ D
Sbjct: 63 -HVDAANPCSDEDLKKWDKEFMEKD 86

Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1.

Arabidopsis thaliana (taxid: 3702)

>sp|O81057|ASK14_ARATH SKP1-like protein 14 OS=Arabidopsis thaliana GN=ASK14 PE=1 SV=1

 Score = 57.0 bits (136), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 35/85 (41%), Positives = 42/85 (49%), Gaps = 26/85 (30%)

Query: 1  MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKH--DE 45
          +L SSDGE FE             HMIEDDC V  +PL NVT KI    ++YC KH  DE
Sbjct: 7  VLSSSDGESFEVEEAVARKLKIVEHMIEDDCVVTEVPLQNVTGKILSIVVEYCKKHVVDE 66

Query: 46 ASMFDDLATTSIDDDLKAWDADLVK 70
           S           D+ K WD + +K
Sbjct: 67 ES-----------DEFKTWDEEFMK 80

Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	72
255539022	157	skp1, putative [Ricinus communis] gi|223	0.972	0.445	0.571	2e-15
192910786	163	SKP1 [Elaeis guineensis]	0.986	0.435	0.533	3e-15
151564277	157	SKP1 component-like 1 [Humulus lupulus]	0.972	0.445	0.571	6e-15
392499473	156	GSK1 [Gossypium hirsutum] gi|399912953|g	0.944	0.435	0.583	6e-15
255539024	157	skp1, putative [Ricinus communis] gi|223	0.972	0.445	0.571	1e-14
118489534	158	unknown [Populus trichocarpa x Populus d	0.986	0.449	0.523	1e-14
192910696	163	kinetochore protein [Elaeis guineensis]	0.986	0.435	0.511	2e-14
224065753	157	predicted protein [Populus trichocarpa]	0.972	0.445	0.559	2e-14
449450520	157	PREDICTED: SKP1-like protein 1B-like [Cu	0.972	0.445	0.547	2e-14
224134024	158	predicted protein [Populus trichocarpa]	0.986	0.449	0.523	2e-14

>gi|255539022|ref|XP_002510576.1| skp1, putative [Ricinus communis] gi|223551277|gb|EEF52763.1| skp1, putative [Ricinus communis]

 Score = 86.7 bits (213), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 48/84 (57%), Positives = 54/84 (64%), Gaps = 14/84 (16%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASM 48
          LKSSDGE FE             HMIEDDCA + IPLPNVT KI  K I+YC KH E S 
Sbjct: 9  LKSSDGETFEVDEAVALESQTIKHMIEDDCADNGIPLPNVTSKILSKVIEYCKKHVETSK 68

Query: 49 FDDLATTSIDDDLKAWDADLVKVD 72
           DD   +S+DD+LK WDA+ VKVD
Sbjct: 69 SDDRP-SSVDDELKTWDAEFVKVD 91

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|192910786|gb|ACF06501.1| SKP1 [Elaeis guineensis]

 Score = 85.5 bits (210), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 48/90 (53%), Positives = 56/90 (62%), Gaps = 19/90 (21%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEA-- 46
          LKSSDGEVFE             HMIEDDCA + IPLPNVT KI  K I+YC KH +A  
Sbjct: 8  LKSSDGEVFEVEETVAMESQTIKHMIEDDCAGNGIPLPNVTSKILSKVIEYCKKHVDAAA 67

Query: 47 ----SMFDDLATTSIDDDLKAWDADLVKVD 72
              S  DD ++  +D++LK WDAD VKVD
Sbjct: 68 ASSKSTVDDTSSKIVDEELKTWDADFVKVD 97

Source: Elaeis guineensis

Species: Elaeis guineensis

Genus: Elaeis

Family: Arecaceae

Order: Arecales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|151564277|gb|ABS17589.1| SKP1 component-like 1 [Humulus lupulus]

 Score = 84.7 bits (208), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 48/84 (57%), Positives = 54/84 (64%), Gaps = 14/84 (16%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASM 48
          LKSSDGE  E             HMIEDDCA + IPLPNVT KI  K I+YC KH  A  
Sbjct: 9  LKSSDGETLEVDEAVALESQTIKHMIEDDCADNGIPLPNVTSKILSKVIEYCKKHVGAPK 68

Query: 49 FDDLATTSIDDDLKAWDADLVKVD 72
           +D A +S+DD+LKAWDAD VKVD
Sbjct: 69 AEDRA-SSVDDELKAWDADFVKVD 91

Source: Humulus lupulus

Species: Humulus lupulus

Genus: Humulus

Family: Cannabaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|392499473|gb|AFM75900.1| GSK1 [Gossypium hirsutum] gi|399912953|gb|AFP55363.1| SKP1-like protein [Gossypium hirsutum]

 Score = 84.7 bits (208), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 49/84 (58%), Positives = 53/84 (63%), Gaps = 16/84 (19%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASM 48
          LKSSDGE FE             HMIEDDCA + IPLPNVT KI  K I+YC KH EA  
Sbjct: 10 LKSSDGESFEVDEAVALESQTIKHMIEDDCADNGIPLPNVTSKILAKVIEYCKKHVEAPK 69

Query: 49 FDDLATTSIDDDLKAWDADLVKVD 72
           DD    S DD+LK+WDAD VKVD
Sbjct: 70 TDD---RSADDELKSWDADFVKVD 90

Source: Gossypium hirsutum

Species: Gossypium hirsutum

Genus: Gossypium

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255539024|ref|XP_002510577.1| skp1, putative [Ricinus communis] gi|223551278|gb|EEF52764.1| skp1, putative [Ricinus communis]

 Score = 84.0 bits (206), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 48/84 (57%), Positives = 52/84 (61%), Gaps = 14/84 (16%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASM 48
          LKSSDGE FE             HMIEDDCA   IPLPNVT KI  K I+YC KH E   
Sbjct: 9  LKSSDGETFEVEELVALESQTIKHMIEDDCADSGIPLPNVTSKILSKVIEYCKKHVETPK 68

Query: 49 FDDLATTSIDDDLKAWDADLVKVD 72
           +D   +S DDDLKAWDA+ VKVD
Sbjct: 69 SED-RPSSADDDLKAWDAEFVKVD 91

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118489534|gb|ABK96569.1| unknown [Populus trichocarpa x Populus deltoides]

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 44/84 (52%), Positives = 51/84 (60%), Gaps = 13/84 (15%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASM 48
          L+SSDGE FE             HMIEDDCA + IPLPNVT KI  K I+YC KH E   
Sbjct: 9  LRSSDGESFEVDEAVALESQTIKHMIEDDCADNGIPLPNVTSKILAKVIEYCKKHVETPK 68

Query: 49 FDDLATTSIDDDLKAWDADLVKVD 72
           +D  T S DD+LK WD + V+VD
Sbjct: 69 SEDRGTNSGDDELKNWDTEFVRVD 92

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|192910696|gb|ACF06456.1| kinetochore protein [Elaeis guineensis]

 Score = 83.6 bits (205), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 46/90 (51%), Positives = 54/90 (60%), Gaps = 19/90 (21%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKH----- 43
          LKSSDGEVFE             HMIEDDCA + IPLPNVT KI  K I+YC +H     
Sbjct: 8  LKSSDGEVFEVEEAVAMESQTIKHMIEDDCASNGIPLPNVTSKILSKVIEYCKRHVDFAA 67

Query: 44 -DEASMFDDLATTSIDDDLKAWDADLVKVD 72
              S  DD ++   DD+LK+WDA+ VKVD
Sbjct: 68 ASSRSTADDTSSKPADDELKSWDAEFVKVD 97

Source: Elaeis guineensis

Species: Elaeis guineensis

Genus: Elaeis

Family: Arecaceae

Order: Arecales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224065753|ref|XP_002301954.1| predicted protein [Populus trichocarpa] gi|118485200|gb|ABK94461.1| unknown [Populus trichocarpa] gi|222843680|gb|EEE81227.1| predicted protein [Populus trichocarpa]

 Score = 83.6 bits (205), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 47/84 (55%), Positives = 53/84 (63%), Gaps = 14/84 (16%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASM 48
          LKSSDGE FE             HMIE+DCA + IPLPNVT KI  K I+YC KH E   
Sbjct: 9  LKSSDGEAFEVDEAVALESQTIKHMIEEDCADNAIPLPNVTSKILSKVIEYCKKHVETPK 68

Query: 49 FDDLATTSIDDDLKAWDADLVKVD 72
           DD   +S DDDLK+WDA+ VKVD
Sbjct: 69 SDDRP-SSADDDLKSWDAEFVKVD 91

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449450520|ref|XP_004143010.1| PREDICTED: SKP1-like protein 1B-like [Cucumis sativus] gi|449500366|ref|XP_004161077.1| PREDICTED: SKP1-like protein 1B-like [Cucumis sativus]

 Score = 83.2 bits (204), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 46/84 (54%), Positives = 53/84 (63%), Gaps = 14/84 (16%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASM 48
          LKSSDGE+FE             HMIEDDCA   IPLPNV  KI  K I+YC KH E+  
Sbjct: 9  LKSSDGEIFEVDEAVALESQTIKHMIEDDCADSGIPLPNVNSKILSKVIEYCKKHVESPK 68

Query: 49 FDDLATTSIDDDLKAWDADLVKVD 72
           +D  T S+DDDLK WD++ VKVD
Sbjct: 69 PED-RTGSVDDDLKTWDSEFVKVD 91

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134024|ref|XP_002327737.1| predicted protein [Populus trichocarpa] gi|118481562|gb|ABK92723.1| unknown [Populus trichocarpa] gi|222836822|gb|EEE75215.1| predicted protein [Populus trichocarpa]

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/84 (52%), Positives = 51/84 (60%), Gaps = 13/84 (15%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASM 48
          L+SSDGE FE             HMIEDDCA + IPLPNVT KI  K I+YC KH E   
Sbjct: 9  LRSSDGESFEVDEAVALESQTIKHMIEDDCADNGIPLPNVTSKILAKVIEYCKKHVETPK 68

