Pfam: Results for Userseq

Protein families database of alignments and HMMs

Results for Userseq

Trusted matches - domains scoring higher than the gathering threshold

Domain Start End Bits Evalue Alignment Mode

BIR 133 198 117.50 2.2e-32 Align ls
BIR 270 335 137.90 1.6e-38 Align ls
BIR 372 435 123.80 2.9e-34 Align ls

Domain	Start	End	Bits	Evalue	Alignment	Mode
BIR	133	198	117.50	2.2e-32	Align	ls
BIR	270	335	137.90	1.6e-38	Align	ls
BIR	372	435	123.80	2.9e-34	Align	ls

Matches to Pfam-B

Domain Start End Alignment

Pfam-B_16749 105 132 Align
Pfam-B_16718 199 241 Align
Pfam-B_12032 242 269 Align
Pfam-B_14434 336 371 Align
Pfam-B_8509 485 549 Align
Pfam-B_105 552 599 Align

Domain	Start	End	Alignment
Pfam-B_16749	105	132	Align
Pfam-B_16718	199	241	Align
Pfam-B_12032	242	269	Align
Pfam-B_14434	336	371	Align
Pfam-B_8509	485	549	Align
Pfam-B_105	552	599	Align

[602 residues]

BIR 133-198
BIR 270-335
BIR 372-435

Potential matches - Domains with Evalues above the cutoff

Domain Start End Bits Evalue Alignment Mode

zf-C3HC4 554 588 9.90 0.0024 Align ls
SWIRM 269 290 4.30 0.8 Align fs
Herpes_U44 507 525 3.20 0.38 Align fs
Mod_r 545 553 3.90 0.33 Align fs

Domain	Start	End	Bits	Evalue	Alignment	Mode
zf-C3HC4	554	588	9.90	0.0024	Align	ls
SWIRM	269	290	4.30	0.8	Align	fs
Herpes_U44	507	525	3.20	0.38	Align	fs
Mod_r	545	553	3.90	0.33	Align	fs

Alignments of Pfam-A domains to HMMs

Format for fetching alignments to seed

Alignment of BIR vs hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/133-198

                   *->RlkTFqnkkWPisnlqsshctpeqLAkAGFyytgvgDevDsArCffC
                      RlkTF+n  +P  +++s    +++LA+AGF ytg gD v   rCf+C
  hg16_dna_2   133    RLKTFAN--FPSGSPVS----ASTLARAGFLYTGEGDTV---RCFSC 170  

                   gveLknWepgDdPweeHkrwsPnCpFvl<-*
                   +  +++W++gD +  +H+++sPnC+F++   
  hg16_dna_2   171 HAAVDRWQYGDSAVGRHRKVSPNCRFIN    198

Alignment of BIR vs hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/270-335

                   *->RlkTFqnkkWPisnlqsshctpeqLAkAGFyytgvgDevDsArCffC
                      Rlk+Fqn  WP + +      p++LA AG+yytg+gD+v   +Cf+C
  hg16_dna_2   270    RLKSFQN--WPDYAHLT----PRELASAGLYYTGIGDQV---QCFCC 307  

                   gveLknWepgDdPweeHkrwsPnCpFvl<-*
                   g++LknWep+D +w+eH+r++PnC Fvl   
  hg16_dna_2   308 GGKLKNWEPCDRAWSEHRRHFPNCFFVL    335

Alignment of BIR vs hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/372-435

                   *->RlkTFqnkkWPisnlqsshctpeqLAkAGFyytgvgDevDsArCffC
                      R++TF +  W +s++       eqLA+AGFy +g gD+v   +Cf+C
  hg16_dna_2   372    RIFTFGT--WIYSVNK------EQLARAGFYALGEGDKV---KCFHC 407  

                   gveLknWepgDdPweeHkrwsPnCpFvl<-*
                   g++L++W+p++dPwe+H++w+P C ++l   
  hg16_dna_2   408 GGGLTDWKPSEDPWEQHAKWYPGCKYLL    435

Alignment of zf-C3HC4 vs hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/554-588

                   *->CrICleelkepsndfplilpCgHsGslkyfCrsClerWlsssgnttv
                      C IC++     +     + pCgH     + C+ C e   +       
  hg16_dna_2   554    CKICMDRNIAIV-----FVPCGHL----VTCKQCAEAVDK------- 584  

                   kCplC<-*
                    Cp+C   
  hg16_dna_2   585 -CPMC    588

Alignment of SWIRM vs hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/269-290

                   *->iaepsyaawldlsaihpiElls<-*
                       + +s+++w d+ +++p+El+s   
  hg16_dna_2   269    ARLKSFQNWPDYAHLTPRELAS    290

Alignment of Herpes_U44 vs hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/507-525

                   *->nfkdlGvtsaDllefdRDs<-*
                      n+k l+v+ aDl + ++Ds   
  hg16_dna_2   507    NYKSLEVLVADLVNAQKDS    525

Alignment of Mod_r vs hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/545-553

                   *->lRRaKeEKL<-*
                      lRR++eEKL   
  hg16_dna_2   545    LRRLQEEKL    553

Alignments of Pfam-B domains to best-matching to Pfam-B sequence

Format for fetching alignments to Pfam-B families:

Query hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/105-132 matching Pfam-B_16749

                                                  temp 105 MTFNSFEGSKTCVPADINKEEEFVEEFN 132
                                                           MTFNSFEGSKTCVPADINKEEEFVEEFN
     hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA 105 MTFNSFEGSKTCVPADINKEEEFVEEFN 132

Query hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/199-241 matching Pfam-B_16718

                                                  temp 199 GFYLENSATQSTNSGIQNGQYKVENYLGSRDHFALDRPSETHA 241
                                                           GFYLENSATQSTNSGIQNGQYKVENYLGSRDHFALDRPSETHA
     hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA 199 GFYLENSATQSTNSGIQNGQYKVENYLGSRDHFALDRPSETHA 241

Query hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/242-269 matching Pfam-B_12032

                                                  temp 242 DYLLRTGQVVDISDTIYPRNPAMYSEEA 269
                                                           DYLLRTGQVVDISDTIYPRNPAMYSEEA
     hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA 242 DYLLRTGQVVDISDTIYPRNPAMYSEEA 269

Query hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/336-371 matching Pfam-B_14434

                                                  temp 336 GRNLNIRSESDAVSSDRNFPNSTNLPRNPSMADYEA 371
                                                           GRNLNIRSESDAVSSDRNFPNSTNLPRNPSMADYEA
     hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA 336 GRNLNIRSESDAVSSDRNFPNSTNLPRNPSMADYEA 371

Query hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/485-549 matching Pfam-B_8509

                                                  temp 485 RMGFSFKDIKKIMEEKIQISGSNYKSLEVLVADLVNAQKDSMQDESSQTS 534
                                                           RMGFSFKDIKKIMEEKIQISGSNYKSLEVLVADLVNAQKDSMQDESSQTS
     hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA 485 RMGFSFKDIKKIMEEKIQISGSNYKSLEVLVADLVNAQKDSMQDESSQTS 534

                                                  temp 535 LQKEISTEEQLRRLQ 549
                                                           LQKEISTEEQLRRLQ
     hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA 535 LQKEISTEEQLRRLQ 549

Query hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA/552-599 matching Pfam-B_105

                                                  temp 552 KLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIF 599
                                                           KLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIF
     hg16_dna_2|geneid_v1.1_predicted_protein_2|602_AA 552 KLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIF 599

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