Psyllid ID: psy6666

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-----
Protein Sequence
MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEENYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFLEPPNEEEEEEDEEEEEEEAEETQQGETTEAERQEGEGGEREGGGEGEISECSNED
Secondary Structure (PSIPRED)
ccccccEEEEEEcccHHHHHHHHHHHHccccccccccHHEEEEEEEccEEccccccccccEEEEEEEccEEEEcccccHHHHHHHHHcccccccccEEEEEEccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHcccccHHHHHcccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccEEEEEEcccHHHHHHHHHHHHccccccccHHHHHHHHHHccccEccccccccccEEEEEEEcccEEEEcEEEEEEEHHHHHcccccccccEEEEEEccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHccccccccHcccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MDESGEQFVAYFLptaetldkrkldqlsnleytdEQEYEYKMAREynwnvksksckgyeenYFLIVRDDAVYYNELETRVRLSKRRqkvgaapnntrlvvthrplnatEFRIQRLRErfleppneeeeeedeeeEEEEAEEtqqgetteaerqegeggeregggegeisecsned
Flexible Loop (DISEMBL)
MDESGEQFVAYFlptaetldkrkldqlsnleytdeQEYEYKMAReynwnvkskscKGYEENYFLIVRDDAVYYNELETRvrlskrrqkvgaapnntrlvvthrplnatefRIQRLRerfleppneeeeeedeeeeeeeaeetqqgetteaerqegeggeregggegeisecsned
Low Complexity Region (SEG)
MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEENYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFLEPPNeeeeeedeeeeeeeaeetqqgetteaerqegeggeregggegeISECSNED
Disordered region (IsUnstruct)
*******FVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEENYFLIVRDDAVYYNELETRVRLS***********NTRLVVTHRPLNATEFRIQ**************************************************************
Disordered Region (DISOPRED)
***SGEQFVAYFLPTAETLD**************EQEYEYKMAREYNWNVKSKSCKGYEENYFLIVRDDAVYYNELETRV*******************VTHR************************************************************************
Disordered Region (DISEMBL)
MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEENYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFLE******************************************************
Disordered Region (DISPRO)
****GEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEENYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFLEP*****************************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEENYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFLEPPxxxxxxxxxxxxxxxxxxxxxxxTTEAERQEGEGGEREGGGEGEISECSNED
Positional Conservation
no confident homologs detected

---

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	175	2.2.26 [Sep-21-2011]
Q8N7H5	531	RNA polymerase II-associa	yes	N/A	0.96	0.316	0.484	7e-36
Q5RAX0	533	RNA polymerase II-associa	yes	N/A	0.96	0.315	0.484	8e-36
Q2KJ14	532	RNA polymerase II-associa	yes	N/A	0.96	0.315	0.484	1e-35
Q8K2T8	535	RNA polymerase II-associa	yes	N/A	0.96	0.314	0.479	1e-35
Q4V886	535	RNA polymerase II-associa	yes	N/A	0.96	0.314	0.479	2e-35
A2BD83	524	RNA polymerase II-associa	N/A	N/A	0.925	0.309	0.530	7e-35
Q4U0S5	503	RNA polymerase II-associa	yes	N/A	0.691	0.240	0.626	2e-34
Q6P2Y1	520	RNA polymerase II-associa	yes	N/A	0.897	0.301	0.542	4e-34

>sp|Q8N7H5|PAF1_HUMAN RNA polymerase II-associated factor 1 homolog OS=Homo sapiens GN=PAF1 PE=1 SV=2

 Score =  149 bits (377), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 94/194 (48%), Positives = 117/194 (60%), Gaps = 26/194 (13%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDE G QFVAYFLP  ETL KRK DQ   ++Y  +  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct: 250 MDEEGNQFVAYFLPVEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEE 309

Query: 61  NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
           NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR +N  E   Q  R+ 
Sbjct: 310 NYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKA 369

Query: 119 FLEPP-------------------NEEEEEEDEEEEEEEAEETQQGETTEAERQEG---E 156
            LE                     ++EE+E+    E+E +E+   G  +E+ER+EG   E
Sbjct: 370 QLENHEPEEEEEEEMETEEKEAGGSDEEQEKGSSSEKEGSEDEHSG--SESEREEGDRDE 427

Query: 157 GGEREGGGEGEISE 170
             ++ G GE E SE
Sbjct: 428 ASDKSGSGEDESSE 441

Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II and is implicated in regulation of development and maintenance of embryonic stem cell pluripotency. PAF1C associates with RNA polymerase II through interaction with POLR2A CTD non-phosphorylated and 'Ser-2'- and 'Ser-5'-phosphorylated forms and is involved in transcriptional elongation, acting both indepentently and synergistically with TCEA1 and in cooperation with the DSIF complex and HTATSF1. PAF1C is required for transcription of Hox and Wnt target genes. PAF1C is involved in hematopoiesis and stimulates transcriptional activity of MLL1; it promotes leukemogenesis though association with MLL-rearranged oncoproteins, such as MLL-MLLT3/AF9 and MLL-MLLT1/ENL. PAF1C is involved in histone modifications such as ubiquitination of histone H2B and methylation on histone H3 'Lys-4' (H3K4me3). PAF1C recruits the RNF20/40 E3 ubiquitin-protein ligase complex and the E2 enzyme UBE2A or UBE2B to chromatin which mediate monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1); UB2A/B-mediated H2B ubiquitination is proposed to be coupled to transcription. PAF1C is involved in mRNA 3' end formation probably through association with cleavage and poly(A) factors. In case of infection by influenza A strain H3N2, PAF1C associates with viral NS1 protein, thereby regulating gene transcription. Connects PAF1C with the RNF20/40 E3 ubiquitin-protein ligase complex. Involved in polyadenylation of mRNA precursors. Has oncogenic activity in vivo and in vitro.
Homo sapiens (taxid: 9606)

>sp|Q5RAX0|PAF1_PONAB RNA polymerase II-associated factor 1 homolog OS=Pongo abelii GN=PAF1 PE=2 SV=1

 Score =  149 bits (376), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 94/194 (48%), Positives = 118/194 (60%), Gaps = 26/194 (13%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDE G QFVAYFLP  ETL KRK DQ   ++Y  +  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct: 250 MDEEGNQFVAYFLPVEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEE 309

Query: 61  NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
           NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR +N  E   Q  R+ 
Sbjct: 310 NYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKA 369

