NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|297374764|ref|NP_001172003|]
View 

terminal uridylyltransferase 7 isoform 2 [Homo sapiens]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
TUTase super family cl41074
TUTase nucleotidyltransferase domain; This nucleotidyltransferase domain is found in TUTase ...
 194-361 3.02e-84

TUTase nucleotidyltransferase domain; This nucleotidyltransferase domain is found in TUTase enzymes. Terminal uridyltransferases (TUTases) execute 3' RNA uridylation across protists, fungi, metazoan and plant species.


The actual alignment was detected with superfamily member pfam19088:

Pssm-ID: 465974  Cd Length: 218  Bit Score: 273.55  E-value: 3.02e-84
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764   194 EQDGDLEGPVIDESVLSTKELLGLQQAEERLKRDCIDRLKRRPRNYPTAKYTCRLCDVLIESIAFAHKHIKEKRHKKNIK 273
Cdd:pfam19088    1 DQDEDEDGPVIDESNLTAEQQLGLRQAEERLKRDYIHRLKKRSPEYPNFQYLCKLCSVHIENIQGAHKHIKEKRHKKNIM 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764   274 EKQEEELLTTLPPPTPSQINAVGIAIDKVVQEFGLHNENLEQRLEIKRIMENVFQHKLPDCSLRLYGSSCSRLGFKNSDV 353
Cdd:pfam19088   81 EKQEENELRALPPPSPAQLKALGAAVLEVAQEHGISDEDFEVRQEIVTRMEKIIQQHLPDCSLRLYGSCLTRFAFKTSDI 160


                   ....*...
gi 297374764   354 NIDIQFPA 361
Cdd:pfam19088  161 NIDVQFPS 168
TUTF7_u4 pfam16631
Unstructured region 4 on terminal uridylyltransferase 7; TUTF7_u4 is the fourth natively ...
 1135-1214 4.62e-42

Unstructured region 4 on terminal uridylyltransferase 7; TUTF7_u4 is the fourth natively unstructured region found on a set of higher eukaryote Terminal uridylyltransferase 7 proteins. The function is not known. The region is rich in arginine and lysine.


:

Pssm-ID: 465208  Cd Length: 88  Bit Score: 148.46  E-value: 4.62e-42
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764  1135 DQEDALNQRYPENKEKRSKEDKEIHNKYTEREVSTKEDKPIQCTPQKAKPMRAAADLGREKILRPPVEKWKRQDDKDLRE 1214
Cdd:pfam16631    9 DQEDTKNQRYPENKEKRSKEDKEIQNKYTEKEVSVKEGKLHPCTPQKAKPARAVVDTGREKSLRQSAEKWKRQDDRDLRE 88
TRF4 super family cl34961
DNA polymerase sigma [Replication, recombination and repair];
836-1074 2.80e-24

DNA polymerase sigma [Replication, recombination and repair];


The actual alignment was detected with superfamily member COG5260:

Pssm-ID: 227585 [Multi-domain]  Cd Length: 482  Bit Score: 108.32  E-value: 2.80e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764  836 KGLDCVRTIEELARVLRKHSGLRNILpITTAKVPIVKFFHLRSGLEVDISLYNTLALHNTRLLSAYSAIDPRVKYLCYTM 915
Cdd:COG5260   125 GYKETRNAGSLASHLFKKNLAKEVVV-VSTARVPIIKLVDPQSGLHCDISFNNTNGIVNAKLIRSYLKEDPRLRPLVLII 203

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764  916 KVFTKMCDIGDASRGSLSSYAYTLMVLYFLQQRNPPviPVLQEIYKGEKKPEIFVDGWNIYFFDqidelptywsecgknt 995
Cdd:COG5260   204 KHWLKRRALNDVATGTLSSYTISCMVLSFLQMHPPF--LFFDNGLLSPLKYNKNIDNLGVLFDD---------------- 265