Query: 49 FDDLATTSIDDDLKAWDADLVKVD 72
           +D  T S DD+LK WD + V+VD
Sbjct: 69 PEDRGTNSGDDELKNWDTEFVRVD 92

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	72
TAIR|locus:2204435	160	SKP1 "AT1G75950" [Arabidopsis	0.986	0.443	0.505	6.9e-15
TAIR|locus:2198621	163	SK4 "AT1G20140" [Arabidopsis t	1.0	0.441	0.494	7.1e-13
TAIR|locus:2165825	171	ASK2 "AT5G42190" [Arabidopsis	0.986	0.415	0.463	1.9e-12
TAIR|locus:2050281	163	SK3 "AT2G25700" [Arabidopsis t	1.0	0.441	0.483	5e-12
TAIR|locus:2093084	153	SK9 "AT3G21850" [Arabidopsis t	0.930	0.437	0.441	2.5e-10
TAIR|locus:2080532	154	SK13 "AT3G60010" [Arabidopsis	0.916	0.428	0.421	6.6e-10
TAIR|locus:2093094	152	SK10 "AT3G21860" [Arabidopsis	0.902	0.427	0.433	1.4e-09
TAIR|locus:2080542	153	SK5 "AT3G60020" [Arabidopsis t	0.847	0.398	0.445	1.8e-09
TAIR|locus:2093074	125	SK7 "AT3G21840" [Arabidopsis t	0.930	0.536	0.411	2.2e-09
UNIPROTKB|Q5ZKF5	163	SKP1 "S-phase kinase-associate	0.819	0.361	0.360	3.6e-09

TAIR|locus:2204435 SKP1 "AT1G75950" [Arabidopsis thaliana (taxid:3702)]

 Score = 189 (71.6 bits), Expect = 6.9e-15, P = 6.9e-15
 Identities = 45/89 (50%), Positives = 55/89 (61%)

Query:     1 MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
             +LKSSDGE FE             HM+EDDC  + +PLPNVT KI  K I+YC +H EA+
Sbjct:     7 VLKSSDGESFEVEEAVALESQTIAHMVEDDCVDNGVPLPNVTSKILAKVIEYCKRHVEAA 66

Query:    48 MFD----DLATTSIDDDLKAWDADLVKVD 72
                    + A TS DDDLKAWDAD +K+D
Sbjct:    67 ASKAEAVEGAATS-DDDLKAWDADFMKID 94

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM;IDA;NAS

GO:0005737 "cytoplasm" evidence=NAS

GO:0019005 "SCF ubiquitin ligase complex" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

GO:0007140 "male meiosis" evidence=IMP

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=RCA;TAS

GO:0000151 "ubiquitin ligase complex" evidence=TAS

GO:0005819 "spindle" evidence=IDA

GO:0009524 "phragmoplast" evidence=IDA

GO:0045910 "negative regulation of DNA recombination" evidence=IMP

GO:0046686 "response to cadmium ion" evidence=IEP

GO:0005886 "plasma membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0000226 "microtubule cytoskeleton organization" evidence=IMP

GO:0007067 "mitosis" evidence=RCA;TAS

GO:0042023 "DNA endoreduplication" evidence=RCA

GO:0042752 "regulation of circadian rhythm" evidence=RCA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=RCA

GO:0043248 "proteasome assembly" evidence=RCA

GO:0051510 "regulation of unidimensional cell growth" evidence=RCA

GO:0051788 "response to misfolded protein" evidence=RCA

TAIR|locus:2198621 SK4 "AT1G20140" [Arabidopsis thaliana (taxid:3702)]

 Score = 170 (64.9 bits), Expect = 7.1e-13, P = 7.1e-13
 Identities = 44/89 (49%), Positives = 54/89 (60%)

Query:     1 MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
             +LKSSDGE FE             HMIEDDCA + IPLPNVT  I  K I+YC KH EA+
Sbjct:     9 ILKSSDGESFEIEEAVAVKSQTIKHMIEDDCADNGIPLPNVTGAILAKVIEYCKKHVEAA 68

Query:    48 MF---D-DLATTSIDDDLKAWDADLVKVD 72
                  D D   ++ +D+LK WD++ VKVD
Sbjct:    69 AEAGGDKDFYGSAENDELKNWDSEFVKVD 97

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISM;IDA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;TAS

GO:0019005 "SCF ubiquitin ligase complex" evidence=ISS

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2165825 ASK2 "AT5G42190" [Arabidopsis thaliana (taxid:3702)]

 Score = 166 (63.5 bits), Expect = 1.9e-12, P = 1.9e-12
 Identities = 45/97 (46%), Positives = 54/97 (55%)

Query:     2 LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASM 48
             LKSSDGE FE             HMIEDDC  + IPLPNVT KI  K I+YC +H EA+ 
Sbjct:     9 LKSSDGENFEIDEAVALESQTIKHMIEDDCTDNGIPLPNVTSKILSKVIEYCKRHVEAAE 68

Query:    49 FDDL------ATT-------SIDDDLKAWDADLVKVD 72
               +       ATT       S D+DLK WD++ +KVD
Sbjct:    69 KSETTADAAAATTTTTVASGSSDEDLKTWDSEFIKVD 105

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0005737 "cytoplasm" evidence=NAS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;RCA;TAS

GO:0019005 "SCF ubiquitin ligase complex" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

GO:0009793 "embryo development ending in seed dormancy" evidence=IGI

GO:0042023 "DNA endoreduplication" evidence=RCA

GO:0042752 "regulation of circadian rhythm" evidence=RCA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=RCA

GO:0043248 "proteasome assembly" evidence=RCA

GO:0051510 "regulation of unidimensional cell growth" evidence=RCA

GO:0051788 "response to misfolded protein" evidence=RCA

TAIR|locus:2050281 SK3 "AT2G25700" [Arabidopsis thaliana (taxid:3702)]

 Score = 162 (62.1 bits), Expect = 5.0e-12, P = 5.0e-12
 Identities = 43/89 (48%), Positives = 51/89 (57%)

Query:     1 MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
             +LKSSDGE FE             HMIEDDC  + IPLPNVT  I  K I+YC KH EA+
Sbjct:     9 ILKSSDGESFEVEEAVAVESQTIKHMIEDDCVDNGIPLPNVTGAILAKVIEYCKKHVEAA 68

Query:    48 MF---D-DLATTSIDDDLKAWDADLVKVD 72
                  D D   ++ + +LK WD D VKVD
Sbjct:    69 AEAGGDKDFYGSTENHELKTWDNDFVKVD 97

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2093084 SK9 "AT3G21850" [Arabidopsis thaliana (taxid:3702)]

 Score = 146 (56.5 bits), Expect = 2.5e-10, P = 2.5e-10
 Identities = 38/86 (44%), Positives = 45/86 (52%)

Query:     1 MLKSSDGEVFE--------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEA 46
             +LKSSDG  FE              HM E+DC  + IPLPNVT KI    I+YCNKH   
Sbjct:     7 ILKSSDGHSFEVEEEAARQCQIIIAHMSENDCTDNGIPLPNVTGKILAMVIEYCNKHHV- 65

Query:    47 SMFDDLATTSIDDDLKAWDADLVKVD 72
                 D A    DDDLK WD + ++ D
Sbjct:    66 ----DAANPCSDDDLKKWDKEFMEKD 87

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0007346 "regulation of mitotic cell cycle" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0042023 "DNA endoreduplication" evidence=RCA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=RCA

GO:0043248 "proteasome assembly" evidence=RCA

GO:0051510 "regulation of unidimensional cell growth" evidence=RCA

GO:0051788 "response to misfolded protein" evidence=RCA

TAIR|locus:2080532 SK13 "AT3G60010" [Arabidopsis thaliana (taxid:3702)]

 Score = 142 (55.0 bits), Expect = 6.6e-10, P = 6.6e-10
 Identities = 35/83 (42%), Positives = 44/83 (53%)

Query:     1 MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
             ML SSDGE F+             HMIEDDC  + +P+ NVT  I  K I+YC KH    
Sbjct:     6 MLLSSDGESFQVEEAVAVQSQTIAHMIEDDCVANGVPIANVTGVILSKVIEYCKKH---- 61

Query:    48 MFDDLATTSIDDDLKAWDADLVK 70
             +  D  T    D+LK WDA+ +K
Sbjct:    62 VVSDSPTEESKDELKKWDAEFMK 84

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0042023 "DNA endoreduplication" evidence=RCA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=RCA

GO:0043248 "proteasome assembly" evidence=RCA

GO:0051510 "regulation of unidimensional cell growth" evidence=RCA

GO:0051788 "response to misfolded protein" evidence=RCA

TAIR|locus:2093094 SK10 "AT3G21860" [Arabidopsis thaliana (taxid:3702)]

 Score = 139 (54.0 bits), Expect = 1.4e-09, P = 1.4e-09
 Identities = 36/83 (43%), Positives = 43/83 (51%)

Query:     1 MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
             +LKSSDG  FE             HM EDDC  + IPLP VT KI    I+YCNKH    
Sbjct:     7 ILKSSDGHSFEVEEEAACQCQTIAHMSEDDCTDNGIPLPEVTGKILEMVIEYCNKHHV-- 64

Query:    48 MFDDLATTSIDDDLKAWDADLVK 70
                D A    D+DLK WD + ++
Sbjct:    65 ---DAANPCSDEDLKKWDKEFME 84

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;TAS

GO:0019005 "SCF ubiquitin ligase complex" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0042023 "DNA endoreduplication" evidence=RCA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=RCA

GO:0043248 "proteasome assembly" evidence=RCA

GO:0051510 "regulation of unidimensional cell growth" evidence=RCA

GO:0051788 "response to misfolded protein" evidence=RCA

TAIR|locus:2080542 SK5 "AT3G60020" [Arabidopsis thaliana (taxid:3702)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 37/83 (44%), Positives = 44/83 (53%)

Query:     1 MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
             MLKSSDG+ FE             HM+ED CA D IPL NVT KI    I YC KH ++ 
Sbjct:     6 MLKSSDGKSFEIDEDVARKSIAINHMVEDGCATDVIPLRNVTSKILKIVIDYCEKHVKSK 65