Query: 119 FLEPP-------------------NEEEEEEDEEEEEEEAEETQQGETTEAERQEG---E 156
            LE                     ++EE+E+    E+E +E+ + G  +E+ER+EG   E
Sbjct: 370 QLENHEPEEEEEEEMETEEKEAGGSDEEQEKGSSSEKEGSEDERSG--SESEREEGDRDE 427

Query: 157 GGEREGGGEGEISE 170
             ++ G GE E SE
Sbjct: 428 ASDKSGSGEDESSE 441

Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II and is implicated in regulation of development and maintenance of embryonic stem cell pluripotency. PAF1C associates with RNA polymerase II through interaction with POLR2A CTD non-phosphorylated and 'Ser-2'- and 'Ser-5'-phosphorylated forms and is involved in transcriptional elongation, acting both indepentently and synergistically with TCEA1 and in cooperation with the DSIF complex and HTATSF1. PAF1C is required for transcription of Hox and Wnt target genes. PAF1C is involved in hematopoiesis and stimulates transcriptional activity of MLL1. PAF1C is involved in histone modifications such as ubiquitination of histone H2B and methylation on histone H3 'Lys-4' (H3K4me3). PAF1C recruits the RNF20/40 E3 ubiquitin-protein ligase complex and the E2 enzyme UBE2A or UBE2B to chromatin which mediate monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1); UB2A/B-mediated H2B ubiquitination is proposed to be coupled to transcription. PAF1C is involved in mRNA 3' end formation probably through association with cleavage and poly(A) factors. Connects PAF1C with the RNF20/40 E3 ubiquitin-protein ligase complex. Involved in polyadenylation of mRNA precursors.

Pongo abelii (taxid: 9601)

>sp|Q2KJ14|PAF1_BOVIN RNA polymerase II-associated factor 1 homolog OS=Bos taurus GN=PAF1 PE=2 SV=1

 Score =  148 bits (374), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 94/194 (48%), Positives = 117/194 (60%), Gaps = 26/194 (13%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDE G QFVAYFLP  ETL KRK DQ   ++Y  +  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct: 250 MDEEGNQFVAYFLPVEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEE 309

Query: 61  NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
           NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR +N  E   Q  R+ 
Sbjct: 310 NYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKA 369

Query: 119 FLEP-------------------PNEEEEEEDEEEEEEEAEETQQGETTEAERQEG---E 156
            LE                     ++EE E+    E+E +E+ + G  +E+ER+EG   E
Sbjct: 370 QLENHEPEEEEEEEMETEEKEAGASDEEREKGSSSEKEGSEDERSG--SESEREEGDRDE 427

Query: 157 GGEREGGGEGEISE 170
             ++ G GE E SE
Sbjct: 428 ASDKSGSGEDESSE 441

Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II and is implicated in regulation of development and maintenance of embryonic stem cell pluripotency. PAF1C associates with RNA polymerase II through interaction with POLR2A CTD non-phosphorylated and 'Ser-2'- and 'Ser-5'-phosphorylated forms and is involved in transcriptional elongation, acting both indepentently and synergistically with TCEA1 and in cooperation with the DSIF complex and HTATSF1. PAF1C is required for transcription of Hox and Wnt target genes. PAF1C is involved in hematopoiesis and stimulates transcriptional activity of MLL1. PAF1C is involved in histone modifications such as ubiquitination of histone H2B and methylation on histone H3 'Lys-4' (H3K4me3). PAF1C recruits the RNF20/40 E3 ubiquitin-protein ligase complex and the E2 enzyme UBE2A or UBE2B to chromatin which mediate monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1); UB2A/B-mediated H2B ubiquitination is proposed to be coupled to transcription. PAF1C is involved in mRNA 3' end formation probably through association with cleavage and poly(A) factors. Connects PAF1C with the RNF20/40 E3 ubiquitin-protein ligase complex. Involved in polyadenylation of mRNA precursors.

Bos taurus (taxid: 9913)

>sp|Q8K2T8|PAF1_MOUSE RNA polymerase II-associated factor 1 homolog OS=Mus musculus GN=Paf1 PE=2 SV=1

 Score =  148 bits (374), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 93/194 (47%), Positives = 117/194 (60%), Gaps = 26/194 (13%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDE G QFVAYFLP  ETL KRK DQ   ++Y  +  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct: 250 MDEEGNQFVAYFLPVEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEE 309

Query: 61  NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
           NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR +N  E   Q  R+ 
Sbjct: 310 NYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKA 369

Query: 119 FLEPP-------------------NEEEEEEDEEEEEEEAEETQQGETTEAERQEG---E 156
            LE                     ++EE+E+    E+E +E+   G  +E++R+EG   E
Sbjct: 370 QLENHEPEEEEEEEMEAEEKEAGGSDEEQEKGSSSEKEGSEDEHSG--SESDREEGDRDE 427

Query: 157 GGEREGGGEGEISE 170
             ++ G GE E SE
Sbjct: 428 ASDKSGSGEDESSE 441

Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II and is implicated in regulation of development and maintenance of embryonic stem cell pluripotency. PAF1C associates with RNA polymerase II through interaction with POLR2A CTD non-phosphorylated and 'Ser-2'- and 'Ser-5'-phosphorylated forms and is involved in transcriptional elongation, acting both indepentently and synergistically with TCEA1 and in cooperation with the DSIF complex and HTATSF1. PAF1C is required for transcription of Hox and Wnt target genes. PAF1C is involved in hematopoiesis and stimulates transcriptional activity of MLL1. PAF1C is involved in histone modifications such as ubiquitination of histone H2B and methylation on histone H3 'Lys-4' (H3K4me3). PAF1C recruits the RNF20/40 E3 ubiquitin-protein ligase complex and the E2 enzyme UBE2A or UBE2B to chromatin which mediate monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1); UB2A/B-mediated H2B ubiquitination is proposed to be coupled to transcription. PAF1C is involved in mRNA 3' end formation probably through association with cleavage and poly(A) factors. Connects PAF1C with the RNF20/40 E3 ubiquitin-protein ligase complex. Involved in polyadenylation of mRNA precursors.