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764  996 esvgqlwlgLLRFYTEEFDFKEHVISIRR-KSLLTTFKKQW----TSKYIVIEDPF-DLNHNLGAGlSRKMtNFIMKAFI 1069
Cdd:COG5260   266 ---------FFELYGKSFNYSLVVLSINSgDFYLPKYEKGWlkpsKPNSLSIQDPGtDRNNDISAV-SFNI-KDIKAAFI 334


                  ....*
gi 297374764 1070 NGRRV 1074
Cdd:COG5260   335 RAFEL 339
PAP_assoc pfam03828
Cid1 family poly A polymerase; This domain is found in poly(A) polymerases and has been shown ...
 427-476 1.80e-11

Cid1 family poly A polymerase; This domain is found in poly(A) polymerases and has been shown to have polynucleotide adenylyltransferase activity. Proteins in this family have been located to both the nucleus and the cytoplasm.


:

Pssm-ID: 427532  Cd Length: 60  Bit Score: 60.28  E-value: 1.80e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 297374764   427 PVGQLWVELLRFYALEFNLADLVISIRVKELVSRELKDWPK------KRIAIEDPY 476
Cdd:pfam03828    1 SLGELLIGFFEYYGREFDYENVVISIRTGGILSKKEKGWLRnegrrpFLLCIEDPF 56
ZnF_C2HC smart00343
zinc finger;
1216-1232 1.61e-03

zinc finger;


:

Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 37.04  E-value: 1.61e-03
                            10
                    ....*....|....*..
gi 297374764   1216 RCFICGREGHIKKECPQ 1232
Cdd:smart00343    1 KCYNCGKEGHIARDCPS 17
ZnF_C2HC smart00343
zinc finger;
1110-1125 3.90e-03

zinc finger;


:

Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 35.88  E-value: 3.90e-03
                            10
                    ....*....|....*.
gi 297374764   1110 CCRICGKIGHFMKDCP 1125
Cdd:smart00343    1 KCYNCGKEGHIARDCP 16
 
Name Accession Description Interval E-value
TUTase pfam19088
TUTase nucleotidyltransferase domain; This nucleotidyltransferase domain is found in TUTase ...
 194-361 3.02e-84

TUTase nucleotidyltransferase domain; This nucleotidyltransferase domain is found in TUTase enzymes. Terminal uridyltransferases (TUTases) execute 3' RNA uridylation across protists, fungi, metazoan and plant species.


Pssm-ID: 465974  Cd Length: 218  Bit Score: 273.55  E-value: 3.02e-84
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764   194 EQDGDLEGPVIDESVLSTKELLGLQQAEERLKRDCIDRLKRRPRNYPTAKYTCRLCDVLIESIAFAHKHIKEKRHKKNIK 273
Cdd:pfam19088    1 DQDEDEDGPVIDESNLTAEQQLGLRQAEERLKRDYIHRLKKRSPEYPNFQYLCKLCSVHIENIQGAHKHIKEKRHKKNIM 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764   274 EKQEEELLTTLPPPTPSQINAVGIAIDKVVQEFGLHNENLEQRLEIKRIMENVFQHKLPDCSLRLYGSSCSRLGFKNSDV 353
Cdd:pfam19088   81 EKQEENELRALPPPSPAQLKALGAAVLEVAQEHGISDEDFEVRQEIVTRMEKIIQQHLPDCSLRLYGSCLTRFAFKTSDI 160


                   ....*...
gi 297374764   354 NIDIQFPA 361
Cdd:pfam19088  161 NIDVQFPS 168
TUTF7_u4 pfam16631
Unstructured region 4 on terminal uridylyltransferase 7; TUTF7_u4 is the fourth natively ...
 1135-1214 4.62e-42

Unstructured region 4 on terminal uridylyltransferase 7; TUTF7_u4 is the fourth natively unstructured region found on a set of higher eukaryote Terminal uridylyltransferase 7 proteins. The function is not known. The region is rich in arginine and lysine.


