NCBI Conserved Domain Search

Conserved domains on [gi|1115234216|pdb|5LXY|J]

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Chain J, Zinc finger CCHC domain-containing protein 8

Protein Classification

Graphical summary

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List of domain hits

Name

Accession

Description

Interval

E-value

PSP super family

cl02643

PSP; Proline rich domain found in numerous spliceosome associated proteins.

6-44

9.21e-16

PSP; Proline rich domain found in numerous spliceosome associated proteins.

The actual alignment was detected with superfamily member smart00581:

Pssm-ID: 470641 Cd Length: 54 Bit Score: 62.76 E-value: 9.21e-16

                          10        20        30
                  ....*....|....*....|....*....|....*....
5LXY_J          6 RFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL 44
Cdd:smart00581  3 HFKPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYP 41

Name

Accession

Description

Interval

E-value

PSP

smart00581

proline-rich domain in spliceosome associated proteins;

6-44

9.21e-16

proline-rich domain in spliceosome associated proteins;

Pssm-ID: 128850 Cd Length: 54 Bit Score: 62.76 E-value: 9.21e-16

                          10        20        30
                  ....*....|....*....|....*....|....*....
5LXY_J          6 RFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL 44
Cdd:smart00581  3 HFKPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYP 41

PSP

pfam04046

PSP; Proline rich domain found in numerous spliceosome associated proteins.

8-43

1.22e-15

PSP; Proline rich domain found in numerous spliceosome associated proteins.

Pssm-ID: 461145 Cd Length: 46 Bit Score: 62.07 E-value: 1.22e-15

                         10        20        30
                 ....*....|....*....|....*....|....*.
5LXY_J         8 KPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGW 43
Cdd:pfam04046  1 KPGKLSDELREALGLPEGQPPPWLYRMQRLGPPPSY 36

CUS1

COG5182

Splicing factor 3b, subunit 2 [RNA processing and modification];

8-43

2.89e-07

Splicing factor 3b, subunit 2 [RNA processing and modification];

Pssm-ID: 227509 [Multi-domain] Cd Length: 429 Bit Score: 44.21 E-value: 2.89e-07

                        10        20        30
                ....*....|....*....|....*....|....*.
5LXY_J        8 KPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGW 43
Cdd:COG5182 279 RPGAISAELREALGIDSGTPPPWLFNMQKHGMPPSY 314

Name

Accession

Description

Interval

E-value

PSP

smart00581

proline-rich domain in spliceosome associated proteins;

6-44

9.21e-16

proline-rich domain in spliceosome associated proteins;

Pssm-ID: 128850 Cd Length: 54 Bit Score: 62.76 E-value: 9.21e-16

                          10        20        30
                  ....*....|....*....|....*....|....*....
5LXY_J          6 RFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL 44
Cdd:smart00581  3 HFKPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYP 41

PSP

pfam04046

PSP; Proline rich domain found in numerous spliceosome associated proteins.

8-43

1.22e-15

PSP; Proline rich domain found in numerous spliceosome associated proteins.

Pssm-ID: 461145 Cd Length: 46 Bit Score: 62.07 E-value: 1.22e-15

                         10        20        30
                 ....*....|....*....|....*....|....*.
5LXY_J         8 KPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGW 43
Cdd:pfam04046  1 KPGKLSDELREALGLPEGQPPPWLYRMQRLGPPPSY 36

CUS1

COG5182

Splicing factor 3b, subunit 2 [RNA processing and modification];

8-43

2.89e-07

Splicing factor 3b, subunit 2 [RNA processing and modification];

Pssm-ID: 227509 [Multi-domain] Cd Length: 429 Bit Score: 44.21 E-value: 2.89e-07

                        10        20        30
                ....*....|....*....|....*....|....*.
5LXY_J        8 KPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGW 43
Cdd:COG5182 279 RPGAISAELREALGIDSGTPPPWLFNMQKHGMPPSY 314

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