Mus musculus (taxid: 10090)

>sp|Q4V886|PAF1_RAT RNA polymerase II-associated factor 1 homolog OS=Rattus norvegicus GN=Paf1 PE=2 SV=1

 Score =  148 bits (373), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 93/194 (47%), Positives = 117/194 (60%), Gaps = 26/194 (13%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDE G QFVAYFLP  ETL KRK DQ   ++Y  +  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct: 250 MDEEGNQFVAYFLPVEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEE 309

Query: 61  NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
           NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR +N  E   Q  R+ 
Sbjct: 310 NYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKA 369

Query: 119 FLEPP-------------------NEEEEEEDEEEEEEEAEETQQGETTEAERQEG---E 156
            LE                     ++EE E+    E+E +E+ + G  +E++R+EG   E
Sbjct: 370 QLENHEPEEEEEEEMEAEEKEAGGSDEEHEKGSSSEKEGSEDERSG--SESDREEGDRDE 427

Query: 157 GGEREGGGEGEISE 170
             ++ G GE E SE
Sbjct: 428 ASDKSGSGEDESSE 441

Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II and is implicated in regulation of development and maintenance of embryonic stem cell pluripotency. PAF1C associates with RNA polymerase II through interaction with POLR2A CTD non-phosphorylated and 'Ser-2'- and 'Ser-5'-phosphorylated forms and is involved in transcriptional elongation, acting both indepentently and synergistically with TCEA1 and in cooperation with the DSIF complex and HTATSF1. PAF1C is required for transcription of Hox and Wnt target genes. PAF1C is involved in hematopoiesis and stimulates transcriptional activity of MLL1. PAF1C is involved in histone modifications such as ubiquitination of histone H2B and methylation on histone H3 'Lys-4' (H3K4me3). PAF1C recruits the RNF20/40 E3 ubiquitin-protein ligase complex and the E2 enzyme UBE2A or UBE2B to chromatin which mediate monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1); UB2A/B-mediated H2B ubiquitination is proposed to be coupled to transcription. PAF1C is involved in mRNA 3' end formation probably through association with cleavage and poly(A) factors. Connects PAF1C with the RNF20/40 E3 ubiquitin-protein ligase complex. Involved in polyadenylation of mRNA precursors.

Rattus norvegicus (taxid: 10116)

>sp|A2BD83|PAF1_XENLA RNA polymerase II-associated factor 1 homolog OS=Xenopus laevis GN=paf1 PE=2 SV=1

 Score =  146 bits (368), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 87/164 (53%), Positives = 106/164 (64%), Gaps = 2/164 (1%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDE G QFVAYFLP  +T+ KRK DQ   L+Y  E  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct: 250 MDEEGNQFVAYFLPGEDTMRKRKRDQEEGLDYMPEDIYDYKIAREYNWNVKNKASKGYEE 309

Query: 61  NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
           NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR ++  E   Q  R  
Sbjct: 310 NYFFIFREGDGVYYNELETRVRLSKRRVKAGVQSGTNALLVVKHRDMHEKELEAQEARRA 369

Query: 119 FLEPPNEEEEEEDEEEEEEEAEETQQGETTEAERQEGEGGEREG 162
            LE    EEEEE E + + +  + ++GE      +EG G E+ G
Sbjct: 370 QLENHEPEEEEEIEVDRDTQGSDAEEGEKGSGSEKEGSGAEQSG 413

Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II. PAF1C associates with RNA polymerase II, is involved in transcriptional elongation and in histone modifications including methylation on histone H3 'Lys-4' (H3K4me3).

Xenopus laevis (taxid: 8355)

>sp|Q4U0S5|PAF1_DANRE RNA polymerase II-associated factor 1 homolog OS=Danio rerio GN=paf1 PE=1 SV=1

 Score =  145 bits (365), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 77/123 (62%), Positives = 87/123 (70%), Gaps = 2/123 (1%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDE G QFVAYFLP  +T+ KRK D    L+Y  E+ YEYK+AREYNWNVK+K+ KGYEE
Sbjct: 250 MDEEGNQFVAYFLPNEDTMRKRKRDVEEELDYMPEEVYEYKIAREYNWNVKNKASKGYEE 309

Query: 61  NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
           NYF I RD D VYYNELETRVRLSKRR KVGA +  N  LV  HR +N  E   Q  R+ 
Sbjct: 310 NYFFIFRDADGVYYNELETRVRLSKRRAKVGAQSSTNAVLVCKHRDMNEKELEAQEARKA 369

Query: 119 FLE 121
            LE
Sbjct: 370 QLE 372

Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II. PAF1C associates with RNA polymerase II, is involved in transcriptional elongation and in histone modifications including methylation on histone H3 'Lys-4' (H3K4me3) (By similarity). PAF1C seems to be required for multiple steps in cardiac formation. Involved in the migration of myocardial precursors to the midline and the differentiation of the atrioventricular boundary in the developing heart.

Danio rerio (taxid: 7955)

>sp|Q6P2Y1|PAF1_XENTR RNA polymerase II-associated factor 1 homolog OS=Xenopus tropicalis GN=paf1 PE=2 SV=1

 Score =  144 bits (362), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 90/166 (54%), Positives = 107/166 (64%), Gaps = 9/166 (5%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDE G QFVAYFLP  ET+ KRK DQ   L+Y  E  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct: 250 MDEEGNQFVAYFLPGEETMRKRKRDQEEGLDYMPEDIYDYKIAREYNWNVKNKASKGYEE 309

Query: 61  NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
           NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR ++  E   Q  R  
Sbjct: 310 NYFFIFREGDGVYYNELETRVRLSKRRVKAGVQSGTNAVLVVKHRDMHEKELEAQEARRA 369

Query: 119 FLEPPNEEEEEEDEEEEEEEAEETQQGETTEAERQEGEGGEREGGG 164
            LE    EEEEE E ++E +  + + GE       +G G E+EG G
Sbjct: 370 QLENHEPEEEEEIEVDQETQGSDAEDGE-------KGSGSEKEGSG 408

Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II. PAF1C associates with RNA polymerase II, is involved in transcriptional elongation and in histone modifications including methylation on histone H3 'Lys-4' (H3K4me3).

Xenopus tropicalis (taxid: 8364)

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	175
307213815	533	RNA polymerase II-associated factor 1-li	0.702	0.230	0.772	1e-50
332022364	581	RNA polymerase II-associated factor 1-li	0.702	0.211	0.772	1e-50
156550159	572	PREDICTED: RNA polymerase II-associated	0.702	0.215	0.788	1e-50
156550709	583	PREDICTED: RNA polymerase II-associated	0.702	0.210	0.780	3e-50
307199453	530	RNA polymerase II-associated factor 1-li	0.702	0.232	0.772	4e-50
307172366	428	RNA polymerase II-associated factor 1-li	0.702	0.287	0.764	6e-50
383850476	554	PREDICTED: RNA polymerase II-associated	0.685	0.216	0.758	2e-48
340728168	562	PREDICTED: RNA polymerase II-associated	0.685	0.213	0.75	9e-48
350403064	562	PREDICTED: RNA polymerase II-associated	0.685	0.213	0.75	1e-47
328787903	549	PREDICTED: RNA polymerase II-associated	0.685	0.218	0.75	2e-47