Pssm-ID: 465208  Cd Length: 88  Bit Score: 148.46  E-value: 4.62e-42
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764  1135 DQEDALNQRYPENKEKRSKEDKEIHNKYTEREVSTKEDKPIQCTPQKAKPMRAAADLGREKILRPPVEKWKRQDDKDLRE 1214
Cdd:pfam16631    9 DQEDTKNQRYPENKEKRSKEDKEIQNKYTEKEVSVKEGKLHPCTPQKAKPARAVVDTGREKSLRQSAEKWKRQDDRDLRE 88
TRF4 COG5260
DNA polymerase sigma [Replication, recombination and repair];
836-1074 2.80e-24

DNA polymerase sigma [Replication, recombination and repair];


Pssm-ID: 227585 [Multi-domain]  Cd Length: 482  Bit Score: 108.32  E-value: 2.80e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764  836 KGLDCVRTIEELARVLRKHSGLRNILpITTAKVPIVKFFHLRSGLEVDISLYNTLALHNTRLLSAYSAIDPRVKYLCYTM 915
Cdd:COG5260   125 GYKETRNAGSLASHLFKKNLAKEVVV-VSTARVPIIKLVDPQSGLHCDISFNNTNGIVNAKLIRSYLKEDPRLRPLVLII 203

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764  916 KVFTKMCDIGDASRGSLSSYAYTLMVLYFLQQRNPPviPVLQEIYKGEKKPEIFVDGWNIYFFDqidelptywsecgknt 995
Cdd:COG5260   204 KHWLKRRALNDVATGTLSSYTISCMVLSFLQMHPPF--LFFDNGLLSPLKYNKNIDNLGVLFDD---------------- 265

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764  996 esvgqlwlgLLRFYTEEFDFKEHVISIRR-KSLLTTFKKQW----TSKYIVIEDPF-DLNHNLGAGlSRKMtNFIMKAFI 1069
Cdd:COG5260   266 ---------FFELYGKSFNYSLVVLSINSgDFYLPKYEKGWlkpsKPNSLSIQDPGtDRNNDISAV-SFNI-KDIKAAFI 334


                  ....*
gi 297374764 1070 NGRRV 1074
Cdd:COG5260   335 RAFEL 339
NT_PAP_TUTase cd05402
Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; ...
 830-902 8.42e-20

Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; Poly(A) polymerases (PAPs) catalyze mRNA poly(A) tail synthesis, and terminal uridylyl transferases (TUTases) uridylate RNA. PAPs in this subgroup include human PAP alpha, mouse testis-specific cytoplasmic PAP beta, human nuclear PAP gamma, Saccharomyces cerevisiae PAP1, TRF4 and-5, Schizosaccharomyces pombe caffeine-induced death proteins -1, and -14, Caenorhabditis elegans Germ Line Development-2, and Chlamydomonas reinhardtii MUT68. This family also includes human U6 snRNA-specific TUTase1, and Trypanosoma brucei 3'-TUTase-1,-2, and 4. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. For the majority of proteins in this family, these carboxylate residues are conserved.


Pssm-ID: 143392 [Multi-domain]  Cd Length: 114  Bit Score: 86.07  E-value: 8.42e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 297374764  830 LIFTKGKGLDCVRTIEELARVLRKHSGLRNILPITTAKVPIVKFFHLRSGLEVDISLYNTLALHNTRLLSAYS 902
Cdd:cd05402    42 CLLGPNHRVDREDFLRKLAKLLKKSGEVVEVEPIINARVPIIKFVDKPTGIEVDISFNNLNGIRNTKLLRAYV 114
PAP_assoc pfam03828
Cid1 family poly A polymerase; This domain is found in poly(A) polymerases and has been shown ...
 997-1050 4.26e-15

Cid1 family poly A polymerase; This domain is found in poly(A) polymerases and has been shown to have polynucleotide adenylyltransferase activity. Proteins in this family have been located to both the nucleus and the cytoplasm.


Pssm-ID: 427532  Cd Length: 60  Bit Score: 70.68  E-value: 4.26e-15
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764   997 SVGQLWLGLLRFYTEEFDFKEHVISIRRKSLLTTFKKQWT------SKYIVIEDPFDLNH 1050
Cdd:pfam03828    1 SLGELLIGFFEYYGREFDYENVVISIRTGGILSKKEKGWLrnegrrPFLLCIEDPFDLDN 60
PAP_assoc pfam03828
Cid1 family poly A polymerase; This domain is found in poly(A) polymerases and has been shown ...
 427-476 1.80e-11

Cid1 family poly A polymerase; This domain is found in poly(A) polymerases and has been shown to have polynucleotide adenylyltransferase activity. Proteins in this family have been located to both the nucleus and the cytoplasm.