Query:    48 MFDDLATTSIDDDLKAWDADLVK 70
                       ++DLK WDAD +K
Sbjct:    66 E---------EEDLKEWDADFMK 79

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

TAIR|locus:2093074 SK7 "AT3G21840" [Arabidopsis thaliana (taxid:3702)]

 Score = 137 (53.3 bits), Expect = 2.2e-09, P = 2.2e-09
 Identities = 35/85 (41%), Positives = 46/85 (54%)

Query:     1 MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
             MLKSSDG++FE             HMIE +C  + IP+ NVT +I    I+YCNKH    
Sbjct:     7 MLKSSDGKMFEIEEETARQCQTIAHMIEAECTDNVIPVSNVTSEILEMVIEYCNKHHV-- 64

Query:    48 MFDDLATTSIDDDLKAWDADLVKVD 72
                D A    D+DLK WD + ++ D
Sbjct:    65 ---DAANPCSDEDLKKWDKEFMEKD 86

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;TAS

GO:0019005 "SCF ubiquitin ligase complex" evidence=ISS

UNIPROTKB|Q5ZKF5 SKP1 "S-phase kinase-associated protein 1" [Gallus gallus (taxid:9031)]

 Score = 101 (40.6 bits), Expect = 3.6e-09, Sum P(2) = 3.6e-09
 Identities = 22/61 (36%), Positives = 31/61 (50%)

Query:    14 IEDDCAVDRIPLPNVTIKIFYKAIKYCNKH--DEASMFDDLATTSIDDDLKAWDADLVKV 71
             ++D+   D +PLPNV   I  K I++C  H  D     DD       DD+  WD + +KV
Sbjct:    36 MDDEGDDDPVPLPNVNAAILKKVIQWCTHHKDDPPPPEDDENKEKRTDDIPVWDQEFLKV 95

Query:    72 D 72
             D
Sbjct:    96 D 96

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0031146 "SCF-dependent proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0031519 "PcG protein complex" evidence=IEA

GO:0035518 "histone H2A monoubiquitination" evidence=IEA

GO:0019005 "SCF ubiquitin ligase complex" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	72
smart00512	104	smart00512, Skp1, Found in Skp1 protein family	4e-12
pfam03931	61	pfam03931, Skp1_POZ, Skp1 family, tetramerisation	1e-11

>gnl|CDD|214704 smart00512, Skp1, Found in Skp1 protein family

 Score = 55.8 bits (135), Expect = 4e-12
 Identities = 37/89 (41%), Positives = 44/89 (49%), Gaps = 22/89 (24%)

Query: 1  MLKSSDGEVFE-------------HMIEDDCAVDR----IPLPNVTIKIFYKAIKYCNKH 43
           L SSDGEVFE              MIED    D     IPLPNVT KI  K I+YC  H
Sbjct: 5  KLISSDGEVFEVEREVARQSKTIKAMIEDLGVDDENNNPIPLPNVTSKILSKVIEYCEHH 64

Query: 44 DEASMFDDLATTSIDDDLKAWDADLVKVD 72
                DD  + +  DD+  WDA+ +K+D
Sbjct: 65 V-----DDPPSVADKDDIPTWDAEFLKID 88

Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues. Length = 104

>gnl|CDD|217800 pfam03931, Skp1_POZ, Skp1 family, tetramerisation domain

 Score = 53.8 bits (130), Expect = 1e-11
 Identities = 26/55 (47%), Positives = 29/55 (52%), Gaps = 13/55 (23%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKH 43
          L SSDGE+FE              MIED    D IPLPNVT KI  K I++C  H
Sbjct: 5  LTSSDGEIFEVEREVARQSKTIKAMIEDLGVDDPIPLPNVTSKILAKVIEWCKHH 59

Length = 61

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	72
KOG1724	162	consensus SCF ubiquitin ligase, Skp1 component [Po	99.91
smart00512	104	Skp1 Found in Skp1 protein family. Family of Skp1	99.86
PF03931	62	Skp1_POZ: Skp1 family, tetramerisation domain; Int	99.77
COG5201	158	SKP1 SCF ubiquitin ligase, SKP1 component [Posttra	99.65
KOG3473	112	consensus RNA polymerase II transcription elongati	97.68
smart00225	90	BTB Broad-Complex, Tramtrack and Bric a brac. Doma	89.55

>KOG1724 consensus SCF ubiquitin ligase, Skp1 component [Posttranslational modification, protein turnover, chaperones]

Probab=99.91  E-value=6.3e-25  Score=140.23  Aligned_cols=72  Identities=44%  Similarity=0.784  Sum_probs=55.0

Q ss_pred             CeecCChhHHH-------------HHHHhc-CCCC--cccCCCCCHHHHHHHHHHHHHcCCCCCCccccC-CCCCCCcCh
Q 040579            1 MLKSSDGEVFE-------------HMIEDD-CAVD--RIPLPNVTIKIFYKAIKYCNKHDEASMFDDLAT-TSIDDDLKA   63 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~-~~~~--~IplpnV~~~~L~kViewc~~H~~~~~~~~~~~-~~~~~~i~~   63 (72)
                      +|+||||++|+             +++.+. +...  +||||||+|.+|+|||+||+||+++++...+.. .+....++.
T Consensus         8 kL~SsDG~~f~ve~~~a~~s~~i~~~~~~~~~~~~~~~IPl~nV~~~iL~kVIewC~~Hk~d~~~~~~~~~~~~~~~i~~   87 (162)
T KOG1724|consen    8 KLESSDGEIFEVEEEVARQSQTISAHMIEDGCADENDPIPLPNVTSKILKKVIEWCKKHKDDDPANPEDKELPEETDIPE   87 (162)
T ss_pred             EEEccCCceeehhHHHHHHhHHHHHHHHHcCCCccCCccccCccCHHHHHHHHHHHHHcccccccccccccccccCCccH
Confidence            58999999999             333333 3444  899999999999999999999999865433211 134445999


Q ss_pred             hhhhccccC
Q 040579           64 WDADLVKVD   72 (72)
Q Consensus        64 WD~~F~~~d   72 (72)
                      ||++||++|
T Consensus        88 WD~~Flk~d   96 (162)
T KOG1724|consen   88 WDAEFLKVD   96 (162)
T ss_pred             HHHHHHhcC
Confidence            999999864

>smart00512 Skp1 Found in Skp1 protein family

Probab=99.86  E-value=2.6e-22  Score=119.32  Aligned_cols=67  Identities=51%  Similarity=0.770  Sum_probs=54.2

Q ss_pred             CeecCChhHHH-------------HHHHhcCCC----CcccCCCCCHHHHHHHHHHHHHcCCCCCCccccCCCCCCCcCh
Q 040579            1 MLKSSDGEVFE-------------HMIEDDCAV----DRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLATTSIDDDLKA   63 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~~~----~~IplpnV~~~~L~kViewc~~H~~~~~~~~~~~~~~~~~i~~   63 (72)
                      +|+|+||++|.             +||++.+..    .+||||+|+|.+|+|||+||+||+.++.+..+     ...+++
T Consensus         5 ~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~~~~~~Ipl~~v~~~~L~~Vi~yc~~h~~~~~~~~~-----~~~~~~   79 (104)
T smart00512        5 KLISSDGEVFEVEREVARQSKTIKAMIEDLGVDDENNNPIPLPNVTSKILSKVIEYCEHHVDDPPSVAD-----KDDIPT   79 (104)
T ss_pred             EEEeCCCCEEEecHHHHHHHHHHHHHHHccCcccCCCCCccCCCcCHHHHHHHHHHHHHcccCCCCccc-----cccccH
Confidence            58999999999             677665532    48999999999999999999999988654322     146899


Q ss_pred             hhhhccccC
Q 040579           64 WDADLVKVD   72 (72)
Q Consensus        64 WD~~F~~~d   72 (72)
                      ||++|++++
T Consensus        80 wD~~F~~~d   88 (104)
T smart00512       80 WDAEFLKID   88 (104)
T ss_pred             HHHHHHcCC
Confidence            999999753

Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues.

>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []

Probab=99.77  E-value=2.8e-20  Score=102.11  Aligned_cols=45  Identities=49%  Similarity=0.806  Sum_probs=38.4

Q ss_pred             CeecCChhHHH-------------HHHHhcCCCC-cccCCCCCHHHHHHHHHHHHHcCC
Q 040579            1 MLKSSDGEVFE-------------HMIEDDCAVD-RIPLPNVTIKIFYKAIKYCNKHDE   45 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~~~~-~IplpnV~~~~L~kViewc~~H~~   45 (72)
                      +|+|+||++|+             +|+++.+... +||||+|+|++|+||||||+||++
T Consensus         4 ~L~SsDg~~f~V~~~~a~~S~~i~~ml~~~~~~~~~Ipl~~v~~~~L~kViewc~~H~~   62 (62)
T PF03931_consen    4 KLVSSDGQEFEVSREAAKQSKTIKNMLEDLGDEDEPIPLPNVSSRILKKVIEWCEHHKN   62 (62)
T ss_dssp             EEEETTSEEEEEEHHHHTTSHHHHHHHHCTCCCGTEEEETTS-HHHHHHHHHHHHHHHH
T ss_pred             EEEcCCCCEEEeeHHHHHHhHHHHHHHhhhcccccccccCccCHHHHHHHHHHHHhcCC
Confidence            58999999999             7777766543 699999999999999999999973

It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....