>gi|307213815|gb|EFN89122.1| RNA polymerase II-associated factor 1-like protein [Harpegnathos saltator]

 Score =  204 bits (519), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 95/123 (77%), Positives = 106/123 (86%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDESGEQFVAYFLP  ETLDKR+ D  + ++Y DE+EYEYKMAREYNWNVKSK+ KGYEE
Sbjct: 248 MDESGEQFVAYFLPLEETLDKRRRDFTAGIDYADEEEYEYKMAREYNWNVKSKASKGYEE 307

Query: 61  NYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFL 120
           NYFL++R D VYYNELETRVRLSKRRQK G  PNNTRL+V HRPLNA EFR+QR RE+ L
Sbjct: 308 NYFLVIRQDGVYYNELETRVRLSKRRQKAGQQPNNTRLIVRHRPLNAIEFRMQRYREKQL 367

Query: 121 EPP 123
           EPP
Sbjct: 368 EPP 370

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332022364|gb|EGI62676.1| RNA polymerase II-associated factor 1-like protein [Acromyrmex echinatior]

 Score =  204 bits (519), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 95/123 (77%), Positives = 107/123 (86%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDESGEQFVAYFLP  ETL+KR+ D  + ++Y DE+EYEYKMAREYNWNVKSK+ KGYEE
Sbjct: 250 MDESGEQFVAYFLPLEETLEKRRRDFTAGIDYADEEEYEYKMAREYNWNVKSKASKGYEE 309

Query: 61  NYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFL 120
           NYFL++R D VYYNELETRVRLSKRRQKVG  PNNTRL+V HRPLNA EFR+QR RE+ L
Sbjct: 310 NYFLVIRQDGVYYNELETRVRLSKRRQKVGQQPNNTRLIVRHRPLNANEFRMQRYREKQL 369

Query: 121 EPP 123
           EPP
Sbjct: 370 EPP 372

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156550159|ref|XP_001606181.1| PREDICTED: RNA polymerase II-associated factor 1 homolog [Nasonia vitripennis]

 Score =  204 bits (518), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 97/123 (78%), Positives = 107/123 (86%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDESGEQFVAYFLP  ETL+KRK D  S ++Y DE EYEYKMAREYNWNVKSK+ KGYEE
Sbjct: 250 MDESGEQFVAYFLPLEETLEKRKRDFCSGIDYADEDEYEYKMAREYNWNVKSKASKGYEE 309

Query: 61  NYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFL 120
           NYFL++R+D VYYNELETRVRLSKRRQKVGA  NNTRLVV HRPLNA EF++QR RE+ L
Sbjct: 310 NYFLVMREDGVYYNELETRVRLSKRRQKVGAPVNNTRLVVRHRPLNANEFKMQRFREKQL 369

Query: 121 EPP 123
           EPP
Sbjct: 370 EPP 372

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156550709|ref|XP_001605818.1| PREDICTED: RNA polymerase II-associated factor 1 homolog [Nasonia vitripennis]

 Score =  202 bits (515), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 96/123 (78%), Positives = 107/123 (86%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDESGEQFVAYFLP  ETL+KRK D  S ++Y DE EYEYKMAREYNWNVKSK+ KGYEE
Sbjct: 250 MDESGEQFVAYFLPLEETLEKRKRDFCSGIDYADEDEYEYKMAREYNWNVKSKASKGYEE 309

Query: 61  NYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFL 120
           NYFL++R+D VYYNELETRVRLSKRRQKVGA  NNTRLVV HRPLNA E+++QR RE+ L
Sbjct: 310 NYFLVMREDGVYYNELETRVRLSKRRQKVGAPVNNTRLVVRHRPLNANEYKMQRFREKQL 369

Query: 121 EPP 123
           EPP
Sbjct: 370 EPP 372

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307199453|gb|EFN80066.1| RNA polymerase II-associated factor 1-like protein [Harpegnathos saltator]

 Score =  202 bits (515), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 95/123 (77%), Positives = 106/123 (86%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDESGEQFVAYFLP  ETLDKR+ D  + ++Y DE+EYEYKMAREYNWNVKSK+ KGYEE
Sbjct: 250 MDESGEQFVAYFLPLEETLDKRRRDFTAGIDYADEEEYEYKMAREYNWNVKSKASKGYEE 309

Query: 61  NYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFL 120
           NYFL++R D VYYNELETRVRLSKRRQK G  PNNTRL+V HRPLNA EFR+QR RE+ L
Sbjct: 310 NYFLVMRQDGVYYNELETRVRLSKRRQKAGQQPNNTRLIVRHRPLNALEFRMQRYREKQL 369

Query: 121 EPP 123
           EPP
Sbjct: 370 EPP 372

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307172366|gb|EFN63837.1| RNA polymerase II-associated factor 1-like protein [Camponotus floridanus]

 Score =  201 bits (512), Expect = 6e-50,   Method: Compositional matrix adjust.
 Identities = 94/123 (76%), Positives = 107/123 (86%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDESGEQFVAYFLP  ETL+KR+ D  + ++Y D++EYEYKMAREYNWNVKSK+ KGYEE
Sbjct: 250 MDESGEQFVAYFLPLEETLEKRRRDFTAGIDYADDEEYEYKMAREYNWNVKSKASKGYEE 309

Query: 61  NYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFL 120
           NYFL++R D VYYNELETRVRLSKRRQKVG  PNNTRL+V HRPLNA EFR+QR RE+ L
Sbjct: 310 NYFLVIRQDGVYYNELETRVRLSKRRQKVGQQPNNTRLIVRHRPLNANEFRMQRYREKQL 369

Query: 121 EPP 123
           EPP
Sbjct: 370 EPP 372

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383850476|ref|XP_003700821.1| PREDICTED: RNA polymerase II-associated factor 1 homolog [Megachile rotundata]

 Score =  196 bits (499), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 91/120 (75%), Positives = 104/120 (86%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDESGEQFVAYFLP  ETLDKR+ D  + ++Y D++EYEYKMAREYNWNVKSK+ KGYEE
Sbjct: 250 MDESGEQFVAYFLPLEETLDKRRRDFTAGIDYADDEEYEYKMAREYNWNVKSKASKGYEE 309

Query: 61  NYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFL 120
           NYFL++R D VYYNELETRVRLSKRRQKVG  PNNTRL+V HRPLNA EF++QR RE+ L
Sbjct: 310 NYFLVIRQDGVYYNELETRVRLSKRRQKVGQQPNNTRLIVRHRPLNANEFKMQRYREKQL 369