Pssm-ID: 427532  Cd Length: 60  Bit Score: 60.28  E-value: 1.80e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 297374764   427 PVGQLWVELLRFYALEFNLADLVISIRVKELVSRELKDWPK------KRIAIEDPY 476
Cdd:pfam03828    1 SLGELLIGFFEYYGREFDYENVVISIRTGGILSKKEKGWLRnegrrpFLLCIEDPF 56
NT_PAP_TUTase cd05402
Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; ...
 315-360 8.96e-09

Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; Poly(A) polymerases (PAPs) catalyze mRNA poly(A) tail synthesis, and terminal uridylyl transferases (TUTases) uridylate RNA. PAPs in this subgroup include human PAP alpha, mouse testis-specific cytoplasmic PAP beta, human nuclear PAP gamma, Saccharomyces cerevisiae PAP1, TRF4 and-5, Schizosaccharomyces pombe caffeine-induced death proteins -1, and -14, Caenorhabditis elegans Germ Line Development-2, and Chlamydomonas reinhardtii MUT68. This family also includes human U6 snRNA-specific TUTase1, and Trypanosoma brucei 3'-TUTase-1,-2, and 4. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. For the majority of proteins in this family, these carboxylate residues are conserved.


Pssm-ID: 143392 [Multi-domain]  Cd Length: 114  Bit Score: 54.49  E-value: 8.96e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 297374764  315 QRLEIKRIMENVFQHKLPDCSLRLYGSSCSRLGFKNSDVNIDIQFP 360
Cdd:cd05402     1 KREEVLDRLQELIKEWFPGAKLYPFGSYVTGLGLPGSDIDLCLLGP 46
ZnF_C2HC smart00343
zinc finger;
1216-1232 1.61e-03

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 37.04  E-value: 1.61e-03
                            10
                    ....*....|....*..
gi 297374764   1216 RCFICGREGHIKKECPQ 1232
Cdd:smart00343    1 KCYNCGKEGHIARDCPS 17
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 1215-1232 2.34e-03

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: 36.35  E-value: 2.34e-03
                           10
                   ....*....|....*...
gi 297374764  1215 KRCFICGREGHIKKECPQ 1232
Cdd:pfam00098    1 GKCYNCGEPGHIARDCPK 18
ZnF_C2HC smart00343
zinc finger;
1110-1125 3.90e-03

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 35.88  E-value: 3.90e-03
                            10
                    ....*....|....*.
gi 297374764   1110 CCRICGKIGHFMKDCP 1125
Cdd:smart00343    1 KCYNCGKEGHIARDCP 16
 
Name Accession Description Interval E-value
TUTase pfam19088
TUTase nucleotidyltransferase domain; This nucleotidyltransferase domain is found in TUTase ...
 194-361 3.02e-84

TUTase nucleotidyltransferase domain; This nucleotidyltransferase domain is found in TUTase enzymes. Terminal uridyltransferases (TUTases) execute 3' RNA uridylation across protists, fungi, metazoan and plant species.


Pssm-ID: 465974  Cd Length: 218  Bit Score: 273.55  E-value: 3.02e-84
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764   194 EQDGDLEGPVIDESVLSTKELLGLQQAEERLKRDCIDRLKRRPRNYPTAKYTCRLCDVLIESIAFAHKHIKEKRHKKNIK 273
Cdd:pfam19088    1 DQDEDEDGPVIDESNLTAEQQLGLRQAEERLKRDYIHRLKKRSPEYPNFQYLCKLCSVHIENIQGAHKHIKEKRHKKNIM 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764   274 EKQEEELLTTLPPPTPSQINAVGIAIDKVVQEFGLHNENLEQRLEIKRIMENVFQHKLPDCSLRLYGSSCSRLGFKNSDV 353
Cdd:pfam19088   81 EKQEENELRALPPPSPAQLKALGAAVLEVAQEHGISDEDFEVRQEIVTRMEKIIQQHLPDCSLRLYGSCLTRFAFKTSDI 160