>COG5201 SKP1 SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones]

Probab=99.65  E-value=3.9e-17  Score=101.54  Aligned_cols=72  Identities=29%  Similarity=0.441  Sum_probs=55.0

Q ss_pred             CeecCChhHHH-------------HHHHhcCC-CCcccCCCCCHHHHHHHHHHHHHcCCCCCCcccc-CCCCCCCcChhh
Q 040579            1 MLKSSDGEVFE-------------HMIEDDCA-VDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLA-TTSIDDDLKAWD   65 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~~-~~~IplpnV~~~~L~kViewc~~H~~~~~~~~~~-~~~~~~~i~~WD   65 (72)
                      .|+|.||++|.             +|+.+..+ .-|||+|||.|.+|.||++||+||+....++.++ ..++...+..||
T Consensus         5 ~l~s~dge~F~vd~~iAerSiLikN~l~d~~~~n~p~p~pnVrSsvl~kv~ew~ehh~~s~sede~d~~~rks~p~D~wd   84 (158)
T COG5201           5 ELESIDGEIFRVDENIAERSILIKNMLCDSTACNYPIPAPNVRSSVLMKVQEWMEHHTSSLSEDENDLEIRKSKPSDFWD   84 (158)
T ss_pred             EEEecCCcEEEehHHHHHHHHHHHHHhccccccCCCCcccchhHHHHHHHHHHHHhccccCCCccChHhhhccCCccHHH
Confidence            48999999998             55554433 3489999999999999999999999854433321 224567789999


Q ss_pred             hhccccC
Q 040579           66 ADLVKVD   72 (72)
Q Consensus        66 ~~F~~~d   72 (72)
                      +.|+.+|
T Consensus        85 r~Fm~vD   91 (158)
T COG5201          85 RFFMEVD   91 (158)
T ss_pred             HHHHHhh
Confidence            9999765

>KOG3473 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin C [Transcription]

Probab=97.68  E-value=2.3e-05  Score=46.95  Aligned_cols=45  Identities=20%  Similarity=0.237  Sum_probs=35.5

Q ss_pred             CeecCChhHHH-------------HHHHhcC-----CCCcccCCCCCHHHHHHHHHHHHHcCC
Q 040579            1 MLKSSDGEVFE-------------HMIEDDC-----AVDRIPLPNVTIKIFYKAIKYCNKHDE   45 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~-----~~~~IplpnV~~~~L~kViewc~~H~~   45 (72)
                      +|+|+||.+|.             .||.+-+     ..+.+-++.+.+-+|.||.+|..+...
T Consensus        20 kLvS~Ddhefiikre~AmtSgTiraml~gpg~~se~~~n~v~f~di~shiLeKvc~Yl~Yk~r   82 (112)
T KOG3473|consen   20 KLVSSDDHEFIIKREHAMTSGTIRAMLSGPGVFSEAEKNEVYFRDIPSHILEKVCEYLAYKVR   82 (112)
T ss_pred             EeecCCCcEEEEeehhhhhhhHHHHHHcCCccccccccceEEeccchHHHHHHHHHHhhheee
Confidence            58999999998             4444321     235799999999999999999987654

>smart00225 BTB Broad-Complex, Tramtrack and Bric a brac

Probab=89.55  E-value=0.43  Score=25.32  Aligned_cols=37  Identities=16%  Similarity=0.251  Sum_probs=27.3

Q ss_pred             hHHHHHHHhcC---CCCcccCCCCCHHHHHHHHHHHHHcC
Q 040579            8 EVFEHMIEDDC---AVDRIPLPNVTIKIFYKAIKYCNKHD   44 (72)
Q Consensus         8 ~~f~~~i~~~~---~~~~IplpnV~~~~L~kViewc~~H~   44 (72)
                      .-|..|+....   ....|++++++...+..+++||..-.
T Consensus        23 ~~f~~~~~~~~~~~~~~~i~l~~~~~~~f~~~l~~ly~~~   62 (90)
T smart00225       23 PYFKALFSGDFKESKKSEIYLDDVSPEDFRALLEFLYTGK   62 (90)
T ss_pred             HHHHHHHcCCCccCCCCEEEecCCCHHHHHHHHHeecCce
Confidence            34446665432   24579999999999999999987653

Domain in Broad-Complex, Tramtrack and Bric a brac. Also known as POZ (poxvirus and zinc finger) domain. Known to be a protein-protein interaction motif found at the N-termini of several C2H2-type transcription factors as well as Shaw-type potassium channels. Known structure reveals a tightly intertwined dimer formed via interactions between N-terminal strand and helix structures. However in a subset of BTB/POZ domains, these two secondary structures appear to be missing. Be aware SMART predicts BTB/POZ domains without the beta1- and alpha1-secondary structures.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	72
2p1m_A	160	Tir1-ask1 Complex Structure Length = 160		1e-15
3l2o_A	149	Structure-Based Mechanism Of Dimerization-Dependent		3e-07
1fqv_B	149	Insights Into Scf Ubiquitin Ligases From The Struct		3e-07
1p22_B	145	Structure Of A Beta-Trcp1-Skp1-Beta-Catenin Complex		2e-06
1ldk_D	133	Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiqu		2e-06
1fs1_B	141	Insights Into Scf Ubiquitin Ligases From The Struct		2e-06
2e31_B	166	Structural Basis For Selection Of Glycosylated Subs		2e-04
2ast_A	159	Crystal Structure Of The Skp1-Skp2-Cks1 Complex Len		2e-04

>pdb|2P1M|A Chain A, Tir1-ask1 Complex Structure Length = 160

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 45/89 (50%), Positives = 55/89 (61%), Gaps = 18/89 (20%)
Query: 1  MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
          +LKSSDGE FE             HM+EDDC  + +PLPNVT KI  K I+YC +H EA+
Sbjct: 7  VLKSSDGESFEVEEAVALESQTIAHMVEDDCVDNGVPLPNVTSKILAKVIEYCKRHVEAA 66
Query: 48 MFD----DLATTSIDDDLKAWDADLVKVD 72
                 + A TS DDDLKAWDAD +K+D
Sbjct: 67 ASKAEAVEGAATS-DDDLKAWDADFMKID 94

>pdb|3L2O|A Chain A, Structure-Based Mechanism Of Dimerization-Dependent Ubiquitination By The Scffbx4 Ubiquitin Ligase Length = 149

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 30/83 (36%), Positives = 42/83 (50%), Gaps = 18/83 (21%)
Query: 2  LKSSDGEVFEHMIE------------DDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMF 49
          L+SSDGE+FE  +E            +D  +D +PLPNV   I  K I++C  H      
Sbjct: 6  LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHK----- 60
Query: 50 DDLATTSIDDDLKAWDADLVKVD 72
          DD   +   DD+  WD + +KVD
Sbjct: 61 DDPGGSGT-DDIPVWDQEFLKVD 82

>pdb|1FQV|B Chain B, Insights Into Scf Ubiquitin Ligases From The Structure Of The Skp1-Skp2 Complex Length = 149

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 30/83 (36%), Positives = 42/83 (50%), Gaps = 18/83 (21%)
Query: 2  LKSSDGEVFEHMIE------------DDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMF 49
          L+SSDGE+FE  +E            +D  +D +PLPNV   I  K I++C  H      
Sbjct: 6  LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHK----- 60
Query: 50 DDLATTSIDDDLKAWDADLVKVD 72
          DD   +   DD+  WD + +KVD
Sbjct: 61 DDPGGSGT-DDIPVWDQEFLKVD 82

>pdb|1P22|B Chain B, Structure Of A Beta-Trcp1-Skp1-Beta-Catenin Complex: Destruction Motif Binding And Lysine Specificity On The Scfbeta-Trcp1 Ubiquitin Ligase Length = 145

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 30/83 (36%), Positives = 41/83 (49%), Gaps = 22/83 (26%)
Query: 2  LKSSDGEVFEHMIE------------DDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMF 49
          L+SSDGE+FE  +E            +D  +D +PLPNV   I  K I++C  H      
Sbjct: 6  LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHK----- 60
Query: 50 DDLATTSIDDDLKAWDADLVKVD 72
          DD       DD+  WD + +KVD
Sbjct: 61 DDPP-----DDIPVWDQEFLKVD 78

>pdb|1LDK|D Chain D, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin Ligase Complex Length = 133

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/85 (32%), Positives = 41/85 (48%), Gaps = 14/85 (16%)
Query: 2  LKSSDGEVFEHMIE------------DDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMF 49
          L+SSDGE+FE  +E            +D  +D +PLPNV   I  K I++C  H +    
Sbjct: 5  LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHKDDPPP 64
Query: 50 DDLATT--SIDDDLKAWDADLVKVD 72
           +         DD+  WD + +KVD
Sbjct: 65 PEDDENKEKRTDDIPVWDQEFLKVD 89

>pdb|1FS1|B Chain B, Insights Into Scf Ubiquitin Ligases From The Structure Of The Skp1-Skp2 Complex Length = 141

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/85 (32%), Positives = 41/85 (48%), Gaps = 14/85 (16%)
Query: 2  LKSSDGEVFEHMIE------------DDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMF 49
          L+SSDGE+FE  +E            +D  +D +PLPNV   I  K I++C  H +    
Sbjct: 6  LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHKDDPPP 65
Query: 50 DDLATT--SIDDDLKAWDADLVKVD 72
           +         DD+  WD + +KVD
Sbjct: 66 PEDDENKEKRTDDIPVWDQEFLKVD 90

>pdb|2E31|B Chain B, Structural Basis For Selection Of Glycosylated Substrate By Scffbs1 Ubiquitin Ligase Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 40/91 (43%), Gaps = 20/91 (21%)
Query: 2  LKSSDGEVFEHMIE------------------DDCAVDRIPLPNVTIKIFYKAIKYCNKH 43
          L+SSDGE+FE  +E                  D+   D +PLPNV   I  K I++C  H
Sbjct: 9  LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDDEGDDDPVPLPNVNAAILKKVIQWCTHH 68
Query: 44 DEASMFDDLATT--SIDDDLKAWDADLVKVD 72
           +     +         DD+  WD + +KVD
Sbjct: 69 KDDPPPPEDDENKEKRTDDIPVWDQEFLKVD 99

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	72
2p1m_A	160	SKP1-like protein 1A; F-BOX, leucine rich repeat,	9e-10
1fs1_B	141	SKP1, cyclin A/CDK2-associated P45; F-BOX, LRR, le	2e-09
2ast_A	159	S-phase kinase-associated protein 1A; SCF-substrat	3e-08
1hv2_A	99	Elongin C, ELC1; protein-peptide complex, signalin	4e-07
3v7d_A	169	Suppressor of kinetochore protein 1; WD 40 domain,	2e-05
1vcb_B	112	Protein (elongin C); tumor suppressor, cancer, ubi	4e-05
2fnj_C	96	Transcription elongation factor B polypeptide 1; b	2e-04