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340728168|ref|XP_003402400.1| PREDICTED: RNA polymerase II-associated factor 1 homolog [Bombus terrestris]

 Score =  194 bits (494), Expect = 9e-48,   Method: Compositional matrix adjust.
 Identities = 90/120 (75%), Positives = 103/120 (85%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDESGEQFVAYFLP  ETL+KR+ D  + ++Y D+ EYEYKMAREYNWNVKSK+ KGYEE
Sbjct: 250 MDESGEQFVAYFLPLEETLEKRRRDFAAGIDYADDDEYEYKMAREYNWNVKSKASKGYEE 309

Query: 61  NYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFL 120
           NYFL++R D VYYNELETRVRLSKRRQKVG  PNNTRL+V HRPLNA EF++QR RE+ L
Sbjct: 310 NYFLVIRQDGVYYNELETRVRLSKRRQKVGQQPNNTRLIVRHRPLNANEFKMQRYREKQL 369

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350403064|ref|XP_003486690.1| PREDICTED: RNA polymerase II-associated factor 1 homolog [Bombus impatiens]

 Score =  194 bits (492), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 90/120 (75%), Positives = 103/120 (85%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDESGEQFVAYFLP  ETL+KR+ D  + ++Y D+ EYEYKMAREYNWNVKSK+ KGYEE
Sbjct: 250 MDESGEQFVAYFLPLEETLEKRRRDFAAGIDYADDDEYEYKMAREYNWNVKSKASKGYEE 309

Query: 61  NYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFL 120
           NYFL++R D VYYNELETRVRLSKRRQKVG  PNNTRL+V HRPLNA EF++QR RE+ L
Sbjct: 310 NYFLVIRQDGVYYNELETRVRLSKRRQKVGQQPNNTRLIVRHRPLNANEFKMQRYREKQL 369

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328787903|ref|XP_624998.3| PREDICTED: RNA polymerase II-associated factor 1 homolog isoform 1 [Apis mellifera]

 Score =  193 bits (491), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 90/120 (75%), Positives = 104/120 (86%)

Query: 1   MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
           MDESGEQFVAYFLP  ETL+KR+ D  + ++Y D++EYEYKMAREYNWNVKSK+ KGYEE
Sbjct: 250 MDESGEQFVAYFLPLEETLEKRRRDFTAGIDYADDEEYEYKMAREYNWNVKSKASKGYEE 309

Query: 61  NYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFL 120
           NYFL++R D VYYNELETRVRLSKRRQKVG  PNNTRL+V HRPLNA EF++QR RE+ L
Sbjct: 310 NYFLVIRQDGVYYNELETRVRLSKRRQKVGQQPNNTRLIVRHRPLNANEFKMQRYREKQL 369

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	175
FB|FBgn0010750	538	atms "antimeros" [Drosophila m	0.702	0.228	0.691	8.1e-44
ZFIN|ZDB-GENE-050506-101	503	paf1 "paf1, RNA polymerase II	0.691	0.240	0.626	6.5e-35
UNIPROTKB|Q2KJ14	532	PAF1 "RNA polymerase II-associ	0.691	0.227	0.609	1.3e-34
UNIPROTKB|F8W9Q2	462	PAF1 "RNA polymerase II-associ	0.691	0.261	0.609	1.3e-34
UNIPROTKB|Q8N7H5	531	PAF1 "RNA polymerase II-associ	0.691	0.227	0.609	1.3e-34
UNIPROTKB|F1SEH0	532	PAF1 "Uncharacterized protein"	0.691	0.227	0.609	1.3e-34
UNIPROTKB|Q5RAX0	533	PAF1 "RNA polymerase II-associ	0.691	0.227	0.609	1.3e-34
MGI|MGI:1923988	535	Paf1 "Paf1, RNA polymerase II	0.691	0.226	0.609	1.3e-34
RGD|1306219	535	Paf1 "Paf1, RNA polymerase II	0.691	0.226	0.609	1.3e-34
UNIPROTKB|Q6P2Y1	520	paf1 "RNA polymerase II-associ	0.691	0.232	0.609	1.5e-33

FB|FBgn0010750 atms "antimeros" [Drosophila melanogaster (taxid:7227)]

 Score = 462 (167.7 bits), Expect = 8.1e-44, P = 8.1e-44
 Identities = 85/123 (69%), Positives = 103/123 (83%)

Query:     1 MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
             MDESGEQFVAYFLPT +TL+KR+ D ++   Y +E+EYEYK+AREYNWNVK+K+ KGYEE
Sbjct:   250 MDESGEQFVAYFLPTEQTLEKRRTDFINGELYKEEEEYEYKIAREYNWNVKTKASKGYEE 309

Query:    61 NYFLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRERFL 120
             NYF ++R D +YYNELETRVRL+KRR KVG  PNNT+LVV HRPL++ E R+QR RER L
Sbjct:   310 NYFFVMRQDGIYYNELETRVRLNKRRVKVGQQPNNTKLVVKHRPLDSMEHRMQRYRERQL 369

Query:   121 EPP 123
             E P
Sbjct:   370 EVP 372

GO:0019894 "kinesin binding" evidence=IDA

GO:0016593 "Cdc73/Paf1 complex" evidence=IDA

GO:0035327 "transcriptionally active chromatin" evidence=IDA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IMP

GO:0022008 "neurogenesis" evidence=IMP

ZFIN|ZDB-GENE-050506-101 paf1 "paf1, RNA polymerase II associated factor, homolog (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 378 (138.1 bits), Expect = 6.5e-35, P = 6.5e-35
 Identities = 77/123 (62%), Positives = 87/123 (70%)

Query:     1 MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
             MDE G QFVAYFLP  +T+ KRK D    L+Y  E+ YEYK+AREYNWNVK+K+ KGYEE
Sbjct:   250 MDEEGNQFVAYFLPNEDTMRKRKRDVEEELDYMPEEVYEYKIAREYNWNVKNKASKGYEE 309

Query:    61 NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
             NYF I RD D VYYNELETRVRLSKRR KVGA +  N  LV  HR +N  E   Q  R+ 
Sbjct:   310 NYFFIFRDADGVYYNELETRVRLSKRRAKVGAQSSTNAVLVCKHRDMNEKELEAQEARKA 369

Query:   119 FLE 121
              LE
Sbjct:   370 QLE 372

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISS

GO:0032968 "positive regulation of transcription elongation from RNA polymerase II promoter" evidence=ISS

GO:0000993 "RNA polymerase II core binding" evidence=ISS

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISS

GO:0005634 "nucleus" evidence=IEA;IDA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0007507 "heart development" evidence=IMP

