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Conserved domains on  [gi|1735197678|gb|KAA0039476|]
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uncharacterized protein E6C27_scaffold64G002900 [Cucumis melo var. makuwa]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Retrotrans_gag pfam03732
Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a ...
 196-292 4.75e-18

Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.


:

Pssm-ID: 367628  Cd Length: 97  Bit Score: 78.91  E-value: 4.75e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1735197678 196 LAAFLLQNGAEDWWRMEEsRRRTTGDISWDEFKKAFFDKFYPRSFRDAKRNEFLRLTQGSMTVAEYEKKYTELSKYATRV 275
Cdd:pfam03732   2 LAVHSLRGAALTWWKSLV-ARSIDAFDSWDELKDAFLKRFFPSIRKDLLRNELRSLRQGTESVREYVERFKRLARQLPHH 80

                          90
                  ....*....|....*..
gi 1735197678 276 IEDEVERYKRFEEGLRE 292
Cdd:pfam03732  81 GRDEEALISAFLRGLRP 97
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 415-431 1.93e-07

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


:

Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 46.75  E-value: 1.93e-07
                          10
                  ....*....|....*..
gi 1735197678 415 VCYNCGQPGHYRRDCPH 431
Cdd:pfam00098   2 KCYNCGEPGHIARDCPK 18
PTZ00368 super family cl31762
universal minicircle sequence binding protein (UMSBP); Provisional
 399-438 2.30e-05

universal minicircle sequence binding protein (UMSBP); Provisional


The actual alignment was detected with superfamily member PTZ00368:

Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 44.41  E-value: 2.30e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1735197678 399 HIAR--SDRVVSESCKSSVCYNCGQPGHYRRDCPHLIPGGNT 438
Cdd:PTZ00368   11 HQSRecPNSAPAGAAKARPCYKCGEPGHLSRECPSAPGGRGE 52
 
Name Accession Description Interval E-value
Retrotrans_gag pfam03732
Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a ...
 196-292 4.75e-18

Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.


Pssm-ID: 367628  Cd Length: 97  Bit Score: 78.91  E-value: 4.75e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1735197678 196 LAAFLLQNGAEDWWRMEEsRRRTTGDISWDEFKKAFFDKFYPRSFRDAKRNEFLRLTQGSMTVAEYEKKYTELSKYATRV 275
Cdd:pfam03732   2 LAVHSLRGAALTWWKSLV-ARSIDAFDSWDELKDAFLKRFFPSIRKDLLRNELRSLRQGTESVREYVERFKRLARQLPHH 80

                          90
                  ....*....|....*..
gi 1735197678 276 IEDEVERYKRFEEGLRE 292
Cdd:pfam03732  81 GRDEEALISAFLRGLRP 97
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 415-431 1.93e-07

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 46.75  E-value: 1.93e-07
                          10
                  ....*....|....*..
gi 1735197678 415 VCYNCGQPGHYRRDCPH 431
Cdd:pfam00098   2 KCYNCGEPGHIARDCPK 18
ZnF_C2HC smart00343
zinc finger;
415-431 2.96e-06

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 43.59  E-value: 2.96e-06
                           10
                   ....*....|....*..
gi 1735197678  415 VCYNCGQPGHYRRDCPH 431
Cdd:smart00343   1 KCYNCGKEGHIARDCPS 17
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 407-439 7.73e-06

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 45.57  E-value: 7.73e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1735197678 407 VSESCKSSV-------CYNCGQPGHYRRDCPHLIPGGNTI 439
Cdd:PTZ00368   39 LSRECPSAPggrgersCYNCGKTGHLSRECPEAPPGSGPR 78
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 399-438 2.30e-05

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 44.41  E-value: 2.30e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1735197678 399 HIAR--SDRVVSESCKSSVCYNCGQPGHYRRDCPHLIPGGNT 438
Cdd:PTZ00368   11 HQSRecPNSAPAGAAKARPCYKCGEPGHLSRECPSAPGGRGE 52
AIR1 COG5082
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 411-433 7.64e-05

Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion];


Pssm-ID: 227414 [Multi-domain]  Cd Length: 190  Bit Score: 43.30  E-value: 7.64e-05
                          10        20
                  ....*....|....*....|...
gi 1735197678 411 CKSSVCYNCGQPGHYRRDCPHLI 433
Cdd:COG5082    58 EENPVCFNCGQNGHLRRDCPHSI 80
 
Name Accession Description Interval E-value
Retrotrans_gag pfam03732
Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a ...
 196-292 4.75e-18

Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.