>2p1m_A SKP1-like protein 1A; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_A* 2p1o_A* 2p1p_A* 2p1q_A* 3c6n_A* 3c6o_A* 3c6p_A* 3ogk_A* 3ogl_A* 3ogm_A* Length = 160

 Score = 50.6 bits (120), Expect = 9e-10
 Identities = 40/87 (45%), Positives = 49/87 (56%), Gaps = 16/87 (18%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKH---DE 45
          LKSSDGE FE             HM+EDDC  + +PLPNVT KI  K I+YC +H     
Sbjct: 8  LKSSDGESFEVEEAVALESQTIAHMVEDDCVDNGVPLPNVTSKILAKVIEYCKRHVEAAA 67

Query: 46 ASMFDDLATTSIDDDLKAWDADLVKVD 72
          +         + DDDLKAWDAD +K+D
Sbjct: 68 SKAEAVEGAATSDDDLKAWDADFMKID 94

>1fs1_B SKP1, cyclin A/CDK2-associated P45; F-BOX, LRR, leucine-rich repeat, SCF, ubiquitin, ubiquitin protein ligase; 1.80A {Homo sapiens} SCOP: a.157.1.1 d.42.1.1 PDB: 1fs2_B 1ldk_D Length = 141

 Score = 49.3 bits (117), Expect = 2e-09
 Identities = 32/86 (37%), Positives = 41/86 (47%), Gaps = 16/86 (18%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKH--DEA 46
          L+SSDGE+FE              M+ED    D +PLPNV   I  K I++C  H  D  
Sbjct: 6  LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGM-DPVPLPNVNAAILKKVIQWCTHHKDDPP 64

Query: 47 SMFDDLATTSIDDDLKAWDADLVKVD 72
             DD       DD+  WD + +KVD
Sbjct: 65 PPEDDENKEKRTDDIPVWDQEFLKVD 90

>1hv2_A Elongin C, ELC1; protein-peptide complex, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: d.42.1.1 Length = 99

 Score = 42.4 bits (100), Expect = 4e-07
 Identities = 17/81 (20%), Positives = 28/81 (34%), Gaps = 20/81 (24%)

Query: 2  LKSSDGEVFE-------------HMIEDDC--AVDRIPLPNVTIKIFYKAIKYCNKHDEA 46
          L S D + +E              MIE     +  RI L      I  KA++Y N +   
Sbjct: 8  LVSKDDKEYEISRSAAMISPTLKAMIEGPFRESKGRIELKQFDSHILEKAVEYLNYN--- 64

Query: 47 SMFDDLATTSIDDDLKAWDAD 67
                  +  DD++  ++  
Sbjct: 65 --LKYSGVSEDDDEIPEFEIP 83

>3v7d_A Suppressor of kinetochore protein 1; WD 40 domain, phospho-peptide complex, E3 ubiquitin ligase, cell cycle, phospho binding protein, phosphorylation; HET: SEP; 2.31A {Saccharomyces cerevisiae} PDB: 1nex_A* 3mks_A* Length = 169

 Score = 38.7 bits (89), Expect = 2e-05
 Identities = 20/92 (21%), Positives = 38/92 (41%), Gaps = 21/92 (22%)

Query: 2   LKSSDGEVFE-------------HMI-------EDDCAVDRIPLPNVTIKIFYKAIKYCN 41
           L S +GE F              + +       ++D     +P+PNV   +  K I++  
Sbjct: 11  LVSGEGERFTVDKKIAERSLLLKNYLNDMGDDDDEDDDEIVMPVPNVRSSVLQKVIEWAE 70

Query: 42  KHDEASMFD-DLATTSIDDDLKAWDADLVKVD 72
            H +++  D D   +     + +WD + +KVD
Sbjct: 71  HHRDSNFPDEDDDDSRKSAPVDSWDREFLKVD 102

>1vcb_B Protein (elongin C); tumor suppressor, cancer, ubiquitin, beta sandwich, transcription, transcriptional elongation; 2.70A {Homo sapiens} SCOP: d.42.1.1 Length = 112

 Score = 37.4 bits (87), Expect = 4e-05
 Identities = 9/60 (15%), Positives = 13/60 (21%), Gaps = 18/60 (30%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVD-----RIPLPNVTIKIFYKAIKYCNKH 43
          L SSDG  F               M+             +    +   +  K   Y    
Sbjct: 21 LISSDGHEFIVKREHALTSGTIKAMLSGPGQFAENETNEVNFREIPSHVLSKVCMYFTYK 80

>2fnj_C Transcription elongation factor B polypeptide 1; beta-sandwich, lectin-like, SPRY, protein transport/signaling protein complex; 1.80A {Mus musculus} SCOP: d.42.1.1 PDB: 1lqb_B 1lm8_C 2jz3_C 2xai_B 2c9w_C 2izv_C 3dcg_B 3zrc_B* 3zrf_B Length = 96

 Score = 35.1 bits (81), Expect = 2e-04
 Identities = 9/60 (15%), Positives = 13/60 (21%), Gaps = 18/60 (30%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVD-----RIPLPNVTIKIFYKAIKYCNKH 43
          L SSDG  F               M+             +    +   +  K   Y    
Sbjct: 5  LISSDGHEFIVKREHALTSGTIKAMLSGPGQFAENETNEVNFREIPSHVLSKVCMYFTYK 64

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	72
3v7d_A	169	Suppressor of kinetochore protein 1; WD 40 domain,	99.89
1fs1_B	141	SKP1, cyclin A/CDK2-associated P45; F-BOX, LRR, le	99.88
2p1m_A	160	SKP1-like protein 1A; F-BOX, leucine rich repeat,	99.87
2ast_A	159	S-phase kinase-associated protein 1A; SCF-substrat	99.81
1hv2_A	99	Elongin C, ELC1; protein-peptide complex, signalin	99.76
2fnj_C	96	Transcription elongation factor B polypeptide 1; b	99.75
1vcb_B	112	Protein (elongin C); tumor suppressor, cancer, ubi	99.74
4ajy_C	97	Transcription elongation factor B polypeptide 1; E	99.71
3ga1_A	129	Nucleus accumbens-associated protein 1; BTB/POZ do	88.2
3b84_A	119	Zinc finger and BTB domain-containing protein 48;	85.97
2vpk_A	116	Myoneurin; transcription regulation, transcription	85.37
2if5_A	120	Zinc finger and BTB domain-containing protein 7A;	84.46
2ppi_A	144	Gigaxonin; BTB domain, protein degradation, struct	83.04
2q81_A	119	MIZ-1 protein; BTB/POZ domain, transcription; HET:	82.31
3ohu_A	125	Transcription regulator protein BACH2; BTB/POZ dom	80.78

>3v7d_A Suppressor of kinetochore protein 1; WD 40 domain, phospho-peptide complex, E3 ubiquitin ligase, cell cycle, phospho binding protein, phosphorylation; HET: SEP; 2.31A {Saccharomyces cerevisiae} PDB: 1nex_A* 3mks_A*

Probab=99.89  E-value=1.5e-24  Score=137.91  Aligned_cols=72  Identities=26%  Similarity=0.519  Sum_probs=54.9

Q ss_pred             CeecCChhHHH-------------HHHHhcCC-----C--CcccCCCCCHHHHHHHHHHHHHcCCCCCCcc-ccCCCCCC
Q 040579            1 MLKSSDGEVFE-------------HMIEDDCA-----V--DRIPLPNVTIKIFYKAIKYCNKHDEASMFDD-LATTSIDD   59 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~~-----~--~~IplpnV~~~~L~kViewc~~H~~~~~~~~-~~~~~~~~   59 (72)
                      +|+||||++|+             +||++.+.     +  .+||||||+|.+|+|||+||+||+.++++.. +...+...
T Consensus        10 ~L~SsDG~~F~V~~~vA~~S~tIk~ml~~~~~~~~~~~~~~~IplpnV~s~iL~kVieyc~~h~~~~~~~~~~~~~~~~~   89 (169)
T 3v7d_A           10 VLVSGEGERFTVDKKIAERSLLLKNYLNDMGDDDDEDDDEIVMPVPNVRSSVLQKVIEWAEHHRDSNFPDEDDDDSRKSA   89 (169)
T ss_dssp             EEECTTCCEEEEEHHHHTTSHHHHHHHHC-----------CEEECTTCCHHHHHHHHHHHHHTTTCCCCC--------CC
T ss_pred             EEEeCCCCEEEecHHHHHHhHHHHHHHHhcCcccccccCCCceeeCCCCHHHHHHHHHHHHHcccCCCcccccccccccc
Confidence            58999999998             88887653     3  6899999999999999999999999876542 12234567


Q ss_pred             CcChhhhhccccC
Q 040579           60 DLKAWDADLVKVD   72 (72)
Q Consensus        60 ~i~~WD~~F~~~d   72 (72)
                      .+++||++||+++
T Consensus        90 ~i~~wD~~Fl~vd  102 (169)
T 3v7d_A           90 PVDSWDREFLKVD  102 (169)
T ss_dssp             CCCHHHHHHTCSC
T ss_pred             cccHHHHHHHcCC
Confidence            8999999999874

>1fs1_B SKP1, cyclin A/CDK2-associated P45; F-BOX, LRR, leucine-rich repeat, SCF, ubiquitin, ubiquitin protein ligase; 1.80A {Homo sapiens} SCOP: a.157.1.1 d.42.1.1 PDB: 1fs2_B 1ldk_D

Probab=99.88  E-value=1.1e-23  Score=130.22  Aligned_cols=71  Identities=41%  Similarity=0.735  Sum_probs=51.3

Q ss_pred             CeecCChhHHH-------------HHHHhcCCCCcccCCCCCHHHHHHHHHHHHHcCCCCCCccc--cCCCCCCCcChhh
Q 040579            1 MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDL--ATTSIDDDLKAWD   65 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~~~~~IplpnV~~~~L~kViewc~~H~~~~~~~~~--~~~~~~~~i~~WD   65 (72)
                      +|+||||+.|+             +|+++.+ +++||||||+|.+|+|||+||+||+.++++..+  ........+++||
T Consensus         5 ~L~SsDg~~f~v~~~vA~~S~~ik~ml~~~~-~~~Ipl~~V~~~iL~kVieyc~~h~~~~~~~~~~~~~~~~~~~i~~wD   83 (141)
T 1fs1_B            5 KLQSSDGEIFEVDVEIAKQSVTIKTMLEDLG-MDPVPLPNVNAAILKKVIQWCTHHKDDPPPPEDDENKEKRTDDIPVWD   83 (141)
T ss_dssp             EEECTTSCEEEEEGGGGGTCHHHHHHHHHTC-CSSEECTTCCHHHHHHHHHHHHHHTTCC-----------------HHH
T ss_pred             EEEeCCCCEEEecHHHHHHhHHHHHHHHhcC-CCceecCCcCHHHHHHHHHHHHHhccCCCccccccccccchhhhhHHH
Confidence            58999999999             8888765 779999999999999999999999988754332  1124567899999


Q ss_pred             hhccccC
Q 040579           66 ADLVKVD   72 (72)
Q Consensus        66 ~~F~~~d   72 (72)
                      ++|++++
T Consensus        84 ~~F~~vd   90 (141)
T 1fs1_B           84 QEFLKVD   90 (141)
T ss_dssp             HHHTCSC
T ss_pred             HHHHhCC
Confidence            9999864

>2p1m_A SKP1-like protein 1A; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_A* 2p1o_A* 2p1p_A* 2p1q_A* 3c6n_A* 3c6o_A* 3c6p_A* 3ogk_A* 3ogl_A* 3ogm_A*

Probab=99.87  E-value=2.3e-23  Score=131.10  Aligned_cols=72  Identities=60%  Similarity=0.988  Sum_probs=18.8

Q ss_pred             CeecCChhHHH-------------HHHHhcCCCCcccCCCCCHHHHHHHHHHHHHcCCCCCCccccC---CCCCCCcChh
Q 040579            1 MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLAT---TSIDDDLKAW   64 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~~~~~IplpnV~~~~L~kViewc~~H~~~~~~~~~~~---~~~~~~i~~W   64 (72)
                      +|+||||+.|.             +|+++.+.+++||||||++.+|+|||+||+||+.++++..+..   ......+++|
T Consensus         7 ~L~SsDg~~f~v~~~vA~~S~~ik~ml~~~~~~~~Ipl~~V~~~iL~kVieyc~~h~~~~~~~~~~~~~~~~~~~~i~~w   86 (160)
T 2p1m_A            7 VLKSSDGESFEVEEAVALESQTIAHMVEDDCVDNGVPLPNVTSKILAKVIEYCKRHVEAAASKAEAVEGAATSDDDLKAW   86 (160)
T ss_dssp             -CCC---------CHHHHTCTTTC------------CCTTSCHHHHHHHHHC----------------------------
T ss_pred             EEEcCCCCEEEECHHHHHHhHHHHHHHHccCCCCceeCCcCcHHHHHHHHHHHHHcccCCCcccccccccccccchhhHH
Confidence            58999999999             8888776667999999999999999999999998865433211   2456789999


Q ss_pred             hhhccccC
Q 040579           65 DADLVKVD   72 (72)
Q Consensus        65 D~~F~~~d   72 (72)
                      |++|++++
T Consensus        87 D~~Fl~vd   94 (160)
T 2p1m_A           87 DADFMKID   94 (160)
T ss_dssp             --------
T ss_pred             HHHHHcCC
Confidence            99999864

>1hv2_A Elongin C, ELC1; protein-peptide complex, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: d.42.1.1

Probab=99.76  E-value=2.8e-20  Score=109.39  Aligned_cols=59  Identities=31%  Similarity=0.377  Sum_probs=47.3

Q ss_pred             CeecCChhHHH-------------HHHHhcCC--CCcccCCCCCHHHHHHHHHHHHHcCCCCCCccccCCCCCCCcChh
Q 040579            1 MLKSSDGEVFE-------------HMIEDDCA--VDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLATTSIDDDLKAW   64 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~~--~~~IplpnV~~~~L~kViewc~~H~~~~~~~~~~~~~~~~~i~~W   64 (72)
                      +|+||||++|+             +||++...  .++||||||+|.+|+|||+||+||++++.+.     .....+++|
T Consensus         7 ~L~SsDg~~f~V~~~vA~~S~~ik~ml~~~~e~~~~~Iplp~V~~~iL~kVieyc~~h~~~~~~~-----~~~~~i~~w   80 (99)
T 1hv2_A            7 TLVSKDDKEYEISRSAAMISPTLKAMIEGPFRESKGRIELKQFDSHILEKAVEYLNYNLKYSGVS-----EDDDEIPEF   80 (99)
T ss_dssp             EEEETTTEEEEEEHHHHTTCHHHHHHHHSSTTTCTTEEEETTSCHHHHHHHHHHHHHHHHHHHHC-----SSCSSCCCC
T ss_pred             EEEecCCCEEEECHHHHHHhHHHHHHHhcccccCCCceecCCcCHHHHHHHHHHHHHhcccCCCc-----cccccCCCc
Confidence            58999999999             88887432  3689999999999999999999999764322     234567888

>2fnj_C Transcription elongation factor B polypeptide 1; beta-sandwich, lectin-like, SPRY, protein transport/signaling protein complex; 1.80A {Mus musculus} SCOP: d.42.1.1 PDB: 1lqb_B 1lm8_C 2jz3_C 2xai_B 2c9w_C 2izv_C 3dcg_B 3zrc_B* 3zrf_B

Probab=99.75  E-value=9.4e-20  Score=106.58  Aligned_cols=56  Identities=16%  Similarity=0.259  Sum_probs=44.6

Q ss_pred             CeecCChhHHH-------------HHHHhcCC-----CCcccCCCCCHHHHHHHHHHHHHcCCCCCCccccCCCCCCCcC
Q 040579            1 MLKSSDGEVFE-------------HMIEDDCA-----VDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLATTSIDDDLK   62 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~~-----~~~IplpnV~~~~L~kViewc~~H~~~~~~~~~~~~~~~~~i~   62 (72)
                      +|+||||++|+             +|+++.+.     .++||||||+|.+|+|||+||+||+.++.        ....++
T Consensus         4 ~L~SsDg~~f~V~~~~A~~S~~ik~ml~~~~~~~e~~~~~Ipl~~V~~~iL~kVieyc~~h~~~~~--------~~~~i~   75 (96)
T 2fnj_C            4 KLISSDGHEFIVKREHALTSGTIKAMLSGPGQFAENETNEVNFREIPSHVLSKVCMYFTYKVRYTN--------SSTEIP   75 (96)
T ss_dssp             EEECTTSCEEEEEHHHHTTSHHHHHHHHCC--------CEEECSSCCHHHHHHHHHHHHHHHHHHS--------CCSCCC
T ss_pred             EEEecCCCEEEeCHHHHHHhHHHHHHHHccCCcccccCCceeCCCCCHHHHHHHHHHHHHccccCC--------CcccCC
Confidence            58999999999             88887542     25899999999999999999999997542        134567


Q ss_pred             hh
Q 040579           63 AW   64 (72)
Q Consensus        63 ~W   64 (72)
                      +|
T Consensus        76 ~w   77 (96)
T 2fnj_C           76 EF   77 (96)
T ss_dssp             CC
T ss_pred             Cc
Confidence            77

>1vcb_B Protein (elongin C); tumor suppressor, cancer, ubiquitin, beta sandwich, transcription, transcriptional elongation; 2.70A {Homo sapiens} SCOP: d.42.1.1

Probab=99.74  E-value=1.2e-19  Score=108.92  Aligned_cols=56  Identities=16%  Similarity=0.259  Sum_probs=44.4

Q ss_pred             CeecCChhHHH-------------HHHHhcCC-----CCcccCCCCCHHHHHHHHHHHHHcCCCCCCccccCCCCCCCcC
Q 040579            1 MLKSSDGEVFE-------------HMIEDDCA-----VDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLATTSIDDDLK   62 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~~-----~~~IplpnV~~~~L~kViewc~~H~~~~~~~~~~~~~~~~~i~   62 (72)
                      +|+|+||++|+             +||++.+.     ..+||||||++.+|+|||+||+||+.++.        ....++
T Consensus        20 ~L~SsDG~~F~V~~~~A~~S~tIk~ml~~~~~~~e~~~~~IplpnV~s~iL~kVieyc~~h~~~~~--------~~~~i~   91 (112)
T 1vcb_B           20 KLISSDGHEFIVKREHALTSGTIKAMLSGPGQFAENETNEVNFREIPSHVLSKVCMYFTYKVRYTN--------SSTEIP   91 (112)
T ss_dssp             EEECTTSCEEEEEHHHHHTSHHHHHHSSCC--------CEEECSSCCHHHHHHHHHHHHHHHHHSS--------CSSCCC
T ss_pred             EEEcCCCCEEEECHHHHHHhHHHHHHHHhcCCcccccCCceeCCCCCHHHHHHHHHHHHHhhhccC--------CcCCCC
Confidence            58999999999             77776432     25899999999999999999999998642        234577


Q ss_pred             hh
Q 040579           63 AW   64 (72)
Q Consensus        63 ~W   64 (72)
                      +|
T Consensus        92 ~w   93 (112)
T 1vcb_B           92 EF   93 (112)
T ss_dssp             CC
T ss_pred             Cc
Confidence            78

>4ajy_C Transcription elongation factor B polypeptide 1; E3 ubiquitin ligase, transcription factor, hypoxic signaling transcription; 1.73A {Homo sapiens} PDB: 2izv_C 3dcg_B 3zrc_B* 3zrf_B 3ztc_B* 3ztd_B* 3zun_B* 2c9w_C 4awj_B* 4b95_B* 4b9k_B* 2fnj_C 1lqb_B 1lm8_C 2jz3_C 2xai_B 4b9k_E*

Probab=99.71  E-value=7.6e-19  Score=102.50  Aligned_cols=57  Identities=16%  Similarity=0.251  Sum_probs=44.9

Q ss_pred             CeecCChhHHH-------------HHHHhcCC-----CCcccCCCCCHHHHHHHHHHHHHcCCCCCCccccCCCCCCCcC
Q 040579            1 MLKSSDGEVFE-------------HMIEDDCA-----VDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLATTSIDDDLK   62 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~~-----~~~IplpnV~~~~L~kViewc~~H~~~~~~~~~~~~~~~~~i~   62 (72)
                      +|+|+||++|.             +|+++.+.     ..+||||||++.+|+|||+||+||+.++.        ....++
T Consensus         5 ~L~SsDg~~F~v~r~vA~~S~~ik~m~~~~~~~~E~~~~~I~l~~V~~~iL~kViey~~~h~~~~~--------~~~~i~   76 (97)
T 4ajy_C            5 KLISSDGHEFIVKREHALTSGTIKAMLSGPGQFAENETNEVNFREIPSHVLSKVCMYFTYKVRYTN--------SSTEIP   76 (97)
T ss_dssp             EEECTTCCEEEEEHHHHTTSHHHHHHHCCC--------CEEECTTSCHHHHHHHHHHHHHHHHHTT--------CCSCCC
T ss_pred             EEEecCCcEEEecHHHHHHhHHHHHHHHhCCCccccCCCceECCCCCHHHHHHHHHHHHHhcccCC--------CcCCCC
Confidence            58999999998             77776432     46899999999999999999999998642        234577


Q ss_pred             hhh
Q 040579           63 AWD   65 (72)
Q Consensus        63 ~WD   65 (72)
                      +|+
T Consensus        77 ~~~   79 (97)
T 4ajy_C           77 EFP   79 (97)
T ss_dssp             CCC
T ss_pred             cCc
Confidence            774

>3ga1_A Nucleus accumbens-associated protein 1; BTB/POZ domain, phosphoprotein, repressor, transcri transcription regulation; 2.10A {Homo sapiens}

Probab=88.20  E-value=0.82  Score=26.21  Aligned_cols=32  Identities=16%  Similarity=0.426  Sum_probs=25.2

Q ss_pred             HHHHhcCCCCcccCC-CCCHHHHHHHHHHHHHcC
Q 040579           12 HMIEDDCAVDRIPLP-NVTIKIFYKAIKYCNKHD   44 (72)
Q Consensus        12 ~~i~~~~~~~~Iplp-nV~~~~L~kViewc~~H~   44 (72)
                      .|+... ....|.|| +|+..+++.+++|+.--.
T Consensus        61 ~~f~~~-~~~~i~l~~~~~~~~f~~ll~~iYtg~   93 (129)
T 3ga1_A           61 DLFNNS-RSAVVELPAAVQPQSFQQILSFCYTGR   93 (129)
T ss_dssp             HHHHHC-CCSEEECCTTCCHHHHHHHHHHHHHSE
T ss_pred             HHHcCC-CCCEEEECCCCCHHHHHHHHHHHhCCc
Confidence            555544 45679998 899999999999987643

>3b84_A Zinc finger and BTB domain-containing protein 48; krueppel related zinc finger protein 3, HKR3, ZBTB48, Z finger, oncogene; 1.74A {Homo sapiens}

Probab=85.97  E-value=0.58  Score=26.55  Aligned_cols=33  Identities=15%  Similarity=0.177  Sum_probs=25.1

Q ss_pred             HHHHhcCCCCcccCCCCCHHHHHHHHHHHHHcCC
Q 040579           12 HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDE   45 (72)
Q Consensus        12 ~~i~~~~~~~~IplpnV~~~~L~kViewc~~H~~   45 (72)
                      .|+... ....|.|++++..+++.+++|+.--.-
T Consensus        52 ~~f~~~-~~~~i~l~~~~~~~f~~ll~~iYtg~~   84 (119)
T 3b84_A           52 SLYGDG-SGGSVVLPAGFAEIFGLLLDFFYTGHL   84 (119)
T ss_dssp             HHHTTT-TCCCEEECGGGHHHHHHHHHHHHHSCC
T ss_pred             HHHCCC-CCCeEEeCCCCHHHHHHHHHHHcCCCC
Confidence            555432 246799999999999999999976543

>2vpk_A Myoneurin; transcription regulation, transcription, metal-binding, alternative splicing, zinc, nucleus, BTB domain, zinc-finger, DNA-binding; 2.00A {Homo sapiens}

Probab=85.37  E-value=1.4  Score=24.63  Aligned_cols=32  Identities=13%  Similarity=0.191  Sum_probs=23.2

Q ss_pred             HHHHhcCCCCcccCC--CCCHHHHHHHHHHHHHcC
Q 040579           12 HMIEDDCAVDRIPLP--NVTIKIFYKAIKYCNKHD   44 (72)
Q Consensus        12 ~~i~~~~~~~~Iplp--nV~~~~L~kViewc~~H~   44 (72)
                      .|+... ....|.|+  +++..+++.+++|+.--.
T Consensus        50 ~~f~~~-~~~~i~l~~~~~~~~~f~~ll~~~Yt~~   83 (116)
T 2vpk_A           50 AIYRST-SENNVFLDQSQVKADGFQKLLEFIYTGT   83 (116)
T ss_dssp             HHHTTC-CCSCEECCTTTCCHHHHHHHHHHHHHSC
T ss_pred             HHHcCC-CCCeEEeecCCCCHHHHHHHHHHHcCCC
Confidence            555543 24456565  999999999999997653

>2if5_A Zinc finger and BTB domain-containing protein 7A; POZ domain, POK, proto oncogene, transcription F transcription; 2.00A {Homo sapiens} PDB: 2nn2_A

Probab=84.46  E-value=1.4  Score=24.70  Aligned_cols=25  Identities=4%  Similarity=0.082  Sum_probs=21.7

Q ss_pred             CCcccCCCCCHHHHHHHHHHHHHcC
Q 040579           20 VDRIPLPNVTIKIFYKAIKYCNKHD   44 (72)
Q Consensus        20 ~~~IplpnV~~~~L~kViewc~~H~   44 (72)
                      ...|.|++++..+++.+++|+.--.
T Consensus        64 ~~~i~l~~~~~~~f~~ll~~~Yt~~   88 (120)
T 2if5_A           64 QNVYEIDFVSAEALTALMDFAYTAT   88 (120)
T ss_dssp             CSEEECCSSCHHHHHHHHHHHHHSC
T ss_pred             CceEEeCCCCHHHHHHHHHHHcCCC
Confidence            4579999999999999999988654

>2ppi_A Gigaxonin; BTB domain, protein degradation, structural genomics, struct genomics consortium, SGC, structural protein; 2.40A {Homo sapiens}

Probab=83.04  E-value=2  Score=25.18  Aligned_cols=24  Identities=13%  Similarity=0.314  Sum_probs=20.9

Q ss_pred             CCcccCCCCCHHHHHHHHHHHHHc
Q 040579           20 VDRIPLPNVTIKIFYKAIKYCNKH   43 (72)
Q Consensus        20 ~~~IplpnV~~~~L~kViewc~~H   43 (72)
                      ...|.|++|+..+++.+++|+.--
T Consensus        88 ~~~I~l~~v~~~~f~~lL~fiYtg  111 (144)
T 2ppi_A           88 TYKIELEGISVMVMREILDYIFSG  111 (144)
T ss_dssp             CCEEECCSSCHHHHHHHHHHHTTS
T ss_pred             CcEEEeCCCCHHHHHHHHHHHhCC
Confidence            457999999999999999998643

>2q81_A MIZ-1 protein; BTB/POZ domain, transcription; HET: PG4; 2.10A {Homo sapiens} PDB: 3m52_A

Probab=82.31  E-value=1.7  Score=24.51  Aligned_cols=31  Identities=10%  Similarity=0.095  Sum_probs=24.5

Q ss_pred             HHHHhcCCCCcccCCCCCHHHHHHHHHHHHHcC
Q 040579           12 HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHD   44 (72)
Q Consensus        12 ~~i~~~~~~~~IplpnV~~~~L~kViewc~~H~   44 (72)
                      .|+..  ....|.|+.++..+++.+++|+.--.
T Consensus        55 ~~f~~--~~~~i~l~~~~~~~f~~ll~~~Ytg~   85 (119)
T 2q81_A           55 MLFVD--QKDVVHLDISNAAGLGQVLEFMYTAK   85 (119)
T ss_dssp             HHHHH--CCSGGGGGGCCHHHHHHHHHHHHHSC
T ss_pred             HHHcC--CCCEEEeCCCCHHHHHHHHHHHcCCC
Confidence            55554  34578899999999999999997654

>3ohu_A Transcription regulator protein BACH2; BTB/POZ domain; 2.10A {Homo sapiens} SCOP: d.42.1.0 PDB: 3ohv_A

Probab=80.78  E-value=2.5  Score=23.87  Aligned_cols=32  Identities=16%  Similarity=0.221  Sum_probs=23.8

Q ss_pred             HHHHhcC-CCCcccCCC-CCHHHHHHHHHHHHHc
Q 040579           12 HMIEDDC-AVDRIPLPN-VTIKIFYKAIKYCNKH   43 (72)
Q Consensus        12 ~~i~~~~-~~~~Iplpn-V~~~~L~kViewc~~H   43 (72)
                      .|+.... ....|.|++ |+..+++.+++|+.--
T Consensus        60 ~~f~~~~~e~~~i~l~~~~~~~~f~~~l~~iYtg   93 (125)
T 3ohu_A           60 QALVGQTKNDLVVSLPEEVTARGFGPLLQFAYTA   93 (125)
T ss_dssp             HHHTTCCCSSCEEECCTTCCHHHHHHHHHHHTTS
T ss_pred             HHhcCCCCCCcEEEeCCCCCHHHHHHHHHhHcCC
Confidence            5554322 245799998 9999999999998643

---

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	72
d1fs1b2	61	d.42.1.1 (B:2-68) Cyclin A/CDK2-associated p45, Sk	4e-08
d1nexa2	72	d.42.1.1 (A:4-103) Centromere DNA-binding protein	5e-07
d1hv2a_	99	d.42.1.1 (A:) Elongin C {Baker's yeast (Saccharomy	5e-05
d2c9wc1	96	d.42.1.1 (C:17-112) Elongin C {Human (Homo sapiens	7e-05

>d1fs1b2 d.42.1.1 (B:2-68) Cyclin A/CDK2-associated p45, Skp1 {Human (Homo sapiens) [TaxId: 9606]} Length = 61

class: Alpha and beta proteins (a+b)
fold: POZ domain
superfamily: POZ domain
family: BTB/POZ domain
domain: Cyclin A/CDK2-associated p45, Skp1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.8 bits (101), Expect = 4e-08
 Identities = 22/55 (40%), Positives = 28/55 (50%), Gaps = 14/55 (25%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKH 43
          L+SSDGE+FE              M+ED    D +PLPNV   I  K I++C  H
Sbjct: 5  LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGM-DPVPLPNVNAAILKKVIQWCTHH 58

>d1nexa2 d.42.1.1 (A:4-103) Centromere DNA-binding protein complex Cbf3 subunit D, CBF3D {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 72

class: Alpha and beta proteins (a+b)
fold: POZ domain
superfamily: POZ domain
family: BTB/POZ domain
domain: Centromere DNA-binding protein complex Cbf3 subunit D, CBF3D
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.2 bits (94), Expect = 5e-07
 Identities = 14/62 (22%), Positives = 22/62 (35%), Gaps = 20/62 (32%)

Query: 2  LKSSDGEVFE-------------HMIED-------DCAVDRIPLPNVTIKIFYKAIKYCN 41
          L S +GE F              + + D       D     +P+PNV   +  K I++  
Sbjct: 5  LVSGEGERFTVDKKIAERSLLLKNYLNDMGDDDDEDDDEIVMPVPNVRSSVLQKVIEWAE 64

Query: 42 KH 43
           H
Sbjct: 65 HH 66

>d1hv2a_ d.42.1.1 (A:) Elongin C {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 99

class: Alpha and beta proteins (a+b)
fold: POZ domain
superfamily: POZ domain
family: BTB/POZ domain
domain: Elongin C
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.9 bits (83), Expect = 5e-05
 Identities = 17/81 (20%), Positives = 27/81 (33%), Gaps = 20/81 (24%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVD--RIPLPNVTIKIFYKAIKYCNKHDEA 46
          L S D + +E              MIE        RI L      I  KA++Y N +   
Sbjct: 8  LVSKDDKEYEISRSAAMISPTLKAMIEGPFRESKGRIELKQFDSHILEKAVEYLNYN--- 64

Query: 47 SMFDDLATTSIDDDLKAWDAD 67
                  +  DD++  ++  
Sbjct: 65 --LKYSGVSEDDDEIPEFEIP 83

>d2c9wc1 d.42.1.1 (C:17-112) Elongin C {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: POZ domain
superfamily: POZ domain
family: BTB/POZ domain
domain: Elongin C
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.5 bits (82), Expect = 7e-05
 Identities = 9/60 (15%), Positives = 13/60 (21%), Gaps = 18/60 (30%)

Query: 2  LKSSDGEVFE-------------HMIEDDCAVD-----RIPLPNVTIKIFYKAIKYCNKH 43
          L SSDG  F               M+             +    +   +  K   Y    
Sbjct: 5  LISSDGHEFIVKREHALTSGTIKAMLSGPGQFAENETNEVNFREIPSHVLSKVCMYFTYK 64

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	72
d1nexa2	72	Centromere DNA-binding protein complex Cbf3 subuni	99.84
d1fs1b2	61	Cyclin A/CDK2-associated p45, Skp1 {Human (Homo sa	99.83
d1hv2a_	99	Elongin C {Baker's yeast (Saccharomyces cerevisiae	99.75
d2c9wc1	96	Elongin C {Human (Homo sapiens) [TaxId: 9606]}	99.74

>d1nexa2 d.42.1.1 (A:4-103) Centromere DNA-binding protein complex Cbf3 subunit D, CBF3D {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: POZ domain
superfamily: POZ domain
family: BTB/POZ domain
domain: Centromere DNA-binding protein complex Cbf3 subunit D, CBF3D
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.84  E-value=6.5e-23  Score=113.61  Aligned_cols=49  Identities=27%  Similarity=0.489  Sum_probs=39.5

Q ss_pred             CeecCChhHHH-------------HHHHhcCC-------CCcccCCCCCHHHHHHHHHHHHHcCCCCCC
Q 040579            1 MLKSSDGEVFE-------------HMIEDDCA-------VDRIPLPNVTIKIFYKAIKYCNKHDEASMF   49 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~~-------~~~IplpnV~~~~L~kViewc~~H~~~~~~   49 (72)
                      +|+|+||++|.             +||++.+.       ..+||||||+|.+|+|||+||+||+++|+|
T Consensus         4 ~L~SsDg~~F~v~~~~a~~S~tIk~ml~~~~~~~~~~~~~~~Ipl~~V~s~iL~kVieyc~~H~~dp~P   72 (72)
T d1nexa2           4 VLVSGEGERFTVDKKIAERSLLLKNYLNDMGDDDDEDDDEIVMPVPNVRSSVLQKVIEWAEHHRDSNFP   72 (72)
T ss_dssp             EEECTTSCEEEEEHHHHTTSHHHHHTC-------------CEEECTTCCHHHHHHHHHHHHHTTTCCCC
T ss_pred             EEEeCCCCEEEecHHHHHHHHHHHHHHHhcCccccccCCCCcccCCCcCHHHHHHHHHHHHHccCCCCC
Confidence            59999999999             66665531       247999999999999999999999999865

>d1fs1b2 d.42.1.1 (B:2-68) Cyclin A/CDK2-associated p45, Skp1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: POZ domain
superfamily: POZ domain
family: BTB/POZ domain
domain: Cyclin A/CDK2-associated p45, Skp1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=7.1e-22  Score=106.45  Aligned_cols=45  Identities=49%  Similarity=0.879  Sum_probs=40.5

Q ss_pred             CeecCChhHHH-------------HHHHhcCCCCcccCCCCCHHHHHHHHHHHHHcCCC
Q 040579            1 MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEA   46 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~~~~~IplpnV~~~~L~kViewc~~H~~~   46 (72)
                      +|+||||++|.             +|+++.+ .++||||||+|.+|+||||||+||+++
T Consensus         4 ~L~SsDg~~f~v~~~~a~~S~tI~~ml~~~~-~~~Ipl~~V~s~iL~kVieyc~~H~~d   61 (61)
T d1fs1b2           4 KLQSSDGEIFEVDVEIAKQSVTIKTMLEDLG-MDPVPLPNVNAAILKKVIQWCTHHKDD   61 (61)
T ss_dssp             EEECTTSCEEEEEGGGGGTCHHHHHHHHHTC-CSSEECTTCCHHHHHHHHHHHHHHTTC
T ss_pred             EEEecCCCEEEecHHHHHHhHHHHHHHhcCC-CCCcccCCcCHHHHHHHHHHHHHccCC
Confidence            58999999999             8888754 568999999999999999999999874

>d1hv2a_ d.42.1.1 (A:) Elongin C {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: POZ domain
superfamily: POZ domain
family: BTB/POZ domain
domain: Elongin C
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.75  E-value=2.7e-20  Score=108.00  Aligned_cols=60  Identities=30%  Similarity=0.409  Sum_probs=47.1

Q ss_pred             CeecCChhHHH-------------HHHHhcC--CCCcccCCCCCHHHHHHHHHHHHHcCCCCCCccccCCCCCCCcChhh
Q 040579            1 MLKSSDGEVFE-------------HMIEDDC--AVDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLATTSIDDDLKAWD   65 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~--~~~~IplpnV~~~~L~kViewc~~H~~~~~~~~~~~~~~~~~i~~WD   65 (72)
                      +|+||||+.|.             +||++.+  .+.+||||||+|.+|+|||+||+||+.++....     ....+++||
T Consensus         7 ~L~SsDg~~f~V~~~~A~~S~tI~~ml~~~~~e~~~~Ipl~~V~s~iL~kViey~~~h~~~~~~~~-----~~~~~~efd   81 (99)
T d1hv2a_           7 TLVSKDDKEYEISRSAAMISPTLKAMIEGPFRESKGRIELKQFDSHILEKAVEYLNYNLKYSGVSE-----DDDEIPEFE   81 (99)
T ss_dssp             EEEETTTEEEEEEHHHHTTCHHHHHHHHSSTTTCTTEEEETTSCHHHHHHHHHHHHHHHHHHHHCS-----SCSSCCCCC
T ss_pred             EEEcCCCCEEEeeHHHHHHhHHHHHHHHccCCCCcCccccCCCChHHHHHHHHHHHHhhhCcCccc-----ccccCCCCC
Confidence            58999999998             7777754  356899999999999999999999998754322     223466675

>d2c9wc1 d.42.1.1 (C:17-112) Elongin C {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: POZ domain
superfamily: POZ domain
family: BTB/POZ domain
domain: Elongin C
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=6e-20  Score=106.13  Aligned_cols=48  Identities=19%  Similarity=0.254  Sum_probs=36.8

Q ss_pred             CeecCChhHHH-------------HHHHhcC-----CCCcccCCCCCHHHHHHHHHHHHHcCCCCC
Q 040579            1 MLKSSDGEVFE-------------HMIEDDC-----AVDRIPLPNVTIKIFYKAIKYCNKHDEASM   48 (72)
Q Consensus         1 ~L~SsDg~~f~-------------~~i~~~~-----~~~~IplpnV~~~~L~kViewc~~H~~~~~   48 (72)
                      +|+|+||..|.             +||++.+     ...+||||||+|.+|+||||||+||+..+.
T Consensus         4 ~L~SsDg~~f~V~~~~A~~S~tI~~ml~~~~~~~e~~~~~IpL~nV~s~iL~kViey~~~h~~~~~   69 (96)
T d2c9wc1           4 KLISSDGHEFIVKREHALTSGTIKAMLSGPGQFAENETNEVNFREIPSHVLSKVCMYFTYKVRYTN   69 (96)
T ss_dssp             EEECTTCCEEEEEHHHHTTSHHHHHC------------CEEECTTCCHHHHHHHHHHHHHHHHTC-
T ss_pred             EEEcCCCCEEEeeHHHHHHhHHHHHHHhccCccccCCCCeeECCCCCHHHHHHHHHHHHhhccCcC
Confidence            59999999999             6666543     235899999999999999999999988753