GO:0016593 "Cdc73/Paf1 complex" evidence=IDA

UNIPROTKB|Q2KJ14 PAF1 "RNA polymerase II-associated factor 1 homolog" [Bos taurus (taxid:9913)]

 Score = 375 (137.1 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 75/123 (60%), Positives = 86/123 (69%)

Query:     1 MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
             MDE G QFVAYFLP  ETL KRK DQ   ++Y  +  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct:   250 MDEEGNQFVAYFLPVEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEE 309

Query:    61 NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
             NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR +N  E   Q  R+ 
Sbjct:   310 NYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKA 369

Query:   119 FLE 121
              LE
Sbjct:   370 QLE 372

GO:0031442 "positive regulation of mRNA 3'-end processing" evidence=ISS

GO:0006378 "mRNA polyadenylation" evidence=ISS

GO:0001711 "endodermal cell fate commitment" evidence=ISS

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISS

GO:0045638 "negative regulation of myeloid cell differentiation" evidence=ISS

GO:0045749 "negative regulation of S phase of mitotic cell cycle" evidence=ISS

GO:0000993 "RNA polymerase II core binding" evidence=ISS

GO:0016593 "Cdc73/Paf1 complex" evidence=ISS

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISS

GO:0032968 "positive regulation of transcription elongation from RNA polymerase II promoter" evidence=ISS

GO:0071222 "cellular response to lipopolysaccharide" evidence=ISS

GO:0033523 "histone H2B ubiquitination" evidence=IEA

GO:0019827 "stem cell maintenance" evidence=IEA

GO:0010390 "histone monoubiquitination" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0016055 "Wnt receptor signaling pathway" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

UNIPROTKB|F8W9Q2 PAF1 "RNA polymerase II-associated factor 1 homolog" [Homo sapiens (taxid:9606)]

 Score = 375 (137.1 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 75/123 (60%), Positives = 86/123 (69%)

Query:     1 MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
             MDE G QFVAYFLP  ETL KRK DQ   ++Y  +  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct:   217 MDEEGNQFVAYFLPVEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEE 276

Query:    61 NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
             NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR +N  E   Q  R+ 
Sbjct:   277 NYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKA 336

Query:   119 FLE 121
              LE
Sbjct:   337 QLE 339

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005739 "mitochondrion" evidence=IDA

UNIPROTKB|Q8N7H5 PAF1 "RNA polymerase II-associated factor 1 homolog" [Homo sapiens (taxid:9606)]

 Score = 375 (137.1 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 75/123 (60%), Positives = 86/123 (69%)

Query:     1 MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
             MDE G QFVAYFLP  ETL KRK DQ   ++Y  +  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct:   250 MDEEGNQFVAYFLPVEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEE 309

Query:    61 NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
             NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR +N  E   Q  R+ 
Sbjct:   310 NYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKA 369

Query:   119 FLE 121
              LE
Sbjct:   370 QLE 372

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0016055 "Wnt receptor signaling pathway" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0019827 "stem cell maintenance" evidence=IEA

GO:0010390 "histone monoubiquitination" evidence=IDA

GO:0033523 "histone H2B ubiquitination" evidence=IDA

GO:0016593 "Cdc73/Paf1 complex" evidence=IDA

GO:0071222 "cellular response to lipopolysaccharide" evidence=ISS

GO:0032968 "positive regulation of transcription elongation from RNA polymerase II promoter" evidence=IDA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0000993 "RNA polymerase II core binding" evidence=IDA

GO:0045749 "negative regulation of S phase of mitotic cell cycle" evidence=IMP

GO:0045638 "negative regulation of myeloid cell differentiation" evidence=IDA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISS

GO:0006378 "mRNA polyadenylation" evidence=IMP

GO:0031442 "positive regulation of mRNA 3'-end processing" evidence=IMP

GO:0001711 "endodermal cell fate commitment" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005739 "mitochondrion" evidence=IDA

UNIPROTKB|F1SEH0 PAF1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 375 (137.1 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 75/123 (60%), Positives = 86/123 (69%)

Query:     1 MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
             MDE G QFVAYFLP  ETL KRK DQ   ++Y  +  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct:   250 MDEEGNQFVAYFLPVEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEE 309

Query:    61 NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
             NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR +N  E   Q  R+ 
Sbjct:   310 NYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKA 369

Query:   119 FLE 121
              LE
Sbjct:   370 QLE 372

GO:0071222 "cellular response to lipopolysaccharide" evidence=IEA

GO:0019827 "stem cell maintenance" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0001711 "endodermal cell fate commitment" evidence=IEA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IEA

UNIPROTKB|Q5RAX0 PAF1 "RNA polymerase II-associated factor 1 homolog" [Pongo abelii (taxid:9601)]

 Score = 375 (137.1 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 75/123 (60%), Positives = 86/123 (69%)

Query:     1 MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
             MDE G QFVAYFLP  ETL KRK DQ   ++Y  +  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct:   250 MDEEGNQFVAYFLPVEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEE 309

Query:    61 NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
             NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR +N  E   Q  R+ 
Sbjct:   310 NYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKA 369

Query:   119 FLE 121
              LE
Sbjct:   370 QLE 372

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISS

GO:0000993 "RNA polymerase II core binding" evidence=ISS

GO:0001711 "endodermal cell fate commitment" evidence=ISS

GO:0006378 "mRNA polyadenylation" evidence=ISS

GO:0016593 "Cdc73/Paf1 complex" evidence=ISS

GO:0031442 "positive regulation of mRNA 3'-end processing" evidence=ISS

GO:0032968 "positive regulation of transcription elongation from RNA polymerase II promoter" evidence=ISS

GO:0045638 "negative regulation of myeloid cell differentiation" evidence=ISS

GO:0045749 "negative regulation of S phase of mitotic cell cycle" evidence=ISS

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISS

GO:0071222 "cellular response to lipopolysaccharide" evidence=ISS

MGI|MGI:1923988 Paf1 "Paf1, RNA polymerase II associated factor, homolog (S. cerevisiae)" [Mus musculus (taxid:10090)]

 Score = 375 (137.1 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 75/123 (60%), Positives = 86/123 (69%)

Query:     1 MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
             MDE G QFVAYFLP  ETL KRK DQ   ++Y  +  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct:   250 MDEEGNQFVAYFLPVEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEE 309

Query:    61 NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
             NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR +N  E   Q  R+ 
Sbjct:   310 NYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKA 369