                   ....*...
gi 297374764   354 NIDIQFPA 361
Cdd:pfam19088  161 NIDVQFPS 168
TUTF7_u4 pfam16631
Unstructured region 4 on terminal uridylyltransferase 7; TUTF7_u4 is the fourth natively ...
 1135-1214 4.62e-42

Unstructured region 4 on terminal uridylyltransferase 7; TUTF7_u4 is the fourth natively unstructured region found on a set of higher eukaryote Terminal uridylyltransferase 7 proteins. The function is not known. The region is rich in arginine and lysine.


Pssm-ID: 465208  Cd Length: 88  Bit Score: 148.46  E-value: 4.62e-42
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764  1135 DQEDALNQRYPENKEKRSKEDKEIHNKYTEREVSTKEDKPIQCTPQKAKPMRAAADLGREKILRPPVEKWKRQDDKDLRE 1214
Cdd:pfam16631    9 DQEDTKNQRYPENKEKRSKEDKEIQNKYTEKEVSVKEGKLHPCTPQKAKPARAVVDTGREKSLRQSAEKWKRQDDRDLRE 88
TRF4 COG5260
DNA polymerase sigma [Replication, recombination and repair];
836-1074 2.80e-24

DNA polymerase sigma [Replication, recombination and repair];


Pssm-ID: 227585 [Multi-domain]  Cd Length: 482  Bit Score: 108.32  E-value: 2.80e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764  836 KGLDCVRTIEELARVLRKHSGLRNILpITTAKVPIVKFFHLRSGLEVDISLYNTLALHNTRLLSAYSAIDPRVKYLCYTM 915
Cdd:COG5260   125 GYKETRNAGSLASHLFKKNLAKEVVV-VSTARVPIIKLVDPQSGLHCDISFNNTNGIVNAKLIRSYLKEDPRLRPLVLII 203

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764  916 KVFTKMCDIGDASRGSLSSYAYTLMVLYFLQQRNPPviPVLQEIYKGEKKPEIFVDGWNIYFFDqidelptywsecgknt 995
Cdd:COG5260   204 KHWLKRRALNDVATGTLSSYTISCMVLSFLQMHPPF--LFFDNGLLSPLKYNKNIDNLGVLFDD---------------- 265

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764  996 esvgqlwlgLLRFYTEEFDFKEHVISIRR-KSLLTTFKKQW----TSKYIVIEDPF-DLNHNLGAGlSRKMtNFIMKAFI 1069
Cdd:COG5260   266 ---------FFELYGKSFNYSLVVLSINSgDFYLPKYEKGWlkpsKPNSLSIQDPGtDRNNDISAV-SFNI-KDIKAAFI 334


                  ....*
gi 297374764 1070 NGRRV 1074
Cdd:COG5260   335 RAFEL 339
NT_PAP_TUTase cd05402
Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; ...
 830-902 8.42e-20

Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; Poly(A) polymerases (PAPs) catalyze mRNA poly(A) tail synthesis, and terminal uridylyl transferases (TUTases) uridylate RNA. PAPs in this subgroup include human PAP alpha, mouse testis-specific cytoplasmic PAP beta, human nuclear PAP gamma, Saccharomyces cerevisiae PAP1, TRF4 and-5, Schizosaccharomyces pombe caffeine-induced death proteins -1, and -14, Caenorhabditis elegans Germ Line Development-2, and Chlamydomonas reinhardtii MUT68. This family also includes human U6 snRNA-specific TUTase1, and Trypanosoma brucei 3'-TUTase-1,-2, and 4. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. For the majority of proteins in this family, these carboxylate residues are conserved.