Pssm-ID: 367628  Cd Length: 97  Bit Score: 78.91  E-value: 4.75e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1735197678 196 LAAFLLQNGAEDWWRMEEsRRRTTGDISWDEFKKAFFDKFYPRSFRDAKRNEFLRLTQGSMTVAEYEKKYTELSKYATRV 275
Cdd:pfam03732   2 LAVHSLRGAALTWWKSLV-ARSIDAFDSWDELKDAFLKRFFPSIRKDLLRNELRSLRQGTESVREYVERFKRLARQLPHH 80

                          90
                  ....*....|....*..
gi 1735197678 276 IEDEVERYKRFEEGLRE 292
Cdd:pfam03732  81 GRDEEALISAFLRGLRP 97
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 415-431 1.93e-07

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 46.75  E-value: 1.93e-07
                          10
                  ....*....|....*..
gi 1735197678 415 VCYNCGQPGHYRRDCPH 431
Cdd:pfam00098   2 KCYNCGEPGHIARDCPK 18
ZnF_C2HC smart00343
zinc finger;
415-431 2.96e-06

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 43.59  E-value: 2.96e-06
                           10
                   ....*....|....*..
gi 1735197678  415 VCYNCGQPGHYRRDCPH 431
Cdd:smart00343   1 KCYNCGKEGHIARDCPS 17
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 407-439 7.73e-06

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 45.57  E-value: 7.73e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1735197678 407 VSESCKSSV-------CYNCGQPGHYRRDCPHLIPGGNTI 439
Cdd:PTZ00368   39 LSRECPSAPggrgersCYNCGKTGHLSRECPEAPPGSGPR 78
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 399-438 2.30e-05

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 44.41  E-value: 2.30e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1735197678 399 HIAR--SDRVVSESCKSSVCYNCGQPGHYRRDCPHLIPGGNT 438
Cdd:PTZ00368   11 HQSRecPNSAPAGAAKARPCYKCGEPGHLSRECPSAPGGRGE 52
AIR1 COG5082
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 411-433 7.64e-05

Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion];


Pssm-ID: 227414 [Multi-domain]  Cd Length: 190  Bit Score: 43.30  E-value: 7.64e-05
                          10        20
                  ....*....|....*....|...
gi 1735197678 411 CKSSVCYNCGQPGHYRRDCPHLI 433
Cdd:COG5082    58 EENPVCFNCGQNGHLRRDCPHSI 80
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 399-430 9.72e-05

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 42.49  E-value: 9.72e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1735197678 399 HIARS-DRVVSESCKSSVCYNCGQPGHYRRDCP 430
Cdd:PTZ00368  114 HISRDcPNAGKRPGGDKTCYNCGQTGHLSRDCP 146
zf-CCHC_2 pfam13696
Zinc knuckle; This is a zinc-binding domain of the form CxxCxxxGHxxxxC from a variety of ...
 415-430 1.96e-04

Zinc knuckle; This is a zinc-binding domain of the form CxxCxxxGHxxxxC from a variety of different species.


Pssm-ID: 463959 [Multi-domain]  Cd Length: 21  Bit Score: 38.26  E-value: 1.96e-04
                          10
                  ....*....|....*.
gi 1735197678 415 VCYNCGQPGHYRRDCP 430
Cdd:pfam13696   5 VCHICGKKGHYIQDCP 20
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 399-436 2.67e-04

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 41.33  E-value: 2.67e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1735197678 399 HIARSDRVVSESCKSSVCYNCGQPGHYRRDCPHLIPGG 436
Cdd:PTZ00368   63 HLSRECPEAPPGSGPRSCYNCGQTGHISRECPNRAKGG 100
Ty3_capsid pfam19259
Ty3 transposon capsid-like protein; This entry corresponds to the capsid protein found in the ...
 162-268 3.48e-04

Ty3 transposon capsid-like protein; This entry corresponds to the capsid protein found in the Ty3 transposons of yeast as well as other transposable elements.


Pssm-ID: 437091 [Multi-domain]  Cd Length: 197  Bit Score: 41.69  E-value: 3.48e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1735197678 162 TFAGTTNPTDVEAWLTLIEKCFRVTRCPED-RKVELAAFLLQNGAEDW---WRMEESRRrttgDISWDEFKKAFFDKFYP 237
Cdd:pfam19259  16 PFRGRKDVLKLKSFISEIMLQMSMIFWPNDaERIVFCARHLTGPAAQWfhdFVQEQGIL----DATFDTFIKAFKQHFYG 91

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1735197678 238 RSFRDAKRNEFLRLTQGSMTVAEYEKKYTEL 268
Cdd:pfam19259  92 KPDINKLFNDIVNLSEAKLGIERYNSHFNRL 122
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 416-430 5.53e-03

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 37.48  E-value: 5.53e-03
                          10
                  ....*....|....*
gi 1735197678 416 CYNCGQPGHYRRDCP 430
Cdd:PTZ00368  106 CYNCGGEGHISRDCP 120
AIR1 COG5082
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 412-430 8.77e-03

Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion];


Pssm-ID: 227414 [Multi-domain]  Cd Length: 190  Bit Score: 37.14  E-value: 8.77e-03
                          10
                  ....*....|....*....
gi 1735197678 412 KSSVCYNCGQPGHYRRDCP 430
Cdd:COG5082    96 KPKKCYNCGETGHLSRDCN 114
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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