Query:   119 FLE 121
              LE
Sbjct:   370 QLE 372

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IMP

GO:0000993 "RNA polymerase II core binding" evidence=ISO

GO:0001711 "endodermal cell fate commitment" evidence=IMP

GO:0003682 "chromatin binding" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006378 "mRNA polyadenylation" evidence=ISO

GO:0010390 "histone monoubiquitination" evidence=ISO

GO:0016055 "Wnt receptor signaling pathway" evidence=IEA

GO:0016593 "Cdc73/Paf1 complex" evidence=ISO

GO:0019827 "stem cell maintenance" evidence=IMP

GO:0031442 "positive regulation of mRNA 3'-end processing" evidence=ISO

GO:0032968 "positive regulation of transcription elongation from RNA polymerase II promoter" evidence=ISO

GO:0033523 "histone H2B ubiquitination" evidence=ISO

GO:0045638 "negative regulation of myeloid cell differentiation" evidence=ISO

GO:0045749 "negative regulation of S phase of mitotic cell cycle" evidence=ISO

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0071222 "cellular response to lipopolysaccharide" evidence=IDA

RGD|1306219 Paf1 "Paf1, RNA polymerase II associated factor, homolog (S. cerevisiae)" [Rattus norvegicus (taxid:10116)]

 Score = 375 (137.1 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 75/123 (60%), Positives = 86/123 (69%)

Query:     1 MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
             MDE G QFVAYFLP  ETL KRK DQ   ++Y  +  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct:   250 MDEEGNQFVAYFLPVEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEE 309

Query:    61 NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
             NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR +N  E   Q  R+ 
Sbjct:   310 NYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKA 369

Query:   119 FLE 121
              LE
Sbjct:   370 QLE 372

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISO;ISS

GO:0000993 "RNA polymerase II core binding" evidence=ISO;ISS

GO:0001711 "endodermal cell fate commitment" evidence=ISO;ISS

GO:0003682 "chromatin binding" evidence=IEA;ISO

GO:0005634 "nucleus" evidence=ISO

GO:0005739 "mitochondrion" evidence=IEA;ISO

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006378 "mRNA polyadenylation" evidence=ISO;ISS

GO:0010390 "histone monoubiquitination" evidence=IEA;ISO

GO:0016055 "Wnt receptor signaling pathway" evidence=IEA

GO:0016593 "Cdc73/Paf1 complex" evidence=ISO;ISS

GO:0019827 "stem cell maintenance" evidence=IEA;ISO

GO:0031442 "positive regulation of mRNA 3'-end processing" evidence=ISO;ISS

GO:0032968 "positive regulation of transcription elongation from RNA polymerase II promoter" evidence=ISO;ISS

GO:0033523 "histone H2B ubiquitination" evidence=IEA;ISO

GO:0045638 "negative regulation of myeloid cell differentiation" evidence=ISO;ISS

GO:0045749 "negative regulation of S phase of mitotic cell cycle" evidence=ISO;ISS

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISO;ISS

GO:0071222 "cellular response to lipopolysaccharide" evidence=ISO;ISS

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|Q6P2Y1 paf1 "RNA polymerase II-associated factor 1 homolog" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 365 (133.5 bits), Expect = 1.5e-33, P = 1.5e-33
 Identities = 75/123 (60%), Positives = 85/123 (69%)

Query:     1 MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEE 60
             MDE G QFVAYFLP  ET+ KRK DQ   L+Y  E  Y+YK+AREYNWNVK+K+ KGYEE
Sbjct:   250 MDEEGNQFVAYFLPGEETMRKRKRDQEEGLDYMPEDIYDYKIAREYNWNVKNKASKGYEE 309

Query:    61 NYFLIVRD-DAVYYNELETRVRLSKRRQKVGA-APNNTRLVVTHRPLNATEFRIQRLRER 118
             NYF I R+ D VYYNELETRVRLSKRR K G  +  N  LVV HR ++  E   Q  R  
Sbjct:   310 NYFFIFREGDGVYYNELETRVRLSKRRVKAGVQSGTNAVLVVKHRDMHEKELEAQEARRA 369

Query:   119 FLE 121
              LE
Sbjct:   370 QLE 372

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISS

GO:0000993 "RNA polymerase II core binding" evidence=ISS

GO:0016593 "Cdc73/Paf1 complex" evidence=ISS

GO:0032968 "positive regulation of transcription elongation from RNA polymerase II promoter" evidence=ISS

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q6P2Y1	PAF1_XENTR	No assigned EC number	0.5421	0.8971	0.3019	yes	N/A
Q4U0S5	PAF1_DANRE	No assigned EC number	0.6260	0.6914	0.2405	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	175
pfam03985	431	pfam03985, Paf1, Paf1	5e-36
PTZ00415	2849	PTZ00415, PTZ00415, transmission-blocking target a	0.001
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.002
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.003

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score =  129 bits (325), Expect = 5e-36
 Identities = 59/188 (31%), Positives = 96/188 (51%), Gaps = 16/188 (8%)

Query: 1   MDESGEQFVAYFLP-------TAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSK 53
           ++   E+FV+Y+LP         +TL+KR  D     +Y +++EY++K  REY+  VKSK
Sbjct: 233 VELEEEEFVSYYLPDEKDSEILEDTLEKRSDDLH---DYDEDEEYKFKRVREYDMKVKSK 289

Query: 54  SCKGYEENYFLIVRD-DAVYYNELETRVRLSKRR-----QKVGAAPNNTRLVVTHRPLNA 107
           + K  E   F +  +   VYY  L +RV L +RR     + +    NN +L V  R  + 
Sbjct: 290 ATKLNELALFFVSDENGVVYYKPLRSRVELRRRRVNDVIRPLVREHNNDQLNVKLRNPST 349

Query: 108 TEFRIQRLRERFLEPPNEEEEEEDEEEEEEEAEETQQGETTEAERQEGEGGEREGGGEGE 167
            E +++  R   L+P + EE +EDE+EEEE+  +  + E  E   +EG     +G  E  
Sbjct: 350 KESKMRDKRRARLDPIDFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESS 409

Query: 168 ISECSNED 175
               S+ +
Sbjct: 410 SDVGSDSE 417

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230; Provisional

 Score = 38.5 bits (89), Expect = 0.001
 Identities = 17/47 (36%), Positives = 32/47 (68%), Gaps = 3/47 (6%)

Query: 116 RERFLEPPNEEEEEEDEEEEEEEAEETQQGETTEA---ERQEGEGGE 159
           R+ F+   ++E+E+ED+++EE++ EE ++ E  +    E +E EGGE
Sbjct: 148 RDNFVIDDDDEDEDEDDDDEEDDEEEEEEEEEIKGFDDEDEEDEGGE 194

Length = 2849

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 38.1 bits (88), Expect = 0.002
 Identities = 18/31 (58%), Positives = 23/31 (74%)

Query: 124 NEEEEEEDEEEEEEEAEETQQGETTEAERQE 154
           + EEEEE+EEEEEEE EE ++ E  E E +E
Sbjct: 862 DSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 37.3 bits (86), Expect = 0.003
 Identities = 17/31 (54%), Positives = 21/31 (67%)

Query: 121 EPPNEEEEEEDEEEEEEEAEETQQGETTEAE 151
           +   EEEEEE+EEEEEEE EE ++ E    E
Sbjct: 862 DSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	175
KOG2478|consensus	452		99.97
PF03985	436	Paf1: Paf1 ; InterPro: IPR007133 Members of this f	99.95

>KOG2478|consensus

Probab=99.97  E-value=6.6e-32  Score=246.57  Aligned_cols=133  Identities=53%  Similarity=0.795  Sum_probs=124.5

Q ss_pred             CCCccceEEEEecCChhhhhhhhhhhhcCCCCCccccccceEEEeeeeeccccCCCCccceEEEEEeC-Ceeeeecccce
Q psy6666           1 MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEENYFLIVRD-DAVYYNELETR   79 (175)
Q Consensus         1 ~de~geqFVAYflPt~etl~Kr~~D~~e~~~yd~d~~yeYk~~REYnW~Vk~kaskgyeenyfF~fRd-dgVyYNeLeTR   79 (175)
                      ||++|++|||||||+++|+.+.+.+.++++++++|++|+|+++|+|+|+||++++++|.+||||+.+. ++||||+|.||
T Consensus       240 ~~~e~e~fvs~~~p~ee~~~~~~~~~e~~~l~~eddv~ey~~~R~y~~~mk~~a~~~~~~~~f~i~~~~~~v~yn~~~~r  319 (452)
T KOG2478|consen  240 MDEEGEQFVSYFLPTEETLKKRLADLEEEMLRDEDDVYEYKIAREYDWNMKGKASKGYTENYFFINDEDNQVYYNELETR  319 (452)
T ss_pred             ccccchhhhheecCChhhhhhhhhhhhhcccccccchhhhhhhhcccchhccCCCccccceEEEEEecCCceeechHhhH
Confidence            78999999999999999999999999999999999999999999999999999999999999999998 89999999999


Q ss_pred             eeehhhccccCCCC-CCceEEEEecCCChHHHHHHHHHHhhcCCCCCccchhhHH
Q psy6666          80 VRLSKRRQKVGAAP-NNTRLVVTHRPLNATEFRIQRLRERFLEPPNEEEEEEDEE  133 (175)
Q Consensus        80 VrLsKRRak~g~~~-~~s~LtVr~R~~ne~E~~~q~~R~~~L~~~~~~~e~eeee  133 (175)
                      |+|+|||+|++..+ +++.|+|+||++|..|+.++.++..+|+++..+.+.+|+.
T Consensus       320 vrl~kr~vk~~~~~~~i~~l~vs~r~~n~~e~~~~~~~~~~~e~~~~~~~~~Ee~  374 (452)
T KOG2478|consen  320 VRLMKRRVKAGVSLNNIDKLEVSLRDLNSKELEAQDKNRRQLEVLGFELELEEEY  374 (452)
T ss_pred             HHHhhcccccccCcccccceeEeecCCCchHHHHHHHhhccccccccchhhhhhh
Confidence            99999999999655 6799999999999999999999999999988655444333

>PF03985 Paf1: Paf1 ; InterPro: IPR007133 Members of this family are components of the RNA polymerase II associated Paf1 complex

Probab=99.95  E-value=7.4e-29  Score=222.34  Aligned_cols=132  Identities=43%  Similarity=0.717  Sum_probs=113.0

Q ss_pred             CCCccceEEEEecC-------ChhhhhhhhhhhhcCCCCCccccccceEEEeeeeeccccCCCCccceEEEE-EeCCeee
Q psy6666           1 MDESGEQFVAYFLP-------TAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEENYFLI-VRDDAVY   72 (175)
Q Consensus         1 ~de~geqFVAYflP-------t~etl~Kr~~D~~e~~~yd~d~~yeYk~~REYnW~Vk~kaskgyeenyfF~-fRddgVy   72 (175)
                      |+.+|++|||||||       ...+|.+.+.|.. ..+++++..|.|+|+|+|+|+|++.++++|+.++||+ +++++||
T Consensus       234 ~~~~~~~fvsy~lP~~~~~~~~~~~l~~~~~d~~-~~~~~~~~~~~y~~vReY~~~~~~~~~~~~e~~i~f~~~~~k~ay  312 (436)
T PF03985_consen  234 MDSEGDQFVSYYLPDKEDAKELKEKLEKNSPDRD-EEDDDDDEEYEYKRVREYEWSVQNEASKGYEENIFFVDFKQKAAY  312 (436)
T ss_pred             CCCCCcceeeEEecChhhhhHhHHhhhccccccc-ccccCCCceeeccceecccceeeccCCCCccceEEEEecCCCceE
Confidence            46789999999999       6667777777666 6678999999999999999999998899999999999 7889999


Q ss_pred             eecccceeeehhhcc-----ccCCCCCCceEEEEecCCChHHHHHHHHHHhhcCCCCCccchhhHH
Q psy6666          73 YNELETRVRLSKRRQ-----KVGAAPNNTRLVVTHRPLNATEFRIQRLRERFLEPPNEEEEEEDEE  133 (175)
Q Consensus        73 YNeLeTRVrLsKRRa-----k~g~~~~~s~LtVr~R~~ne~E~~~q~~R~~~L~~~~~~~e~eeee  133 (175)
                      |++|.|||+|+|||.     +.++..++++|+|+||++|++|+++|..+..++.|...+.++++++
T Consensus       313 Y~pI~~Rv~LrkrR~~~~~~~~~~~~~~d~i~V~~R~p~e~E~~~~~~~r~~~dp~~~~~~ee~ee  378 (436)
T PF03985_consen  313 YYPIETRVRLRKRRTNSKIRPKVREQRPDQITVKHRDPTEEEEAERDKRRAQLDPIEYEEEEEEEE  378 (436)
T ss_pred             EeeccccceeeeeccccccccccccCCCceEEEEeCCCCHHHHHHHHHHHhhccCCCccccCcccc
Confidence            999999999999992     2224678999999999999999999999999999986654443333

The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i [, ].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00