Pssm-ID: 143392 [Multi-domain]  Cd Length: 114  Bit Score: 86.07  E-value: 8.42e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 297374764  830 LIFTKGKGLDCVRTIEELARVLRKHSGLRNILPITTAKVPIVKFFHLRSGLEVDISLYNTLALHNTRLLSAYS 902
Cdd:cd05402    42 CLLGPNHRVDREDFLRKLAKLLKKSGEVVEVEPIINARVPIIKFVDKPTGIEVDISFNNLNGIRNTKLLRAYV 114
PAP_assoc pfam03828
Cid1 family poly A polymerase; This domain is found in poly(A) polymerases and has been shown ...
 997-1050 4.26e-15

Cid1 family poly A polymerase; This domain is found in poly(A) polymerases and has been shown to have polynucleotide adenylyltransferase activity. Proteins in this family have been located to both the nucleus and the cytoplasm.


Pssm-ID: 427532  Cd Length: 60  Bit Score: 70.68  E-value: 4.26e-15
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 297374764   997 SVGQLWLGLLRFYTEEFDFKEHVISIRRKSLLTTFKKQWT------SKYIVIEDPFDLNH 1050
Cdd:pfam03828    1 SLGELLIGFFEYYGREFDYENVVISIRTGGILSKKEKGWLrnegrrPFLLCIEDPFDLDN 60
PAP_assoc pfam03828
Cid1 family poly A polymerase; This domain is found in poly(A) polymerases and has been shown ...
 427-476 1.80e-11

Cid1 family poly A polymerase; This domain is found in poly(A) polymerases and has been shown to have polynucleotide adenylyltransferase activity. Proteins in this family have been located to both the nucleus and the cytoplasm.


Pssm-ID: 427532  Cd Length: 60  Bit Score: 60.28  E-value: 1.80e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 297374764   427 PVGQLWVELLRFYALEFNLADLVISIRVKELVSRELKDWPK------KRIAIEDPY 476
Cdd:pfam03828    1 SLGELLIGFFEYYGREFDYENVVISIRTGGILSKKEKGWLRnegrrpFLLCIEDPF 56
NT_PAP_TUTase cd05402
Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; ...
 315-360 8.96e-09

Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; Poly(A) polymerases (PAPs) catalyze mRNA poly(A) tail synthesis, and terminal uridylyl transferases (TUTases) uridylate RNA. PAPs in this subgroup include human PAP alpha, mouse testis-specific cytoplasmic PAP beta, human nuclear PAP gamma, Saccharomyces cerevisiae PAP1, TRF4 and-5, Schizosaccharomyces pombe caffeine-induced death proteins -1, and -14, Caenorhabditis elegans Germ Line Development-2, and Chlamydomonas reinhardtii MUT68. This family also includes human U6 snRNA-specific TUTase1, and Trypanosoma brucei 3'-TUTase-1,-2, and 4. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. For the majority of proteins in this family, these carboxylate residues are conserved.


Pssm-ID: 143392 [Multi-domain]  Cd Length: 114  Bit Score: 54.49  E-value: 8.96e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 297374764  315 QRLEIKRIMENVFQHKLPDCSLRLYGSSCSRLGFKNSDVNIDIQFP 360
Cdd:cd05402     1 KREEVLDRLQELIKEWFPGAKLYPFGSYVTGLGLPGSDIDLCLLGP 46
ZnF_C2HC smart00343
zinc finger;
1216-1232 1.61e-03

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 37.04  E-value: 1.61e-03
                            10
                    ....*....|....*..
gi 297374764   1216 RCFICGREGHIKKECPQ 1232
Cdd:smart00343    1 KCYNCGKEGHIARDCPS 17
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 1215-1232 2.34e-03

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: 36.35  E-value: 2.34e-03
                           10
                   ....*....|....*...
gi 297374764  1215 KRCFICGREGHIKKECPQ 1232
Cdd:pfam00098    1 GKCYNCGEPGHIARDCPK 18
ZnF_C2HC smart00343
zinc finger;
1110-1125 3.90e-03

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 35.88  E-value: 3.90e-03
                            10
                    ....*....|....*.
gi 297374764   1110 CCRICGKIGHFMKDCP 1125
Cdd:smart00343    1 KCYNCGKEGHIARDCP 16
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH