Citrus Sinensis ID: 020365

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------
Protein Sequence
MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISSEVPQPVSPGMTTEDPTNNSEVMSSGGHLVSEKGESE
Secondary Structure (PSIPRED)
ccHHHHHHHcccccccccEEccccccccccccccccccccccccccccEEEcccccccccccccHHHHHHHHHHHHHHHHHHHccHHHHHHccccccccccccccHHHHHHcEEEEEEEEccHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEccccccccccccccccccEEEEccccccccccccccccHHHHHHHHHHHHHccccccccEEEEEEEEEcccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHcccccccEEEccccccccccccccccccHccccccccEEccccccccccccccHHHHHHHHHHHHHHHHHHHcHHHHHHHcccccHHHHHccccHHHHHcEEEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEcccccccccccccccEEEEEEEEEEEcccccccccEEEccccHHHHHHHHHHHHHcccccEEEEEEEEHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MLVSRFFRVYtqwrwpnpvmmcpiemgelgfsvwdprknpkdrshrmpiitpayhcmnssykvSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQdtngllqchpypnkyidpskpcpnsaffwglsrkevgtskecqqfdfQGTVKNFRRgidnyrvrregrdiYFSYVCrrhlpsfvfpdgykwhrpsrhfneqsgkpcedvkmcqscsseRQLKRkkeheikevrpdksvkqafissevpqpvspgmttedptnnsevmssgghlvsekgese
Flexible Loop (DISEMBL)
MLVSRFFRvytqwrwpnpvMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRKEVGtskecqqfdfqgtvknfrrgidnyrvrreGRDIYFSYVCRRHLPSFVFPDGYKWHRPSRHFneqsgkpcedVKMCQSCSserqlkrkkeheikevrpdksvkqafissevpqpvspgmttedptnnsevmssgghlvsekgese
Low Complexity Region (SEG)
MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVaadaddLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISSEVPQPVSPGMTTEDPTNNSEVMSSGGHLVSEKGESE
Disordered region (IsUnstruct)
**VSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWD***********MPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHR****************************************************************************************
Disordered Region (DISOPRED)
MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSR*************FQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFP***********************************************************************************************
Disordered Region (DISEMBL)
MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRPSRHFN*****************************IKEVRPDKSVKQAFISSEVPQPVSPGMTTEDP*********************
Disordered Region (DISPRO)
MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPD**********************************************************************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISSEVPQPVSPGMTTEDPTNNSEVMSSGGHLVSEKGESE
Positional Conservation
no confident homologs detected

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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	327	2.2.26 [Sep-21-2011]
Q54J73	809	Poly(A) polymerase OS=Dic	yes	no	0.792	0.320	0.327	1e-35
P51005	484	Poly(A) polymerase alpha-	N/A	no	0.700	0.473	0.365	2e-32
P51004	715	Poly(A) polymerase alpha-	N/A	no	0.700	0.320	0.373	2e-32
P25500	739	Poly(A) polymerase alpha	yes	no	0.844	0.373	0.317	4e-32
Q61183	739	Poly(A) polymerase alpha	yes	no	0.837	0.370	0.325	8e-32
P51003	745	Poly(A) polymerase alpha	yes	no	0.844	0.370	0.314	9e-32
Q9BWT3	736	Poly(A) polymerase gamma	no	no	0.648	0.288	0.338	2e-31
Q6PCL9	739	Poly(A) polymerase gamma	no	no	0.648	0.286	0.334	4e-31
Q9WVP6	641	Poly(A) polymerase beta O	no	no	0.822	0.419	0.319	8e-31
Q9NRJ5	636	Poly(A) polymerase beta O	no	no	0.666	0.342	0.377	1e-30

>sp|Q54J73|PAP_DICDI Poly(A) polymerase OS=Dictyostelium discoideum GN=papA PE=3 SV=1

 Score =  150 bits (379), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 92/281 (32%), Positives = 143/281 (50%), Gaps = 22/281 (7%)

Query: 2   LVSRFFRVYTQWRWPNPVMMCPI-EMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           ++ RFF+VY  W+WP P+++C I E G LG  VW+P++   D++H MPIITPAY  MNS+
Sbjct: 302 IIHRFFKVYEIWKWPAPILLCHIQEGGILGPKVWNPKR---DKAHLMPIITPAYPSMNST 358

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           Y VS  TLQ+M  +F  G  I       +IE G+  W  L E   FF  Y  Y+++D  +
Sbjct: 359 YNVSKSTLQLMKSEFVRGAEITR-----KIETGECTWKNLLEKCDFFTRYSFYIEIDCYS 413

Query: 121 ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYI-------DPSKPCPNSAF 173
            + +D   W+GW+ES+ R L   +E  T  +    PYP  +        +P + C  ++F
Sbjct: 414 MNEEDSRKWEGWIESKLRFLISNLES-TPKMKFAVPYPKGFTNNLHKANNPDQIC--TSF 470

Query: 174 FWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNY---RVRREGRDIYFSYVCRRHLPSFV 230
           F GLS     T    +  D    V  F   I ++   +   +  DI   Y+ ++ LP+FV
Sbjct: 471 FMGLSFNFSNTPGADKSVDLTKAVTEFTGIIKDWLRTQPNPDTMDIKVQYIKKKQLPAFV 530

Query: 231 FPDGYKWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKK 271
             +G +    +      +G+P    K  +S +S+ +L   K
Sbjct: 531 KDEGPEEPVKTTKKRSSTGEPSATRKKLKSENSDNKLNSPK 571

Polymerase that creates the 3'-poly(A) tail of mRNA's. May acquire specificity through interaction with a cleavage and polyadenylation factor.
Dictyostelium discoideum (taxid: 44689)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 1EC: 9

>sp|P51005|PAPO2_XENLA Poly(A) polymerase alpha-B OS=Xenopus laevis GN=papola-b PE=2 SV=1

 Score =  140 bits (352), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 90/246 (36%), Positives = 122/246 (49%), Gaps = 17/246 (6%)

Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct: 18  LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 77

Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAA 121
            VS+ T  VM E+F+ G  I +     EI L KAEWS LF+   FF+ Y++Y+ +   A 
Sbjct: 78  NVSVSTRAVMVEEFKQGLAITD-----EILLVKAEWSKLFDAPNFFQKYKHYILLLASAP 132

Query: 122 DADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAF--FW--GL 177
                L W G VES+ R L   +E++   +   H  P  +  PS+      F   W  GL
Sbjct: 133 TEKQRLEWVGLVESKIRILVGSLEKN-EFITLAHVNPQSFPSPSENSEKEEFRTMWVIGL 191

Query: 178 SRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRH----LPSFV 230
             K++  S+       +D Q       R   N ++      I   +V R+     LPS V
Sbjct: 192 VFKKMENSENLSVDLTYDIQSFTDTVYRQAINSKMFETEIKIAAMHVKRKQLHQLLPSHV 251

Query: 231 FPDGYK 236
            P   K
Sbjct: 252 LPKKKK 257

Polymerase that creates the 3'-poly(A) tail of mRNA's. May acquire specificity through interaction with a cleavage and polyadenylation factor (CPSF).

Xenopus laevis (taxid: 8355)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 1

EC: 9

>sp|P51004|PAPO1_XENLA Poly(A) polymerase alpha-A (Fragment) OS=Xenopus laevis GN=papola-a PE=2 SV=1

 Score =  140 bits (352), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 92/246 (37%), Positives = 123/246 (50%), Gaps = 17/246 (6%)

Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct: 250 LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 309

Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAA 121
            VS+ T  VM E+F+ G  I +     EI LGKAEWS LF+   FF+ Y++Y+ +   A 
Sbjct: 310 NVSVSTRAVMIEEFKQGLAITD-----EILLGKAEWSKLFDAPNFFQKYKHYILLLASAP 364

Query: 122 DADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAF--FW--GL 177
                L W G VES+ R L   +E++    L  H  P  +  PS+      F   W  GL
Sbjct: 365 TEKQRLEWVGLVESKIRILVGSLEKNEFITL-AHVNPRSFPAPSENMEKEEFRTMWVIGL 423

Query: 178 SRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHL----PSFV 230
             K++  S+       +D Q       R   N ++      I   +V R+ L    PS V
Sbjct: 424 VFKKMENSENLSVDLTYDIQSFTDTVDRQAINSKMFETEMKIAAMHVKRKQLHQLQPSHV 483

Query: 231 FPDGYK 236
            P   K
Sbjct: 484 SPKKKK 489

Polymerase that creates the 3'-poly(A) tail of mRNA's. May acquire specificity through interaction with a cleavage and polyadenylation factor (CPSF).

Xenopus laevis (taxid: 8355)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 1

EC: 9

>sp|P25500|PAPOA_BOVIN Poly(A) polymerase alpha OS=Bos taurus GN=PAPOLA PE=1 SV=3

 Score =  139 bits (349), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 94/296 (31%), Positives = 138/296 (46%), Gaps = 20/296 (6%)

Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct: 268 LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 327

Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAA 121
            VS+ T  VM E+F+ G  I +     EI L KAEWS LFE   FF+ Y++Y+ +   A 
Sbjct: 328 NVSVSTRMVMVEEFKQGLAITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASAP 382

Query: 122 DADDLLTWKGWVESRFRQLTLKIEQD---TNGLLQCHPYPNKYIDPSKPCPNSAFFWGLS 178
                L W G VES+ R L   +E++   T   +    +P    +P K    + +  GL 
Sbjct: 383 TEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKENPDKEEFRTMWVIGLV 442

Query: 179 RKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGY 235
            K+   S+       +D Q       R   N ++      I   +V R+ L   +     
Sbjct: 443 FKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLL----- 497

Query: 236 KWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISS 291
               PS    ++     E VK+     S   L    ++ +    P  ++K + ++S
Sbjct: 498 ----PSHVLQKKKKHSTEGVKLTPLNDSSLDLSMDSDNSMSVPSPTSAMKTSPLNS 549

Polymerase that creates the 3'-poly(A) tail of mRNA's. Also required for the endoribonucleolytic cleavage reaction at some polyadenylation sites. May acquire specificity through interaction with a cleavage and polyadenylation specificity factor (CPSF) at its C-terminus.

Bos taurus (taxid: 9913)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 1

EC: 9

>sp|Q61183|PAPOA_MOUSE Poly(A) polymerase alpha OS=Mus musculus GN=Papola PE=1 SV=4

 Score =  137 bits (346), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 97/298 (32%), Positives = 139/298 (46%), Gaps = 24/298 (8%)

Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct: 268 LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 327

Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAA 121
            VS+ T  VM E+F+ G  I +     EI L KAEWS LFE   FF+ Y++Y+ +   A 
Sbjct: 328 NVSVSTRMVMVEEFKQGLAITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASAP 382

Query: 122 DADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFF---W--G 176
                L W G VES+ R L   +E++   +   H  P  +  P K  P+   F   W  G
Sbjct: 383 TEKQRLEWVGLVESKIRILVGSLEKN-EFITLAHVNPQSFPAP-KESPDREEFRTMWVIG 440

Query: 177 LSRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPD 233
           L  K+   S+       +D Q       R   N ++      I   +V R+ L   +   
Sbjct: 441 LVFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFELDMKIAAMHVKRKQLHQLL--- 497

Query: 234 GYKWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISS 291
                 PS    ++     E VK+     S   L    ++ +    P  ++K + ++S
Sbjct: 498 ------PSHVLQKRKKHSTEGVKLTALNDSSLDLSMDSDNSMSVPSPTSAMKTSPLNS 549

Polymerase that creates the 3'-poly(A) tail of mRNA's. Also required for the endoribonucleolytic cleavage reaction at some polyadenylation sites. May acquire specificity through interaction with a cleavage and polyadenylation specificity factor (CPSF) at its C-terminus.

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 1

EC: 9

>sp|P51003|PAPOA_HUMAN Poly(A) polymerase alpha OS=Homo sapiens GN=PAPOLA PE=1 SV=4

 Score =  137 bits (346), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 93/296 (31%), Positives = 137/296 (46%), Gaps = 20/296 (6%)

Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct: 268 LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 327

Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAA 121
            VS+ T  VM E+F+ G  I +     EI L KAEWS LFE   FF+ Y++Y+ +   A 
Sbjct: 328 NVSVSTRMVMVEEFKQGLAITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASAP 382

Query: 122 DADDLLTWKGWVESRFRQLTLKIEQD---TNGLLQCHPYPNKYIDPSKPCPNSAFFWGLS 178
                L W G VES+ R L   +E++   T   +    +P    +P K    + +  GL 
Sbjct: 383 TEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKENPDKEEFRTMWVIGLV 442

Query: 179 RKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGY 235
            K+   S+       +D Q       R   N ++      I   +V R+ L   +     
Sbjct: 443 FKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLL----- 497

Query: 236 KWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISS 291
               P+    ++     E VK+     S   L    ++ +    P  + K + ++S
Sbjct: 498 ----PNHVLQKKKKHSTEGVKLTALNDSSLDLSMDSDNSMSVPSPTSATKTSPLNS 549

Polymerase that creates the 3'-poly(A) tail of mRNA's. Also required for the endoribonucleolytic cleavage reaction at some polyadenylation sites. May acquire specificity through interaction with a cleavage and polyadenylation specificity factor (CPSF) at its C-terminus.

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 1

EC: 9

>sp|Q9BWT3|PAPOG_HUMAN Poly(A) polymerase gamma OS=Homo sapiens GN=PAPOLG PE=1 SV=2

 Score =  136 bits (343), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 81/239 (33%), Positives = 121/239 (50%), Gaps = 27/239 (11%)

Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct: 267 LVHKFFLVFSKWEWPNPVLLKQPEESNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 326

Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAA 121
            VS  T  VM E+F+ G  + +     EI  GK++WS L E   FF+ Y +Y+ +   A+
Sbjct: 327 NVSTSTRTVMVEEFKQGLAVTD-----EILQGKSDWSKLLEPPNFFQKYRHYIVLTASAS 381

Query: 122 DADDLLTWKGWVESRFRQLTLKIEQD---TNGLLQCHPYP--------NKYIDPSKPCPN 170
             ++ L W G VES+ R L   +E++   T   +    +P        N Y+        
Sbjct: 382 TEENHLEWVGLVESKIRVLVGNLERNEFITLAHVNPQSFPGNKEHHKDNNYV-------- 433

Query: 171 SAFFWGLSRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHL 226
           S +F G+  + V  ++       +D Q       R  +N  + +EG  I  ++V ++ L
Sbjct: 434 SMWFLGIIFRRVENAESVNIDLTYDIQSFTDTVYRQANNINMLKEGMKIEATHVKKKQL 492

Responsible for the post-transcriptional adenylation of the 3'-terminal of mRNA precursors and several small RNAs including signal recognition particle (SRP) RNA, nuclear 7SK RNA, U2 small nuclear RNA, and ribosomal 5S RNA.

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 1

EC: 9

>sp|Q6PCL9|PAPOG_MOUSE Poly(A) polymerase gamma OS=Mus musculus GN=Papolg PE=1 SV=1

 Score =  135 bits (340), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 80/239 (33%), Positives = 121/239 (50%), Gaps = 27/239 (11%)

Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct: 267 LVHKFFLVFSKWEWPNPVLLKQPEESNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 326

Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAA 121
            VS  T  VM E+F+ G  + +     EI  GK++WS L E   FF+ Y +Y+ +   A+
Sbjct: 327 NVSTSTRTVMVEEFKQGLAVTD-----EILQGKSDWSKLLEPPNFFQKYRHYIVLTASAS 381

Query: 122 DADDLLTWKGWVESRFRQLTLKIEQD---TNGLLQCHPYP--------NKYIDPSKPCPN 170
             ++ L W G VES+ R L   +E++   T   +    +P        N Y+        
Sbjct: 382 TEENHLEWVGLVESKIRVLVGNLERNEFITLAHVNPQSFPGNKEHHKANNYV-------- 433

Query: 171 SAFFWGLSRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHL 226
           S +F G+  + V  ++       +D Q       R  +N  + ++G  I  ++V ++ L
Sbjct: 434 SMWFLGIIFRRVENAESVNIDLTYDIQSFTDTVYRQANNINMLKDGMKIEATHVKKKQL 492

Responsible for the post-transcriptional adenylation of the 3'-terminal of mRNA precursors and several small RNAs including signal recognition particle (SRP) RNA, nuclear 7SK RNA, U2 small nuclear RNA, and ribosomal 5S RNA.

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 1

EC: 9

>sp|Q9WVP6|PAPOB_MOUSE Poly(A) polymerase beta OS=Mus musculus GN=Papolb PE=1 SV=2

 Score =  134 bits (337), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 93/291 (31%), Positives = 132/291 (45%), Gaps = 22/291 (7%)

Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct: 268 LVRKFFLVFSEWEWPNPVLLKEPEERNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 327

Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAA 121
            VS+ T  VM E+F+ G  I       EI L KAEWS LFE   FF+ Y++Y+ +   A 
Sbjct: 328 NVSVSTRMVMIEEFKQGLAITH-----EILLNKAEWSKLFEAPSFFQKYKHYIVLLASAP 382

Query: 122 DADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAF--FW--GL 177
                L W G VES+ R L   +E++    L  H  P  +  P +      F   W  GL
Sbjct: 383 TEKQHLEWVGLVESKIRILVGSLEKNEFITL-AHVNPQSFPAPKETADKEEFRTMWVIGL 441

Query: 178 SRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDG 234
             K+   S+       +D Q       R   N ++      I   ++ R+ L   +    
Sbjct: 442 VLKKPENSEILSIDLTYDIQSFTDTVYRQAINSKMFEMDMKIAAMHLRRKELHQLL---- 497

Query: 235 YKWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVK 285
                P+    ++     E V++     S   L    E+ +    P  ++K
Sbjct: 498 -----PNHVLQKKETHLTESVRLTAVTDSSLLLSIDSENSMTAPSPTGTMK 543

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 1

EC: 9

>sp|Q9NRJ5|PAPOB_HUMAN Poly(A) polymerase beta OS=Homo sapiens GN=PAPOLB PE=2 SV=1

 Score =  134 bits (337), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 88/233 (37%), Positives = 118/233 (50%), Gaps = 15/233 (6%)

Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct: 268 LVRKFFLVFSEWEWPNPVLLKEPEERNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 327

Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAA 121
            VS+ T  VM E+F+ G  I       EI L KAEWS LFE   FF+ Y++Y+ +   A+
Sbjct: 328 NVSISTRMVMIEEFKQGLAITH-----EILLSKAEWSKLFEAPSFFQKYKHYIVLLASAS 382

Query: 122 DADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFF---W--G 176
                L W G VES+ R L   +E++    L  H  P  +  P K  P+   F   W  G
Sbjct: 383 TEKQHLEWVGLVESKIRILVGSLEKNEFITL-AHVNPQSFPAP-KENPDMEEFRTMWVIG 440

Query: 177 LSRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHL 226
           L  K+   S+       +D Q       R   N ++   G  I   ++ R+ L
Sbjct: 441 LGLKKPDNSEILSIDLTYDIQSFTDTVYRQAVNSKMFEMGMKITAMHLRRKEL 493

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 1

EC: 9

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	327
255550972	754	Poly(A) polymerase beta, putative [Ricin	0.911	0.395	0.646	1e-103
356515639	732	PREDICTED: poly(A) polymerase-like [Glyc	0.899	0.401	0.611	1e-101
356507941	651	PREDICTED: poly(A) polymerase-like [Glyc	0.948	0.476	0.568	1e-100
225442450	770	PREDICTED: poly(A) polymerase-like [Viti	0.896	0.380	0.600	1e-100
147790301	778	hypothetical protein VITISV_011285 [Viti	0.896	0.376	0.600	1e-100
297825665	788	nucleotidyltransferase family protein [A	0.911	0.378	0.611	3e-99
334184470	797	poly(A) polymerase 2 [Arabidopsis thalia	0.911	0.373	0.601	7e-99
297802710	748	poly(A) polymerase [Arabidopsis lyrata s	0.899	0.393	0.61	9e-99
449461393	863	PREDICTED: poly(A) polymerase-like [Cucu	0.908	0.344	0.617	1e-98
30682917	787	poly(A) polymerase 2 [Arabidopsis thalia	0.911	0.378	0.601	1e-98

>gi|255550972|ref|XP_002516534.1| Poly(A) polymerase beta, putative [Ricinus communis] gi|223544354|gb|EEF45875.1| Poly(A) polymerase beta, putative [Ricinus communis]

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 196/303 (64%), Positives = 233/303 (76%), Gaps = 5/303 (1%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           MLVSRFFRVYTQWRWPNPVM+C IE  ELGF VWDPR+NP+DR H MPIITPAY CMNSS
Sbjct: 275 MLVSRFFRVYTQWRWPNPVMLCAIEEDELGFPVWDPRRNPRDRFHHMPIITPAYPCMNSS 334

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           Y VS+ TL+VM EQFQ GN+ICE     EIEL KA+WSALFE Y FFEAY+NYLQ+DI+A
Sbjct: 335 YNVSISTLRVMMEQFQYGNKICE-----EIELNKAQWSALFEPYLFFEAYKNYLQIDIIA 389

Query: 121 ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
           ADADDLL WKGWVESR RQLTLKIE+DT G+LQCHPYPN+YID SK CP+ AFF GL R+
Sbjct: 390 ADADDLLAWKGWVESRLRQLTLKIERDTIGMLQCHPYPNEYIDTSKQCPHCAFFMGLQRR 449

Query: 181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
           +  + +E QQFD +GTV+ FR+ I+ Y   + G D+Y S+  RR LP+FVFPDGYK  R 
Sbjct: 450 KGVSGQEGQQFDIRGTVEEFRQEINMYMFWKPGMDVYVSHARRRQLPAFVFPDGYKRSRT 509

Query: 241 SRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISSEVPQPVSPG 300
           SRH N+Q+GKP +     ++ S E  LKRK +HE+ +VRPDK  K+A +S +  Q VSP 
Sbjct: 510 SRHPNQQAGKPSDVSATSRAGSVEGHLKRKNDHEVVDVRPDKPEKRASVSPQRLQSVSPE 569

Query: 301 MTT 303
             T
Sbjct: 570 SNT 572

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356515639|ref|XP_003526506.1| PREDICTED: poly(A) polymerase-like [Glycine max]

 Score =  374 bits (961), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 184/301 (61%), Positives = 223/301 (74%), Gaps = 7/301 (2%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           MLVSRFFRVYTQWRWPNPVM+C IE  ELGF +WDPR+NP+DR H MPIITPAY CMNSS
Sbjct: 272 MLVSRFFRVYTQWRWPNPVMLCSIEENELGFPIWDPRRNPRDRFHTMPIITPAYPCMNSS 331

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           Y VS  TL+VM +QF  GN+IC+     EIEL KA+WSALF+ Y FFEAY+NYLQVDI+A
Sbjct: 332 YNVSASTLRVMVDQFCYGNKICD-----EIELNKAQWSALFQPYIFFEAYKNYLQVDIIA 386

Query: 121 ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
           +D DDLL W+GWVESR R LTLKIE+DTNG+LQCHPYP++Y+D SKPC +SAFF GL RK
Sbjct: 387 SDTDDLLAWRGWVESRLRMLTLKIERDTNGMLQCHPYPHEYVDTSKPCAHSAFFMGLQRK 446

Query: 181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
           E    +E QQFD +GTV  FR+ I+ Y   + G DI+ S+V R+ LP+FVFPDGYK  R 
Sbjct: 447 EGVRGQEGQQFDIRGTVDEFRQEINMYMYWKPGMDIFVSHVRRKQLPAFVFPDGYKRTRM 506

Query: 241 SRHFNEQSGKPCEDVKMCQSCS--SERQLKRKKEHEIKEVRPDKSVKQAFISSEVPQPVS 298
            RH + Q+    +D   C S    SER +KRK   E+ + +PDK  K+A IS +  + VS
Sbjct: 507 PRHISHQAEITGDDATNCYSGPGLSERCIKRKNYSEMVDKKPDKPDKRASISPQRLECVS 566

Query: 299 P 299
           P
Sbjct: 567 P 567

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356507941|ref|XP_003522721.1| PREDICTED: poly(A) polymerase-like [Glycine max]

 Score =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 195/343 (56%), Positives = 235/343 (68%), Gaps = 33/343 (9%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           MLVSRFFRVYTQWRWPNPVM+C IE  ELGF +WDPR+NP+DR H MPIITPAY CMNSS
Sbjct: 271 MLVSRFFRVYTQWRWPNPVMLCSIEENELGFPIWDPRRNPRDRFHTMPIITPAYPCMNSS 330

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           Y VS  TL+VM EQF+ GN+IC+     EIEL KA+WSALF+ Y FFEAY+NYLQVDI+A
Sbjct: 331 YNVSASTLRVMMEQFRYGNKICD-----EIELNKAQWSALFQPYIFFEAYKNYLQVDIIA 385

Query: 121 ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
           +DADDLL W+GWVESR R LTLKIE+DTNG+LQCHPYPN+Y+D SK C +SAFF GL RK
Sbjct: 386 SDADDLLAWRGWVESRLRLLTLKIERDTNGMLQCHPYPNEYVDTSKLCAHSAFFMGLQRK 445

Query: 181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
           E    +E QQFD +GTV  FR+ I+ Y   + G DI+ S+V R+ LP+FVFP GYK  R 
Sbjct: 446 EGVRGQEGQQFDIRGTVDEFRQEINMYMYWKPGMDIFVSHVRRKQLPAFVFPGGYKRTRM 505

Query: 241 SRHFNEQSGKPCEDVKMC----QSCSSERQLKRKKEHEIKEVRPDKSVKQAFISSEVPQP 296
            RH + Q+ K  +D   C     S SSER +KRK   E+ + +P K  K+A IS +  + 
Sbjct: 506 PRHISHQAEKTGDDATKCYSGSGSGSSERCIKRKSCPEMVDKKPGKPDKRASISPQRLEC 565

Query: 297 VSP------------------------GMTTEDPTNNSEVMSS 315
           VSP                        G TT+D  +N EV SS
Sbjct: 566 VSPESCTSKSGGTTQMSIECIEVVRLAGSTTKDANDNCEVKSS 608

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442450|ref|XP_002277939.1| PREDICTED: poly(A) polymerase-like [Vitis vinifera]

 Score =  370 bits (950), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 182/303 (60%), Positives = 220/303 (72%), Gaps = 10/303 (3%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           MLVSRFFRVYTQWRWPNPVM+C IE  ELGFSVWDPRKNP+DR+H MPIITPAY CMNSS
Sbjct: 267 MLVSRFFRVYTQWRWPNPVMLCAIEEDELGFSVWDPRKNPRDRTHHMPIITPAYPCMNSS 326

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           Y VS+ TL+VM EQFQ GN+ICE      IEL  A+W ALFE Y FFE+Y+NYLQVDIVA
Sbjct: 327 YNVSISTLRVMMEQFQYGNKICE-----GIELSNAQWGALFEPYLFFESYKNYLQVDIVA 381

Query: 121 ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
            D DDL  WKGWVESR RQLTL IE+DT G LQCHPYP++Y+D SK C + AFF GL RK
Sbjct: 382 VDIDDLRAWKGWVESRLRQLTLMIERDTFGKLQCHPYPHEYVDTSKQCSHCAFFMGLQRK 441

Query: 181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
           +    +E QQFD +GTV  FR  I+ Y   + G +IY S+V R+ +PS+VFP+GYK  RP
Sbjct: 442 QGEIIQEGQQFDIRGTVDEFRHSINMYMFWKPGMEIYVSHVRRKQIPSYVFPEGYKRSRP 501

Query: 241 SRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISSEVPQPVSPG 300
            R  N+Q G      + C++ SSE+ +KRKK+ E  +V  DK+ K+  IS +    VSP 
Sbjct: 502 QRPVNQQQGD-----EACRTGSSEKHMKRKKDPEEVDVEQDKAAKRLTISPQRQDSVSPE 556

Query: 301 MTT 303
           + +
Sbjct: 557 IIS 559

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147790301|emb|CAN69980.1| hypothetical protein VITISV_011285 [Vitis vinifera]

 Score =  369 bits (948), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 182/303 (60%), Positives = 220/303 (72%), Gaps = 10/303 (3%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           MLVSRFFRVYTQWRWPNPVM+C IE  ELGFSVWDPRKNP+DR+H MPIITPAY CMNSS
Sbjct: 258 MLVSRFFRVYTQWRWPNPVMLCAIEEDELGFSVWDPRKNPRDRTHHMPIITPAYPCMNSS 317

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           Y VS+ TL+VM EQFQ GN+ICE      IEL  A+W ALFE Y FFE+Y+NYLQVDIVA
Sbjct: 318 YNVSISTLRVMMEQFQYGNKICE-----GIELSNAQWGALFEPYLFFESYKNYLQVDIVA 372

Query: 121 ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
            D DDL  WKGWVESR RQLTL IE+DT G LQCHPYP++Y+D SK C + AFF GL RK
Sbjct: 373 VDIDDLRAWKGWVESRLRQLTLMIERDTFGKLQCHPYPHEYVDTSKQCSHCAFFMGLQRK 432

Query: 181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
           +    +E QQFD +GTV  FR  I+ Y   + G +IY S+V R+ +PS+VFP+GYK  RP
Sbjct: 433 QGEIIQEGQQFDIRGTVDEFRHSINMYMFWKPGMEIYVSHVRRKQIPSYVFPEGYKRSRP 492

Query: 241 SRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISSEVPQPVSPG 300
            R  N+Q G      + C++ SSE+ +KRKK+ E  +V  DK+ K+  IS +    VSP 
Sbjct: 493 QRPVNQQQGD-----EACRTGSSEKHMKRKKDPEEVDVEQDKAAKRLTISPQRQDSVSPE 547

Query: 301 MTT 303
           + +
Sbjct: 548 IIS 550

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297825665|ref|XP_002880715.1| nucleotidyltransferase family protein [Arabidopsis lyrata subsp. lyrata] gi|297326554|gb|EFH56974.1| nucleotidyltransferase family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  368 bits (944), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 187/306 (61%), Positives = 219/306 (71%), Gaps = 8/306 (2%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           MLVSRFFRVY QWRWPNPVM+C IE  EL F VWDPRKN +DR H MPIITPAY CMNSS
Sbjct: 272 MLVSRFFRVYIQWRWPNPVMLCTIEEDELSFPVWDPRKNHRDRYHLMPIITPAYPCMNSS 331

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           Y VS  TL+VMTEQFQ GN IC+     EIEL K +WS+LFE Y FFEAY+NYLQVD++A
Sbjct: 332 YNVSQSTLRVMTEQFQFGNTICQ-----EIELNKQQWSSLFEQYMFFEAYKNYLQVDVLA 386

Query: 121 ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
            DA+DLL WKGWVESRFRQLTLKIE+DTNG+L CHP PN+Y+D SK   + AFF GL R 
Sbjct: 387 LDAEDLLAWKGWVESRFRQLTLKIERDTNGMLMCHPQPNEYVDTSKKFRHCAFFMGLQRA 446

Query: 181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
           E    +ECQQFD +GTV  FR+ ++ Y   R G D+Y S+V RR LPSFVFP GYK  R 
Sbjct: 447 EGFGGQECQQFDIRGTVDEFRQEVNMYMFWRPGMDVYVSHVRRRQLPSFVFPKGYKRPRQ 506

Query: 241 SRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISS---EVPQPV 297
           SRH N+Q  +P E V    S S +   KRK ++E  + RP+K  K+A  S    +   PV
Sbjct: 507 SRHQNQQCREPGEGVVGSLSDSVDGYAKRKNDNETMDTRPEKREKRASRSPHSLDAVSPV 566

Query: 298 SPGMTT 303
           S G+TT
Sbjct: 567 SSGITT 572

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334184470|ref|NP_001189603.1| poly(A) polymerase 2 [Arabidopsis thaliana] gi|330252670|gb|AEC07764.1| poly(A) polymerase 2 [Arabidopsis thaliana]

 Score =  366 bits (940), Expect = 7e-99,   Method: Compositional matrix adjust.
 Identities = 184/306 (60%), Positives = 220/306 (71%), Gaps = 8/306 (2%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           MLVSRFFRVYTQWRWPNPVM+C IE  +L F VWDPRKN +DR H MPIITPAY CMNSS
Sbjct: 271 MLVSRFFRVYTQWRWPNPVMLCAIEEDDLSFPVWDPRKNHRDRYHLMPIITPAYPCMNSS 330

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           Y VS  TL+VMTEQFQ GN IC+     EIEL K  WS+LF+ Y FFEAY+NYLQVD++A
Sbjct: 331 YNVSQSTLRVMTEQFQFGNTICQ-----EIELNKQHWSSLFQQYMFFEAYKNYLQVDVLA 385

Query: 121 ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
           ADA+DLL WKGWVESRFRQLTLKIE+DTNG+L CHP PN+Y+D SK   + AFF GL R 
Sbjct: 386 ADAEDLLAWKGWVESRFRQLTLKIERDTNGMLMCHPQPNEYVDTSKQFRHCAFFMGLQRA 445

Query: 181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
           +    +ECQQFD +GTV  FR+ ++ Y   R G D++ S+V RR LPSFVFP+GYK  R 
Sbjct: 446 DGFGGQECQQFDIRGTVDEFRQEVNMYMFWRPGMDVHVSHVRRRQLPSFVFPNGYKRSRQ 505

Query: 241 SRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFIS---SEVPQPV 297
           SRH ++Q  +P ++     S S ER  KRK + EI   RP+K  K+A  S    +   P 
Sbjct: 506 SRHQSQQCREPGDEGVGSLSDSVERYAKRKNDDEIMNSRPEKREKRASCSLHTLDAASPD 565

Query: 298 SPGMTT 303
           S G+TT
Sbjct: 566 SSGITT 571

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297802710|ref|XP_002869239.1| poly(A) polymerase [Arabidopsis lyrata subsp. lyrata] gi|297315075|gb|EFH45498.1| poly(A) polymerase [Arabidopsis lyrata subsp. lyrata]

 Score =  366 bits (939), Expect = 9e-99,   Method: Compositional matrix adjust.
 Identities = 183/300 (61%), Positives = 217/300 (72%), Gaps = 6/300 (2%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           MLVSRFFRVYTQWRWPNPVM+C IE  ELGF VWDPRKN +DR H MPIITPAY CMNSS
Sbjct: 268 MLVSRFFRVYTQWRWPNPVMLCAIEEDELGFPVWDPRKNHRDRYHLMPIITPAYPCMNSS 327

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           Y VS  TL+VMTEQFQ GN I +     EIEL K  WS+LFE Y FFEAY+NYLQVDIVA
Sbjct: 328 YNVSQSTLRVMTEQFQFGNNILQ-----EIELNKQHWSSLFEQYMFFEAYKNYLQVDIVA 382

Query: 121 ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
            DA+DLL WKGWVESRFRQLTLKIE+DTNG+L CHP PN+Y+D ++   + AFF GL R 
Sbjct: 383 GDAEDLLAWKGWVESRFRQLTLKIERDTNGMLMCHPQPNEYVDTARQFLHCAFFMGLQRA 442

Query: 181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
           E    +ECQQFD +GTV  FR+ ++ Y   + G D++ S+V RR LP FVFP+GY+  R 
Sbjct: 443 EGVGGQECQQFDIRGTVDEFRQEVNMYMFWKPGMDVFVSHVRRRQLPPFVFPNGYRRPRQ 502

Query: 241 SRHFNEQSGKPCEDVKMCQSCS-SERQLKRKKEHEIKEVRPDKSVKQAFISSEVPQPVSP 299
           SRH N+  GK  ED  +  S S  ER  KRK + E+ + RP+K  K+A +S +    VSP
Sbjct: 503 SRHQNQPGGKSGEDGTVSHSGSVVERHAKRKNDSEMMDARPEKPEKRASLSPQSLDIVSP 562

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449461393|ref|XP_004148426.1| PREDICTED: poly(A) polymerase-like [Cucumis sativus]

 Score =  366 bits (939), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 189/306 (61%), Positives = 218/306 (71%), Gaps = 9/306 (2%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           MLVSRFFRVYTQWRWPNPVM+C IE  ELGF VWDPR+NP+DR H MPIITPAY CMNSS
Sbjct: 267 MLVSRFFRVYTQWRWPNPVMLCSIEENELGFPVWDPRRNPRDRFHLMPIITPAYPCMNSS 326

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           Y VS  TL+VM EQF+ GN ICE     EI+L KA+WSALFE Y FFE Y+NYLQVDI+A
Sbjct: 327 YNVSTSTLRVMMEQFRYGNSICE-----EIDLSKAQWSALFEPYLFFETYKNYLQVDIIA 381

Query: 121 ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
           ADADDLL WKGWVESRFRQLTLKIE+DT G+LQCHPYP +Y D SKPC + AFF GL RK
Sbjct: 382 ADADDLLAWKGWVESRFRQLTLKIERDTRGMLQCHPYPIEYSDTSKPCSHCAFFMGLQRK 441

Query: 181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
           E    +  QQFD +GTV  FR+ I+ Y   + G DIY S+V R+ LP+FVFPDG+K  +P
Sbjct: 442 EGLRGQGGQQFDIRGTVDEFRQEINMYAFWKPGMDIYVSHVRRKQLPTFVFPDGHKRAKP 501

Query: 241 SRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISSEVPQPVSPG 300
            RH  +Q    C D+   QS  +E+  KRK +HE +E    K  KQA IS    Q   P 
Sbjct: 502 LRHEGQQVDTVCADMLQDQSGITEKGKKRKSDHEEEE----KEKKQALISPPAEQSPMPE 557

Query: 301 MTTEDP 306
               DP
Sbjct: 558 FFGGDP 563

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30682917|ref|NP_850071.1| poly(A) polymerase 2 [Arabidopsis thaliana] gi|330252668|gb|AEC07762.1| poly(A) polymerase 2 [Arabidopsis thaliana]

 Score =  366 bits (939), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 184/306 (60%), Positives = 220/306 (71%), Gaps = 8/306 (2%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           MLVSRFFRVYTQWRWPNPVM+C IE  +L F VWDPRKN +DR H MPIITPAY CMNSS
Sbjct: 271 MLVSRFFRVYTQWRWPNPVMLCAIEEDDLSFPVWDPRKNHRDRYHLMPIITPAYPCMNSS 330

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           Y VS  TL+VMTEQFQ GN IC+     EIEL K  WS+LF+ Y FFEAY+NYLQVD++A
Sbjct: 331 YNVSQSTLRVMTEQFQFGNTICQ-----EIELNKQHWSSLFQQYMFFEAYKNYLQVDVLA 385

Query: 121 ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
           ADA+DLL WKGWVESRFRQLTLKIE+DTNG+L CHP PN+Y+D SK   + AFF GL R 
Sbjct: 386 ADAEDLLAWKGWVESRFRQLTLKIERDTNGMLMCHPQPNEYVDTSKQFRHCAFFMGLQRA 445

Query: 181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
           +    +ECQQFD +GTV  FR+ ++ Y   R G D++ S+V RR LPSFVFP+GYK  R 
Sbjct: 446 DGFGGQECQQFDIRGTVDEFRQEVNMYMFWRPGMDVHVSHVRRRQLPSFVFPNGYKRSRQ 505

Query: 241 SRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFIS---SEVPQPV 297
           SRH ++Q  +P ++     S S ER  KRK + EI   RP+K  K+A  S    +   P 
Sbjct: 506 SRHQSQQCREPGDEGVGSLSDSVERYAKRKNDDEIMNSRPEKREKRASCSLHTLDAASPD 565

Query: 298 SPGMTT 303
           S G+TT
Sbjct: 566 SSGITT 571

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

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	327
TAIR|locus:2043560	800	PAPS2 "poly(A) polymerase 2" [	0.911	0.372	0.584	2.7e-91
TAIR|locus:2134113	765	nPAP "nuclear poly(a) polymera	0.899	0.384	0.596	9.3e-91
TAIR|locus:2030943	713	PAPS1 "poly(A) polymerase 1" [	0.706	0.323	0.514	6.2e-62
DICTYBASE|DDB_G0288259	809	papA "poly(A) polymerase" [Dic	0.792	0.320	0.327	6.5e-32
ZFIN|ZDB-GENE-040426-1256	744	papolg "poly(A) polymerase gam	0.880	0.387	0.323	6.2e-31
UNIPROTKB|G3V2A0	475	PAPOLA "Poly(A) polymerase alp	0.892	0.614	0.308	6.2e-30
UNIPROTKB|Q3T0A2	693	PAPOLA "Poly(A) polymerase alp	0.892	0.421	0.311	1.7e-29
UNIPROTKB|G3MYA2	718	PAPOLA "Poly(A) polymerase alp	0.892	0.406	0.311	1.8e-29
UNIPROTKB|P25500	739	PAPOLA "Poly(A) polymerase alp	0.892	0.395	0.311	2e-29
UNIPROTKB|G3XAH6	724	PAPOLA "Poly(A) polymerase alp	0.892	0.403	0.308	5.1e-29

TAIR|locus:2043560 PAPS2 "poly(A) polymerase 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 179/306 (58%), Positives = 214/306 (69%)

Query:     1 MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
             MLVSRFFRVYTQWRWPNPVM+C IE  +L F VWDPRKN +DR H MPIITPAY CMNSS
Sbjct:   271 MLVSRFFRVYTQWRWPNPVMLCAIEEDDLSFPVWDPRKNHRDRYHLMPIITPAYPCMNSS 330

Query:    61 YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVX 120
             Y VS  TL+VMTEQFQ GN IC+     EIEL K  WS+LF+ Y FFEAY+NYLQVD++ 
Sbjct:   331 YNVSQSTLRVMTEQFQFGNTICQ-----EIELNKQHWSSLFQQYMFFEAYKNYLQVDVLA 385

Query:   121 XXXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
                  LL WKGWVESRFRQLTLKIE+DTNG+L CHP PN+Y+D SK   + AFF GL R 
Sbjct:   386 ADAEDLLAWKGWVESRFRQLTLKIERDTNGMLMCHPQPNEYVDTSKQFRHCAFFMGLQRA 445

Query:   181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
             +    +ECQQFD +GTV  FR+ ++ Y   R G D++ S+V RR LPSFVFP+GYK  R 
Sbjct:   446 DGFGGQECQQFDIRGTVDEFRQEVNMYMFWRPGMDVHVSHVRRRQLPSFVFPNGYKRSRQ 505

Query:   241 SRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISS---EVPQPV 297
             SRH ++Q  +P ++     S S ER  KRK + EI   RP+K  K+A  S    +   P 
Sbjct:   506 SRHQSQQCREPGDEGVGSLSDSVERYAKRKNDDEIMNSRPEKREKRASCSLHTLDAASPD 565

Query:   298 SPGMTT 303
             S G+TT
Sbjct:   566 SSGITT 571

GO:0003723 "RNA binding" evidence=IEA

GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA;IDA

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

GO:0016779 "nucleotidyltransferase activity" evidence=IEA;ISS

GO:0031123 "RNA 3'-end processing" evidence=IEA

GO:0043631 "RNA polyadenylation" evidence=IEA;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0006397 "mRNA processing" evidence=RCA

TAIR|locus:2134113 nPAP "nuclear poly(a) polymerase" [Arabidopsis thaliana (taxid:3702)]

 Score = 905 (323.6 bits), Expect = 9.3e-91, P = 9.3e-91
 Identities = 179/300 (59%), Positives = 211/300 (70%)

Query:     1 MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
             MLVSRFFRVYTQWRWPNPVM+C IE  ELGF VWD RKN +DR H MPIITPAY CMNSS
Sbjct:   269 MLVSRFFRVYTQWRWPNPVMLCAIEEDELGFPVWDRRKNHRDRYHLMPIITPAYPCMNSS 328

Query:    61 YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVX 120
             Y VS  TL+VMTEQFQ GN I +     EIEL K  WS+LFE Y FFEAY+NYLQVDIV 
Sbjct:   329 YNVSQSTLRVMTEQFQFGNNILQ-----EIELNKQHWSSLFEQYMFFEAYKNYLQVDIVA 383

Query:   121 XXXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
                  LL WKGWVESRFRQLTLKIE+DTNG+L CHP PN+Y+D ++   + AFF GL R 
Sbjct:   384 ADAEDLLAWKGWVESRFRQLTLKIERDTNGMLMCHPQPNEYVDTARQFLHCAFFMGLQRA 443

Query:   181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
             E    +ECQQFD +GTV  FR+ ++ Y   + G D++ S+V RR LP FVFP+GY+  R 
Sbjct:   444 EGVGGQECQQFDIRGTVDEFRQEVNMYMFWKPGMDVFVSHVRRRQLPPFVFPNGYRRPRQ 503

Query:   241 SRHFNEQSGKPCEDVKMCQSCSS-ERQLKRKKEHEIKEVRPDKSVKQAFISSEVPQPVSP 299
             SRH N   GK  ED  +  S S  ER  KRK + E+ +VRP+K  K+A +S +    VSP
Sbjct:   504 SRHQNLPGGKSGEDGSVSHSGSVVERHAKRKNDSEMMDVRPEKPEKRASLSPQSLDIVSP 563

GO:0003723 "RNA binding" evidence=IEA

GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0016779 "nucleotidyltransferase activity" evidence=IEA;ISS

GO:0031123 "RNA 3'-end processing" evidence=IEA

GO:0043631 "RNA polyadenylation" evidence=IEA;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0000911 "cytokinesis by cell plate formation" evidence=RCA

GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA

GO:0006623 "protein targeting to vacuole" evidence=RCA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0016192 "vesicle-mediated transport" evidence=RCA

TAIR|locus:2030943 PAPS1 "poly(A) polymerase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 633 (227.9 bits), Expect = 6.2e-62, P = 6.2e-62
 Identities = 124/241 (51%), Positives = 159/241 (65%)

Query:     1 MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
             +LVSRFFRV+ QW WPN + +C  + G LG  VWDPR NPKDR H MPIITPAY CMNSS
Sbjct:   259 ILVSRFFRVFYQWNWPNAIFLCSPDEGSLGLQVWDPRINPKDRLHIMPIITPAYPCMNSS 318

Query:    61 YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVX 120
             Y VS  TL++M  +FQ GN ICE      +E  KA+W  LFE + FFEAY+NYLQ+DI  
Sbjct:   319 YNVSESTLRIMKGEFQRGNEICEA-----MESNKADWDTLFEPFAFFEAYKNYLQIDISA 373

Query:   121 XXXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSRK 180
                  L  WKGWVESR RQLTLKIE+    +L CHP+P+ + D S+P  + ++F GL RK
Sbjct:   374 ANVDDLRKWKGWVESRLRQLTLKIERHFK-MLHCHPHPHDFQDTSRPL-HCSYFMGLQRK 431

Query:   181 EVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRP 240
             +   + E +QFD + TV+ F+  ++ Y +   G +I   ++ RR LP+FVFP G    RP
Sbjct:   432 QGVPAAEGEQFDIRRTVEEFKHTVNAYTLWIPGMEISVGHIKRRSLPNFVFPGGV---RP 488

Query:   241 S 241
             S
Sbjct:   489 S 489

GO:0003723 "RNA binding" evidence=IEA

GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA;IDA

GO:0016779 "nucleotidyltransferase activity" evidence=IEA;ISS

GO:0005515 "protein binding" evidence=IPI

GO:0043631 "RNA polyadenylation" evidence=IDA

GO:0000278 "mitotic cell cycle" evidence=RCA

GO:0006396 "RNA processing" evidence=RCA

DICTYBASE|DDB_G0288259 papA "poly(A) polymerase" [Dictyostelium discoideum (taxid:44689)]

 Score = 359 (131.4 bits), Expect = 6.5e-32, P = 6.5e-32
 Identities = 92/281 (32%), Positives = 140/281 (49%)

Query:     2 LVSRFFRVYTQWRWPNPVMMCPI-EMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
             ++ RFF+VY  W+WP P+++C I E G LG  VW+P++   D++H MPIITPAY  MNS+
Sbjct:   302 IIHRFFKVYEIWKWPAPILLCHIQEGGILGPKVWNPKR---DKAHLMPIITPAYPSMNST 358

Query:    61 YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVX 120
             Y VS  TLQ+M  +F  G  I       +IE G+  W  L E   FF  Y  Y+++D   
Sbjct:   359 YNVSKSTLQLMKSEFVRGAEITR-----KIETGECTWKNLLEKCDFFTRYSFYIEIDCYS 413

Query:   121 XXXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYP-------NKYIDPSKPCPNSAF 173
                     W+GW+ES+ R L   +E  T  +    PYP       +K  +P + C  ++F
Sbjct:   414 MNEEDSRKWEGWIESKLRFLISNLES-TPKMKFAVPYPKGFTNNLHKANNPDQIC--TSF 470

Query:   174 FWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNY---RVRREGRDIYFSYVCRRHLPSFV 230
             F GLS     T    +  D    V  F   I ++   +   +  DI   Y+ ++ LP+FV
Sbjct:   471 FMGLSFNFSNTPGADKSVDLTKAVTEFTGIIKDWLRTQPNPDTMDIKVQYIKKKQLPAFV 530

Query:   231 FPDGYKWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKK 271
               +G +    +      +G+P    K  +S +S+ +L   K
Sbjct:   531 KDEGPEEPVKTTKKRSSTGEPSATRKKLKSENSDNKLNSPK 571

GO:0043631 "RNA polyadenylation" evidence=IEA

GO:0031123 "RNA 3'-end processing" evidence=IEA

GO:0016779 "nucleotidyltransferase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;IBA

GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA;ISS;IBA

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005847 "mRNA cleavage and polyadenylation specificity factor complex" evidence=ISS

GO:0046872 "metal ion binding" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

ZFIN|ZDB-GENE-040426-1256 papolg "poly(A) polymerase gamma" [Danio rerio (taxid:7955)]

 Score = 349 (127.9 bits), Expect = 6.2e-31, P = 6.2e-31
 Identities = 103/318 (32%), Positives = 154/318 (48%)

Query:     2 LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
             LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct:   269 LVHKFFLVFSKWEWPNPVLLKQPEDSNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 328

Query:    62 KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVXX 121
              VS  T  +M E+F+ G  + +     EI  GKA+WS LFE   FF+ Y +Y+ +     
Sbjct:   329 NVSTSTRTIMNEEFKNGLTVTD-----EILQGKADWSKLFEPPNFFQQYRHYIVLTASAS 383

Query:   122 XXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPN-----SAFFWG 176
                  L W G VES+ R L   +E++    L  H  P  +   SK   N     S +F G
Sbjct:   384 TEENHLEWIGLVESKIRVLVGNLERNEYITL-AHVNPQSF-PGSKENRNENDFVSMWFIG 441

Query:   177 LSRKEVGTSKECQQFDFQGTVKNFR----RGIDNYRVRREGRDIYFSYVCRRHLPSFVFP 232
             +S K++  S +C   D    +++F     R   N  + ++G  I  ++V ++ L  ++ P
Sbjct:   442 ISFKKLDNS-DCVNIDLTYDIQSFTDTVYRQASNINMLKDGMTIEATHVKKKQLHHYLPP 500

Query:   233 DGYKWHRPSR-HFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFISS 291
             +  +  + S    N  S       K C   SS  QL   ++ +I    P  S       +
Sbjct:   501 ELVQRKKKSLGDINRSSNGGGS--KRCSLDSS--QLDSSRDTDIGT--PFSS------PT 548

Query:   292 EVPQPVSPGMTTEDPTNN 309
              + +P  P  T ED +++
Sbjct:   549 PISKPCQPASTPEDNSSS 566

GO:0016779 "nucleotidyltransferase activity" evidence=IEA

GO:0043631 "RNA polyadenylation" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA;IBA

GO:0031123 "RNA 3'-end processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;IBA

GO:0006378 "mRNA polyadenylation" evidence=IBA

UNIPROTKB|G3V2A0 PAPOLA "Poly(A) polymerase alpha" [Homo sapiens (taxid:9606)]

 Score = 331 (121.6 bits), Expect = 6.2e-30, P = 6.2e-30
 Identities = 98/318 (30%), Positives = 142/318 (44%)

Query:     2 LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
             LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct:    18 LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 77

Query:    62 KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVXX 121
              VS+ T  VM E+F+ G  I +     EI L KAEWS LFE   FF+ Y++Y+ +     
Sbjct:    78 NVSVSTRMVMVEEFKQGLAITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASAP 132

Query:   122 XXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAF--FW--GL 177
                  L W G VES+ R L   +E++   +   H  P  +  P +      F   W  GL
Sbjct:   133 TEKQRLEWVGLVESKIRILVGSLEKN-EFITLAHVNPQSFPAPKENPDKEEFRTMWVIGL 191

Query:   178 SRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDG 234
               K+   S+       +D Q       R   N ++      I   +V R+ L   +    
Sbjct:   192 VFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLL---- 247

Query:   235 YKWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFI----S 290
                  P+    ++     E VK+     S   L    ++ +    P  + K + +    S
Sbjct:   248 -----PNHVLQKKKKHSTEGVKLTALNDSSLDLSMDSDNSMSVPSPTSATKTSPLNSSGS 302

Query:   291 SEVPQPVSPGMTTEDPTN 308
             S+     +P +T    TN
Sbjct:   303 SQGRNSPAPAVTAASVTN 320

GO:0003723 "RNA binding" evidence=IEA

GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA

GO:0043631 "RNA polyadenylation" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

UNIPROTKB|Q3T0A2 PAPOLA "Poly(A) polymerase alpha" [Bos taurus (taxid:9913)]

 Score = 335 (123.0 bits), Expect = 1.7e-29, P = 1.7e-29
 Identities = 99/318 (31%), Positives = 143/318 (44%)

Query:     2 LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
             LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct:   268 LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 327

Query:    62 KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVXX 121
              VS+ T  VM E+F+ G  I +     EI L KAEWS LFE   FF+ Y++Y+ +     
Sbjct:   328 NVSVSTRMVMVEEFKQGLAITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASAP 382

Query:   122 XXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAF--FW--GL 177
                  L W G VES+ R L   +E++   +   H  P  +  P +      F   W  GL
Sbjct:   383 TEKQRLEWVGLVESKIRILVGSLEKN-EFITLAHVNPQSFPAPKENPDKEEFRTMWVIGL 441

Query:   178 SRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDG 234
               K+   S+       +D Q       R   N ++      I   +V R+ L   +    
Sbjct:   442 VFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLL---- 497

Query:   235 YKWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFI----S 290
                  PS    ++     E VK+     S   L    ++ +    P  ++K + +    S
Sbjct:   498 -----PSHVLQKKKKHSTEGVKLTPLNDSSLDLSMDSDNSMSVPSPTSAMKTSPLNSSGS 552

Query:   291 SEVPQPVSPGMTTEDPTN 308
             S+     +P +T    TN
Sbjct:   553 SQGRNSPAPAVTAASVTN 570

GO:0043631 "RNA polyadenylation" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|G3MYA2 PAPOLA "Poly(A) polymerase alpha" [Bos taurus (taxid:9913)]

 Score = 335 (123.0 bits), Expect = 1.8e-29, P = 1.8e-29
 Identities = 99/318 (31%), Positives = 143/318 (44%)

Query:     2 LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
             LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct:   268 LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 327

Query:    62 KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVXX 121
              VS+ T  VM E+F+ G  I +     EI L KAEWS LFE   FF+ Y++Y+ +     
Sbjct:   328 NVSVSTRMVMVEEFKQGLAITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASAP 382

Query:   122 XXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAF--FW--GL 177
                  L W G VES+ R L   +E++   +   H  P  +  P +      F   W  GL
Sbjct:   383 TEKQRLEWVGLVESKIRILVGSLEKN-EFITLAHVNPQSFPAPKENPDKEEFRTMWVIGL 441

Query:   178 SRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDG 234
               K+   S+       +D Q       R   N ++      I   +V R+ L   +    
Sbjct:   442 VFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLL---- 497

Query:   235 YKWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFI----S 290
                  PS    ++     E VK+     S   L    ++ +    P  ++K + +    S
Sbjct:   498 -----PSHVLQKKKKHSTEGVKLTPLNDSSLDLSMDSDNSMSVPSPTSAMKTSPLNSSGS 552

Query:   291 SEVPQPVSPGMTTEDPTN 308
             S+     +P +T    TN
Sbjct:   553 SQGRNSPAPAVTAASVTN 570

GO:0043631 "RNA polyadenylation" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|P25500 PAPOLA "Poly(A) polymerase alpha" [Bos taurus (taxid:9913)]

 Score = 335 (123.0 bits), Expect = 2.0e-29, P = 2.0e-29
 Identities = 99/318 (31%), Positives = 143/318 (44%)

Query:     2 LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
             LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct:   268 LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 327

Query:    62 KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVXX 121
              VS+ T  VM E+F+ G  I +     EI L KAEWS LFE   FF+ Y++Y+ +     
Sbjct:   328 NVSVSTRMVMVEEFKQGLAITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASAP 382

Query:   122 XXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAF--FW--GL 177
                  L W G VES+ R L   +E++   +   H  P  +  P +      F   W  GL
Sbjct:   383 TEKQRLEWVGLVESKIRILVGSLEKN-EFITLAHVNPQSFPAPKENPDKEEFRTMWVIGL 441

Query:   178 SRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDG 234
               K+   S+       +D Q       R   N ++      I   +V R+ L   +    
Sbjct:   442 VFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLL---- 497

Query:   235 YKWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFI----S 290
                  PS    ++     E VK+     S   L    ++ +    P  ++K + +    S
Sbjct:   498 -----PSHVLQKKKKHSTEGVKLTPLNDSSLDLSMDSDNSMSVPSPTSAMKTSPLNSSGS 552

Query:   291 SEVPQPVSPGMTTEDPTN 308
             S+     +P +T    TN
Sbjct:   553 SQGRNSPAPAVTAASVTN 570

GO:0005524 "ATP binding" evidence=IDA

GO:0000287 "magnesium ion binding" evidence=IDA

GO:0030145 "manganese ion binding" evidence=IDA

GO:0043631 "RNA polyadenylation" evidence=IDA

GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IDA

GO:0006378 "mRNA polyadenylation" evidence=IBA

GO:0006369 "termination of RNA polymerase II transcription" evidence=IBA

GO:0005737 "cytoplasm" evidence=IBA

GO:0005634 "nucleus" evidence=IBA

GO:0000398 "mRNA splicing, via spliceosome" evidence=IBA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|G3XAH6 PAPOLA "Poly(A) polymerase alpha" [Homo sapiens (taxid:9606)]

 Score = 331 (121.6 bits), Expect = 5.1e-29, P = 5.1e-29
 Identities = 98/318 (30%), Positives = 142/318 (44%)

Query:     2 LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
             LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct:   268 LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 327

Query:    62 KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVXX 121
              VS+ T  VM E+F+ G  I +     EI L KAEWS LFE   FF+ Y++Y+ +     
Sbjct:   328 NVSVSTRMVMVEEFKQGLAITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASAP 382

Query:   122 XXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAF--FW--GL 177
                  L W G VES+ R L   +E++   +   H  P  +  P +      F   W  GL
Sbjct:   383 TEKQRLEWVGLVESKIRILVGSLEKN-EFITLAHVNPQSFPAPKENPDKEEFRTMWVIGL 441

Query:   178 SRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDG 234
               K+   S+       +D Q       R   N ++      I   +V R+ L   +    
Sbjct:   442 VFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLL---- 497

Query:   235 YKWHRPSRHFNEQSGKPCEDVKMCQSCSSERQLKRKKEHEIKEVRPDKSVKQAFI----S 290
                  P+    ++     E VK+     S   L    ++ +    P  + K + +    S
Sbjct:   498 -----PNHVLQKKKKHSTEGVKLTALNDSSLDLSMDSDNSMSVPSPTSATKTSPLNSSGS 552

Query:   291 SEVPQPVSPGMTTEDPTN 308
             S+     +P +T    TN
Sbjct:   553 SQGRNSPAPAVTAASVTN 570

GO:0003723 "RNA binding" evidence=IEA

GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA

GO:0043631 "RNA polyadenylation" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.7.7	LOW CONFIDENCE prediction!
4th Layer	2.7.7.19	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	327
PTZ00418	593	PTZ00418, PTZ00418, Poly(A) polymerase; Provisiona	6e-53
pfam04928	349	pfam04928, PAP_central, Poly(A) polymerase central	1e-45
COG5186	552	COG5186, PAP1, Poly(A) polymerase [RNA processing	3e-38
pfam04926	141	pfam04926, PAP_RNA-bind, Poly(A) polymerase predic	9e-37

>gnl|CDD|240410 PTZ00418, PTZ00418, Poly(A) polymerase; Provisional

 Score =  182 bits (464), Expect = 6e-53
 Identities = 83/245 (33%), Positives = 129/245 (52%), Gaps = 22/245 (8%)

Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEM-----GELGFSVWDPRKNPKDRSHRMPIITPAYHC 56
           L+ +FFRVY+ W W NPV++C I+      G + F VWDPR NP+DR+H MPIITPA+  
Sbjct: 301 LIHKFFRVYSIWNWKNPVLLCKIKEVPNIPGLMNFKVWDPRVNPQDRAHLMPIITPAFPS 360

Query: 57  MNSSYKVSLGTLQVMTEQFQCGNRICEVRAYFEIEL-GKAEWSALFEHYPFFEAYENYLQ 115
           MNS++ V+  T +V+TE+F+  + I +      IE   +  W+ + E   FF +Y+++L 
Sbjct: 361 MNSTHNVTYTTKRVITEEFKRAHEIIKY-----IEKNSENTWTNVLEPLDFFTSYKHFLV 415

Query: 116 VDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYI---DPSKPCPNSA 172
           + + A +      W+GW+ES+ R L  K+E  T   L+  PYP  +    D       S+
Sbjct: 416 IQVYATNEHVHNKWEGWIESKIRFLIKKLE--TLNNLKIRPYPKFFKYQDDGWDYA--SS 471

Query: 173 FFWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNYRVRREGRD---IYFSYVCRRHLPSF 229
           FF GL             FD +  +++F   I+N+    +  D   I   Y+ +  LP+F
Sbjct: 472 FFIGLVFFS-KNVYNNSTFDLRYAIRDFVDIINNWPEMEKYPDQIDINIKYLKKSQLPAF 530

Query: 230 VFPDG 234
           V    
Sbjct: 531 VLSQT 535

Length = 593

>gnl|CDD|203124 pfam04928, PAP_central, Poly(A) polymerase central domain

 Score =  158 bits (401), Expect = 1e-45
 Identities = 58/102 (56%), Positives = 72/102 (70%), Gaps = 5/102 (4%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
            LV +FFR+++QW+WPNPV++ PIE G L F VWDPR  P DR H MPIITPAY  MNS+
Sbjct: 251 TLVRKFFRIFSQWQWPNPVLLKPIEEGPLNFRVWDPRLYPSDRYHLMPIITPAYPSMNST 310

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFE 102
           + V+  TL+V+TE+F+ G  I       EI LGKA WS LFE
Sbjct: 311 HNVTRSTLKVITEEFKRGLEITS-----EILLGKAPWSDLFE 347

The central domain of Poly(A) polymerase shares structural similarity with the allosteric activity domain of ribonucleotide reductase R1, which comprises a four-helix bundle and a three-stranded mixed beta- sheet. Even though the two enzymes bind ATP, the ATP-recognition motifs are different. Length = 349

>gnl|CDD|227513 COG5186, PAP1, Poly(A) polymerase [RNA processing and modification]

 Score =  142 bits (359), Expect = 3e-38
 Identities = 60/168 (35%), Positives = 94/168 (55%), Gaps = 7/168 (4%)

Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           +V +FF + + W WP PV++ PIE G L   VW+P+  P D+ HRMP+ITPAY  M +++
Sbjct: 255 IVCKFFEILSSWNWPQPVILKPIEDGPLQVRVWNPKVYPSDKYHRMPVITPAYPSMCATH 314

Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAA 121
            ++  T  V+  +F   ++I       +IE    +W  LFE   FF  Y+ YL++  +++
Sbjct: 315 NITNSTQHVILMEFVRAHKILS-----DIERNALDWRRLFEKSDFFSRYKLYLEITAMSS 369

Query: 122 DADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCP 169
             +D L W+G VES+ R L  K+E   + +L  HP+P K       C 
Sbjct: 370 CEEDFLKWEGLVESKIRILVSKLEA-VDDILYAHPFP-KAFRKVYNCV 415

Length = 552

>gnl|CDD|218331 pfam04926, PAP_RNA-bind, Poly(A) polymerase predicted RNA binding domain

 Score =  128 bits (324), Expect = 9e-37
 Identities = 48/144 (33%), Positives = 76/144 (52%), Gaps = 10/144 (6%)

Query: 105 PFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKY--- 161
            FF  Y++YLQ+   A + +D L W GWVES+ R L LK+E    G+   HP+P  +   
Sbjct: 1   DFFTKYKHYLQITASAKNEEDHLKWSGWVESKLRLLVLKLE-RVEGIKLAHPFPKGFEED 59

Query: 162 --IDPSKPCPNSAFFWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNYR-VRREGRDIYF 218
              + SK    ++FF GL  K+    +  ++ D    ++ F+  + ++   R  G DI  
Sbjct: 60  ESDEESKEIYTTSFFIGLELKK-KKEEGSKKLDITYAIQEFKDIVRSWPQYRPPGMDIEI 118

Query: 219 SYVCRRHLPSFVFPDGYKWHRPSR 242
            +V R+ LP FVFP+G +  RP +
Sbjct: 119 KHVKRKDLPDFVFPEGEQ--RPKK 140

Based on its similarity structurally to the RNA recognition motif this domain is thought to be RNA binding. Length = 141

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	327
KOG2245	562	consensus Poly(A) polymerase and related nucleotid	100.0
PTZ00418	593	Poly(A) polymerase; Provisional	100.0
COG5186	552	PAP1 Poly(A) polymerase [RNA processing and modifi	100.0
PF04926	157	PAP_RNA-bind: Poly(A) polymerase predicted RNA bin	100.0
PF04928	254	PAP_central: Poly(A) polymerase central domain; In	99.98
PF03813	972	Nrap: Nrap protein; InterPro: IPR005554 Members of	90.18

>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]

Probab=100.00  E-value=1.5e-69  Score=536.66  Aligned_cols=231  Identities=46%  Similarity=0.850  Sum_probs=214.3

Q ss_pred             ChhHHHHHhhccCCCCCCeeccccccCCCCccccCCCCCCCCCCCcceeeccCCCCCCcccccchhHHHHHHHHHHHHHH
Q 020365            1 MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNR   80 (327)
Q Consensus         1 mLv~rFF~vys~W~Wp~PV~L~~i~~~~l~~~vWdPr~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI~eEf~Rg~~   80 (327)
                      +||+|||++||+|+||+||+|+++++++|+++|||||.|++||+|+|||||||||+||||||||+||++||++||+||++
T Consensus       262 ~Lv~kfF~ifs~W~WP~PVlL~~ie~~~L~~~VWdPr~n~~DryHlMPIITPAyP~~nsthNVS~ST~~Vi~~Ef~~g~~  341 (562)
T KOG2245|consen  262 TLVAKFFRVFSQWNWPNPVLLKPIEEGNLNLPVWDPRVNPSDRYHLMPIITPAYPQMNSTHNVSRSTLKVITEEFKRGLE  341 (562)
T ss_pred             HHHHHHHHHHhhccCCCceEeccccccccCccccCCCCCCCCcceecccccCCcccccccccccHHHHHHHHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcccchhhhcCccchhhhhcCCccccccccEEEEEEEeCChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeEcCCCCC
Q 020365           81 ICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNK  160 (327)
Q Consensus        81 i~~~~~~~~i~~~~~~W~~Lfep~~FF~~Yk~yL~I~v~a~~~e~~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~  160 (327)
                      ||+     +|+.++.+|++|||+++||.+|||||+|+++|.++|++.+|.||||||+|+|+.+||++ .+++.|||+|+.
T Consensus       342 I~~-----~i~~~k~~W~~LFE~~~FF~rYk~yl~i~~~A~~~ed~l~w~G~vESriR~Lv~klE~~-~~i~~ahp~P~~  415 (562)
T KOG2245|consen  342 ICD-----DIELNKLDWSDLFELYNFFSRYKHYLQITASAATEEDLLKWVGWVESRIRQLVLKLERN-QVILIAHPNPKK  415 (562)
T ss_pred             HHH-----HHHhccccHHHHhhhhHHHHHHhhHheeeeeccChHHHhhhhhHHHHHHHHHHHHHHhh-cceEEecCCccc
Confidence            999     99999999999999999999999999999999999999999999999999999999996 577889999999


Q ss_pred             CCCCCC----CCCceeEEEeeeecccCCCCcCceechHHHHHHHHHHhc----cccccCCC--eEEEEEEeccCCCCCCc
Q 020365          161 YIDPSK----PCPNSAFFWGLSRKEVGTSKECQQFDFQGTVKNFRRGID----NYRVRREG--RDIYFSYVCRRHLPSFV  230 (327)
Q Consensus       161 f~d~~~----~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~~F~~~v~----~~~~~~~~--m~i~v~~Vkr~~LP~~V  230 (327)
                      |.++..    ..+.+.|||||.+.++.      ++||+..+++|.+.++    +...+.+|  |++.+.|+||++|+.++
T Consensus       416 f~~~~~~~~~~~~~~~~~igl~~~e~~------~~Dlt~~iq~f~~~v~~q~~~~~~~~~g~~~~~~~~~~krr~l~~~~  489 (562)
T KOG2245|consen  416 FKDTYNCPLEEDPESLWFIGLEFDENV------KIDLTKDIQSFKKNVERQAVNLTLIKAGCDVEIDFGHVKRRSLIQTI  489 (562)
T ss_pred             ccccccCCcccchhHhhhhcccccccc------cchhhhhHHHhhhhhhhcceeeeeeeccccccccccccccccccccc
Confidence            987653    23568899999987654      4899999999999887    45556788  88888899999999999


Q ss_pred             CCCCcccCCCCCC
Q 020365          231 FPDGYKWHRPSRH  243 (327)
Q Consensus       231 ~~~g~k~~~~~~~  243 (327)
                      +.+++++.+.-++
T Consensus       490 ~~~~l~~~k~~~~  502 (562)
T KOG2245|consen  490 TKEFLRLCKQYKK  502 (562)
T ss_pred             CHHHhhHHHhhcc
Confidence            9999887776655

>PTZ00418 Poly(A) polymerase; Provisional

Probab=100.00  E-value=1.1e-67  Score=538.56  Aligned_cols=234  Identities=35%  Similarity=0.665  Sum_probs=214.7

Q ss_pred             ChhHHHHHhhccCCCCCCeecccccc-----CCCCccccCCCCCCCCCCCcceeeccCCCCCCcccccchhHHHHHHHHH
Q 020365            1 MLVSRFFRVYTQWRWPNPVMMCPIEM-----GELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQF   75 (327)
Q Consensus         1 mLv~rFF~vys~W~Wp~PV~L~~i~~-----~~l~~~vWdPr~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI~eEf   75 (327)
                      +||++||.+|++|+||+||+|+++++     |.+|++||||+.|++|++|+|||||||||+||||||||.||+++|++||
T Consensus       300 ~Lv~~FF~iys~W~Wp~PV~L~~i~~~~~~~g~~~~~VWdPr~~~~dr~h~MPIITPayP~mNst~nVt~sT~~vI~~Ef  379 (593)
T PTZ00418        300 QLIHKFFRVYSIWNWKNPVLLCKIKEVPNIPGLMNFKVWDPRVNPQDRAHLMPIITPAFPSMNSTHNVTYTTKRVITEEF  379 (593)
T ss_pred             HHHHHHHHHhhcCCCCCCeEcccccccccCCcccCCcccCCCCCcccccccCCeecCCCCCccccccccHHHHHHHHHHH
Confidence            58999999999999999999999976     6789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhcccchhhhc-CccchhhhhcCCccccccccEEEEEEEeCChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeE
Q 020365           76 QCGNRICEVRAYFEIEL-GKAEWSALFEHYPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQC  154 (327)
Q Consensus        76 ~Rg~~i~~~~~~~~i~~-~~~~W~~Lfep~~FF~~Yk~yL~I~v~a~~~e~~~~W~GwVESRlR~Lv~~LE~~~~~~l~a  154 (327)
                      +||++||+     +|.. ++..|++||+|++||.+|++||+|++.|.+++++..|.||||||||.|+.+||+.  +.+.|
T Consensus       380 ~Ra~~i~~-----~i~~~~~~~W~~Lfep~~Ff~~Yk~yl~V~v~a~~~~~~~~w~G~VESRlR~Lv~~LE~~--~~i~~  452 (593)
T PTZ00418        380 KRAHEIIK-----YIEKNSENTWTNVLEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFLIKKLETL--NNLKI  452 (593)
T ss_pred             HHHHHHHH-----HHHhcCCCCHHHHcCCcchhhhcceEEEEEEEECCHHHhhhhhhHHHHHHHHHHHHhhcc--CCceE
Confidence            99999999     9988 8999999999999999999999999999999999999999999999999999974  44779


Q ss_pred             cCCCCCCCCCCC-CCCceeEEEeeeecccCCCCcCceechHHHHHHHHHHhccccc---cCCCeEEEEEEeccCCCCCCc
Q 020365          155 HPYPNKYIDPSK-PCPNSAFFWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNYRV---RREGRDIYFSYVCRRHLPSFV  230 (327)
Q Consensus       155 hp~P~~f~d~~~-~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~~F~~~v~~~~~---~~~~m~i~v~~Vkr~~LP~~V  230 (327)
                      ||||+.|.+... ..+.++|||||.++..... ...++||+.++++|.+.|++|..   |.++|+|+|+|||++|||+||
T Consensus       453 ~p~P~~f~~~~~~~~~~~~ffIGL~~~~~~~~-~~~~~Dl~~~~~~F~~~i~~~~~~~~~~~~~~i~v~~Vk~~~Lp~~v  531 (593)
T PTZ00418        453 RPYPKFFKYQDDGWDYASSFFIGLVFFSKNVY-NNSTFDLRYAIRDFVDIINNWPEMEKYPDQIDINIKYLKKSQLPAFV  531 (593)
T ss_pred             eecCcccccCCCCceeEEEEEEeEeeccCCCC-CCceEecHHHHHHHHHHHHhhhhcccCCCCceEEEEEeehHhCCHhh
Confidence            999999987653 3567899999999776432 33589999999999999998753   577899999999999999999


Q ss_pred             CCCCcccCCCCC
Q 020365          231 FPDGYKWHRPSR  242 (327)
Q Consensus       231 ~~~g~k~~~~~~  242 (327)
                      |++|++|+...+
T Consensus       532 ~~~~~~~~~~~~  543 (593)
T PTZ00418        532 LSQTPEEPVKTK  543 (593)
T ss_pred             ccCCCcCCCccc
Confidence            999988876555

>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]

Probab=100.00  E-value=6.6e-60  Score=454.31  Aligned_cols=232  Identities=33%  Similarity=0.639  Sum_probs=212.7

Q ss_pred             ChhHHHHHhhccCCCCCCeeccccccCCCCccccCCCCCCCCCCCcceeeccCCCCCCcccccchhHHHHHHHHHHHHHH
Q 020365            1 MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNR   80 (327)
Q Consensus         1 mLv~rFF~vys~W~Wp~PV~L~~i~~~~l~~~vWdPr~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI~eEf~Rg~~   80 (327)
                      .||+|||.++|+|+||+||+|+||+||+++++||||+.|++|++|.|||||||||+||+|||||.||..||..||-||++
T Consensus       254 vIv~kFF~ils~WnWPqPviLkPieDgplqvrvWnPKvYpsDk~HRMPvITPAYPSMCATHNit~STq~vIl~EfvRa~~  333 (552)
T COG5186         254 VIVCKFFEILSSWNWPQPVILKPIEDGPLQVRVWNPKVYPSDKYHRMPVITPAYPSMCATHNITNSTQHVILMEFVRAHK  333 (552)
T ss_pred             hHHHHHHHHHHhcCCCCCeEeeeccCCCeeEEeeCCccCcccccccCccccCCchhhhhhccccchhhhhHHHHHHHHHH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcccchhhhcCccchhhhhcCCccccccccEEEEEEEeCChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeEcCCCCC
Q 020365           81 ICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNK  160 (327)
Q Consensus        81 i~~~~~~~~i~~~~~~W~~Lfep~~FF~~Yk~yL~I~v~a~~~e~~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~  160 (327)
                      |++     +|+.+..+|..||+..+||.+||+||.|++.+.++|++.+|.|+|||++|.|+.+||-. .+++.|||||+.
T Consensus       334 I~~-----di~~n~~~w~~lFek~DFF~RYk~yleitA~s~~~E~~lKW~GlvESKiR~Lv~klE~v-d~i~~AhPF~K~  407 (552)
T COG5186         334 ILS-----DIERNALDWRRLFEKSDFFSRYKLYLEITAMSSCEEDFLKWEGLVESKIRILVSKLEAV-DDILYAHPFPKA  407 (552)
T ss_pred             hhh-----hHhhccccHHHHHHhhhHHHHHhHhhhhhhhhcchhhhhhhhhHHHHHHHHHHHHHHHh-hhhhhcCcCChh
Confidence            999     99999999999999999999999999999999999999999999999999999999975 577889999999


Q ss_pred             CCCC----------------------------------C---------CCCCceeEEEeeeecccCCCCcCceechHHHH
Q 020365          161 YIDP----------------------------------S---------KPCPNSAFFWGLSRKEVGTSKECQQFDFQGTV  197 (327)
Q Consensus       161 f~d~----------------------------------~---------~~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v  197 (327)
                      |...                                  .         -+.|.+.|||||++....   .++++||..++
T Consensus       408 F~~~y~c~~Ee~~e~i~~~~~~~~a~~s~d~~kl~~d~~~eees~~d~~k~y~tt~yIgld~~~~~---~~kkvdi~~p~  484 (552)
T COG5186         408 FRKVYNCVAEESIEKIGSGVTLEVAYESTDHEKLANDTVPEEESMEDGMKVYCTTFYIGLDVIPVK---PGKKVDIEQPV  484 (552)
T ss_pred             hhhhcCCccHHHHHHHhcccceeehhhccchhhhccccCchhhhhccccceeeeEEEEEEEeeecC---CCceeeeeccH
Confidence            8510                                  0         012457899999986543   36789999999


Q ss_pred             HHHHHHhccccccC-CCeEEEEEEeccCCCCCCcCCCCcccCCCC
Q 020365          198 KNFRRGIDNYRVRR-EGRDIYFSYVCRRHLPSFVFPDGYKWHRPS  241 (327)
Q Consensus       198 ~~F~~~v~~~~~~~-~~m~i~v~~Vkr~~LP~~V~~~g~k~~~~~  241 (327)
                      ++|.+.|+.|++++ .+|.|.|+.+|+++||+-||.+|+++|...
T Consensus       485 ~EF~elcr~~d~gd~~~mni~v~~~K~~dlpdeVF~~geerPs~~  529 (552)
T COG5186         485 KEFIELCREYDEGDASGMNIEVNSLKRKDLPDEVFYPGEERPSNS  529 (552)
T ss_pred             HHHHHHHHHhhccccceeeeehhhccccCCchhhcCCCccCcccc
Confidence            99999999998776 589999999999999999999998776643

>PF04926 PAP_RNA-bind: Poly(A) polymerase predicted RNA binding domain; InterPro: IPR007010 In eukaryotes, polyadenylation of pre-mRNA plays an essential role in the initiation step of protein synthesis, as well as in the export and stability of mRNAs

Probab=100.00  E-value=2e-36  Score=264.16  Aligned_cols=135  Identities=34%  Similarity=0.683  Sum_probs=105.6

Q ss_pred             ccccccccEEEEEEEeCChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeEcCCCCCCC------------------CCCC
Q 020365          105 PFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYI------------------DPSK  166 (327)
Q Consensus       105 ~FF~~Yk~yL~I~v~a~~~e~~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~------------------d~~~  166 (327)
                      +||.+|||||+|+|+|.+++++.+|.||||||||.||.+||+.. ++..|||||+.|.                  +...
T Consensus         1 ~FF~~Yk~yl~I~~~a~~~~~~~~W~G~VESrlR~Lv~~LE~~~-~i~~ahp~pk~f~~~~~~~~~~~~~~~~~~~~~~~   79 (157)
T PF04926_consen    1 DFFSRYKHYLQIDVSAKNEEDHRKWSGWVESRLRHLVQKLERNP-GIKLAHPFPKRFERVYECSEQADENNDEEEEEDPE   79 (157)
T ss_dssp             -HHHH-SEEEEEEEEECSHHHHHHHHHHHHCCHHHHHHHHHTST-TEEEEEE-SS-EEEEEE-EBECTTCTTSHHCHCTS
T ss_pred             ChhHhCceeEEEEEEeCCHHHHHHhhhHHHHHHHHHHHHHccCC-CeeEecCCCCccccccccccccccccccccccCCC
Confidence            69999999999999999999999999999999999999999974 5677999999998                  1223


Q ss_pred             CCCceeEEEeeeecccCCCCcCceechHHHHHHHHHHhccccc---cCCCeEEEEEEeccCCCCCCcCCCCcccCCC
Q 020365          167 PCPNSAFFWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNYRV---RREGRDIYFSYVCRRHLPSFVFPDGYKWHRP  240 (327)
Q Consensus       167 ~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~~F~~~v~~~~~---~~~~m~i~v~~Vkr~~LP~~V~~~g~k~~~~  240 (327)
                      ..+.++|||||++......+.+.++||+.++++|++.|++|..   +.++|+|+|+|||++|||++||++|.+|+++
T Consensus        80 ~~~~~~~fIGL~~~~~~~~~~~~~~dL~~~i~~F~~~v~~~~~~~~~~~~m~i~i~~vk~~~Lp~~v~~~~~~r~~k  156 (157)
T PF04926_consen   80 NEYTSSFFIGLEFDSKESNEGSKKLDLTYAIQEFKDLVRNWEKYYYDEEGMDISISHVKRSQLPDFVFEEGEKRPKK  156 (157)
T ss_dssp             EEEEEEEEEEEEE--SSSS---S-EE-HHHHHHHHHHHHCCCCTTC-TTTEEEEEEEEEHHHHGGGGS-TTS-----
T ss_pred             ceeEEEEEEEEEECCCCccccceEEehHHHHHHHHHHHHhhhccccCCCccEEEEEEechHHCChhhhcccCcCCCC
Confidence            4567999999999887643334689999999999999999877   3578999999999999999999999998875

Poly(A) polymerase, the enzyme at the heart of the polyadenylation machinery, is a template-independent RNA polymerase that specifically incorporates ATP at the 3' end of mRNA. The crystal structure of bovine poly(A) polymerase bound to an ATP analogue at 2.5 A resolution has been determined []. The structure revealed expected and unexpected similarities to other proteins. As expected, the catalytic domain of poly(A) polymerase shares substantial structural homology with other nucleotidyl transferases such as DNA polymerase beta and kanamycin transferase. The C-terminal domain unexpectedly folds into a compact domain reminiscent of the RNA-recognition motif fold. The three invariant aspartates of the catalytic triad ligate two of the three active site metals. One of these metals also contacts the adenine ring. Furthermore, conserved, catalytically important residues contact the nucleotide. These contacts, taken together with metal coordination of the adenine base, provide a structural basis for ATP selection by poly(A) polymerase. ; GO: 0003723 RNA binding, 0004652 polynucleotide adenylyltransferase activity, 0043631 RNA polyadenylation, 0005634 nucleus; PDB: 2O1P_A 2HHP_A 3C66_B 1FA0_A 2Q66_A 1Q79_A 1Q78_A 1F5A_A.

>PF04928 PAP_central: Poly(A) polymerase central domain; InterPro: IPR007012 In eukaryotes, polyadenylation of pre-mRNA plays an essential role in the initiation step of protein synthesis, as well as in the export and stability of mRNAs

Probab=99.98  E-value=8.4e-34  Score=266.46  Aligned_cols=99  Identities=57%  Similarity=1.057  Sum_probs=76.3

Q ss_pred             ChhHHHHHhhccCCCCCCeeccccccCCCCccccCCCCCCCCCCCcceeeccCCCCCCcccccchhHHHHHHHHHHHHHH
Q 020365            1 MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNR   80 (327)
Q Consensus         1 mLv~rFF~vys~W~Wp~PV~L~~i~~~~l~~~vWdPr~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI~eEf~Rg~~   80 (327)
                      +||.+||.+||+|+||+||+|++++++.+++++|||+.|++|++|+|||||||||+||||||||+||+++|++||+||++
T Consensus       156 ~ll~~FF~~ys~W~W~~PV~l~~~~~~~~~~~~w~p~~~~~~~~~~MpIiTP~yP~~Nst~nVt~st~~~i~~Ef~ra~~  235 (254)
T PF04928_consen  156 TLLSRFFQIYSQWDWPNPVVLDPIEDGPLGFKVWNPRLYPRDRRHLMPIITPAYPSMNSTYNVTRSTLRIIREEFQRAHE  235 (254)
T ss_dssp             HHHHHHHHHHHCS-TTS-EESS-----SSSCGS--TTT-HHHHC-SS-EE-SSSS--BTTTT--HHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHhcCCCCCCceeecccccCcccccCCCCCCCCCCcccceeEccCCCCccccccccCHHHHHHHHHHHHHHHH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcccchhhhcCccchhhhhcCC
Q 020365           81 ICEVRAYFEIELGKAEWSALFEHY  104 (327)
Q Consensus        81 i~~~~~~~~i~~~~~~W~~Lfep~  104 (327)
                      ||+     ++..++.+|++||+|+
T Consensus       236 i~~-----~~~~~~~~W~~L~e~~  254 (254)
T PF04928_consen  236 ILS-----EILKGGASWSDLFEPH  254 (254)
T ss_dssp             HHH-----HHHTTSS-HHHCT---
T ss_pred             HHH-----HHHcCCCCHHHHcCCC
Confidence            999     9999999999999985

Poly(A) polymerase, the enzyme at the heart of the polyadenylation machinery, is a template-independent RNA polymerase which specifically incorporates ATP at the 3' end of mRNA. The crystal structure of bovine poly(A) polymerase bound to an ATP analog at 2.5 A resolutio has been determined []. The structure revealed expected and unexpected similarities to other proteins. As expected, the catalytic domain of poly(A) polymerase shares substantial structural homology with other nucleotidyl transferases such as DNA polymerase beta and kanamycin transferase. The central domain of Poly(A) polymerase shares structural similarity with the allosteric activity domain of ribonucleotide reductase R1, which comprises a four-helix bundle and a three-stranded mixed beta-sheet. Even though the two enzymes bind ATP, the ATP-recognition motifs are different.; GO: 0004652 polynucleotide adenylyltransferase activity, 0006351 transcription, DNA-dependent; PDB: 1Q79_A 1Q78_A 1F5A_A 2O1P_A 2HHP_A 3C66_B 1FA0_A 2Q66_A.

>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human

Probab=90.18  E-value=4.1  Score=45.77  Aligned_cols=183  Identities=10%  Similarity=0.132  Sum_probs=105.8

Q ss_pred             hhHHHHHhhccCCC-CCCeeccccccCCCCccccCCCCCCCCCCCcceeeccCCCCCCcccccchhHHHHHHHHHHHHHH
Q 020365            2 LVSRFFRVYTQWRW-PNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNR   80 (327)
Q Consensus         2 Lv~rFF~vys~W~W-p~PV~L~~i~~~~l~~~vWdPr~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI~eEf~Rg~~   80 (327)
                      |+.-+....|..+| -+|+.++.-.+...       .. .....+--||+--.-=.+|-.+++|.++++.|+.|-+++.+
T Consensus       224 lFr~~l~fLA~~d~~~~~l~~~~~~~~~~-------~~-~~~~~~~~~vf~D~sg~~Nl~~~ms~~s~~~L~~eA~~tl~  295 (972)
T PF03813_consen  224 LFRAVLQFLATTDLSKKPLFFKSSSDSTE-------SL-EEFHSAFDPVFVDPSGGLNLLAKMSPSSYEELQHEAKLTLE  295 (972)
T ss_pred             HHHHHHHHHhccccccCceEEecCCCccc-------hh-hhhhccCCeEEEeCCCCEEEEEcCCHHHHHHHHHHHHHHHH
Confidence            44556667799999 56999987653110       00 11123445555555568999999999999999999999999


Q ss_pred             hhhcccchhhhcCccchhhhhc-C-CccccccccEEEEE---EEe----CChhhhhhhhhhhhhHHHHHH-HHhhhcCCC
Q 020365           81 ICEVRAYFEIELGKAEWSALFE-H-YPFFEAYENYLQVD---IVA----ADADDLLTWKGWVESRFRQLT-LKIEQDTNG  150 (327)
Q Consensus        81 i~~~~~~~~i~~~~~~W~~Lfe-p-~~FF~~Yk~yL~I~---v~a----~~~e~~~~W~GwVESRlR~Lv-~~LE~~~~~  150 (327)
                      +++     +-  ....-+.+|- + .++..+|.+++.|.   ...    ....+...+...++.++-.|+ ..|-...  
T Consensus       296 lL~-----~~--~~d~F~~lFl~~~~~~~~~fD~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~lL~raLgdR~--  366 (972)
T PF03813_consen  296 LLD-----DS--SDDGFDSLFLTKVDPPALRFDHVLRISPDSLLSSFSPDESLDFLSFSNYLLRKIYRLLKRALGDRA--  366 (972)
T ss_pred             Hhc-----cc--cccchhhhhcccCCcccccCCEEEEEcchhhcccccccccccccchhHHHHHHHHHHHHHHHHHHH--
Confidence            988     32  2234666664 4 45678999999991   111    222333444445666775543 3453221  


Q ss_pred             ceeEcCCC---CCCC--CCCCCCCceeEEEeeeecccCC---CCcCceechHHHHHHHHH
Q 020365          151 LLQCHPYP---NKYI--DPSKPCPNSAFFWGLSRKEVGT---SKECQQFDFQGTVKNFRR  202 (327)
Q Consensus       151 ~l~ahp~P---~~f~--d~~~~~~~~~ffIGL~~~~~~~---~~~~~~~DL~~~v~~F~~  202 (327)
                       -.++++.   ..+.  ............|||.++....   +.-|...|-.....+|++
T Consensus       367 -~~i~v~~~~~~~w~i~~~~~~~~~~~l~vGl~ln~~~~~r~vd~GP~a~d~~ea~~FR~  425 (972)
T PF03813_consen  367 -KLIRVLRPSQPPWSISSKPPKSKPKTLTVGLILNPENAFRLVDRGPSAEDKEEAAAFRE  425 (972)
T ss_pred             -HeEEEeCCCCCCcccCCCCCCCCCceEEEEEEEchhhceeeeeeCcCCcCcHHHHHHHH
Confidence             1233331   1221  1111111226789999876321   112223345567777876

In the mouse, Nrap is ubiquitously expressed and is specifically localized in the nucleolus []. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	327
1q79_A	514	Crystal Structure Of Mammalian Poly(A) Polymerase L		3e-31
1q78_A	514	Crystal Structure Of Poly(A) Polymerase In Complex		3e-31
1f5a_A	513	Crystal Structure Of Mammalian Poly(A) Polymerase L		1e-26
2q66_A	525	Structure Of Yeast Poly(A) Polymerase With Atp And		3e-25
2hhp_A	530	Structure Of Yeast Poly(A) Polymerase In A Closed C		3e-25
1fa0_A	537	Structure Of Yeast Poly(A) Polymerase Bound To Mang		3e-25
2o1p_A	546	Structure Of Yeast Poly(A) Polymerase In A Somewhat		3e-25

>pdb|1Q79|A Chain A, Crystal Structure Of Mammalian Poly(A) Polymerase Length = 514

Iteration: 1
 Score =  132 bits (332), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 83/231 (35%), Positives = 115/231 (49%), Gaps = 11/231 (4%)
Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct: 268 LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 327
Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVXX 121
            VS+ T  VM E+F+ G  I +     EI L KAEWS LFE   FF+ Y++Y+ +     
Sbjct: 328 NVSVSTRMVMVEEFKQGLAITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASAP 382
Query: 122 XXXXLLTWKGWVESRFRQLTLKIEQD---TNGLLQCHPYPNKYIDPSKPCPNSAFFWGLS 178
                L W G VES+ R L   +E++   T   +    +P    +P K    + +  GL 
Sbjct: 383 TEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKENPDKEEFRTMWVIGLV 442
Query: 179 RKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHL 226
            K+   S+       +D Q       R   N ++      I   +V R+ L
Sbjct: 443 FKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQL 493

>pdb|1Q78|A Chain A, Crystal Structure Of Poly(A) Polymerase In Complex With 3'- Datp And Magnesium Chloride Length = 514

Iteration: 1
 Score =  132 bits (331), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 83/231 (35%), Positives = 115/231 (49%), Gaps = 11/231 (4%)
Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+Y
Sbjct: 268 LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTY 327
Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVXX 121
            VS+ T  VM E+F+ G  I +     EI L KAEWS LFE   FF+ Y++Y+ +     
Sbjct: 328 NVSVSTRMVMVEEFKQGLAITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASAP 382
Query: 122 XXXXLLTWKGWVESRFRQLTLKIEQD---TNGLLQCHPYPNKYIDPSKPCPNSAFFWGLS 178
                L W G VES+ R L   +E++   T   +    +P    +P K    + +  GL 
Sbjct: 383 TEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKENPDKEEFRTMWVIGLV 442
Query: 179 RKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHL 226
            K+   S+       +D Q       R   N ++      I   +V R+ L
Sbjct: 443 FKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQL 493

>pdb|1F5A|A Chain A, Crystal Structure Of Mammalian Poly(A) Polymerase Length = 513

Iteration: 1
 Score =  117 bits (292), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 81/231 (35%), Positives = 112/231 (48%), Gaps = 11/231 (4%)
Query: 2   LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSY 61
           LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H  PIITPAY   NS+Y
Sbjct: 268 LVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLXPIITPAYPQQNSTY 327
Query: 62  KVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVXX 121
            VS+ T  V  E+F+ G  I +     EI L KAEWS LFE   FF+ Y++Y+ +     
Sbjct: 328 NVSVSTRXVXVEEFKQGLAITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASAP 382
Query: 122 XXXXLLTWKGWVESRFRQLTLKIEQD---TNGLLQCHPYPNKYIDPSKPCPNSAFFWGLS 178
                L W G VES+ R L   +E++   T   +    +P    +P K    + +  GL 
Sbjct: 383 TEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKENPDKEEFRTXWVIGLV 442
Query: 179 RKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHL 226
            K+   S+       +D Q       R   N +       I   +V R+ L
Sbjct: 443 FKKTENSENLSVDLTYDIQSFTDTVYRQAINSKXFEVDXKIAAXHVKRKQL 493

>pdb|2Q66|A Chain A, Structure Of Yeast Poly(A) Polymerase With Atp And Oligo(A) Length = 525

Iteration: 1
 Score =  112 bits (280), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 62/171 (36%), Positives = 96/171 (56%), Gaps = 8/171 (4%)
Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           ++++RFF + ++W WP PV++ PIE G L   VW+P+   +DRSHRMP+ITPAY  M ++
Sbjct: 250 VILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCAT 309
Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDI-V 119
           + ++  T +V+ ++F  G +I       +I   K  W+ LFE   FF  Y+ YL++    
Sbjct: 310 HNITESTKKVILQEFVRGVQITN-----DIFSNKKSWANLFEKNDFFFRYKFYLEITAYT 364
Query: 120 XXXXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPN 170
                  L W G VES+ R L +K+E    G+   HP+  K  + S  CP 
Sbjct: 365 RGSDEQHLKWSGLVESKVRLLVMKLEV-LAGIKIAHPF-TKPFESSYCCPT 413

>pdb|2HHP|A Chain A, Structure Of Yeast Poly(A) Polymerase In A Closed Conformation Length = 530

Iteration: 1
 Score =  112 bits (280), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 62/171 (36%), Positives = 96/171 (56%), Gaps = 8/171 (4%)
Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           ++++RFF + ++W WP PV++ PIE G L   VW+P+   +DRSHRMP+ITPAY  M ++
Sbjct: 254 VILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCAT 313
Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDI-V 119
           + ++  T +V+ ++F  G +I       +I   K  W+ LFE   FF  Y+ YL++    
Sbjct: 314 HNITESTKKVILQEFVRGVQITN-----DIFSNKKSWANLFEKNDFFFRYKFYLEITAYT 368
Query: 120 XXXXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPN 170
                  L W G VES+ R L +K+E    G+   HP+  K  + S  CP 
Sbjct: 369 RGSDEQHLKWSGLVESKVRLLVMKLEV-LAGIKIAHPF-TKPFESSYCCPT 417

>pdb|1FA0|A Chain A, Structure Of Yeast Poly(A) Polymerase Bound To Manganate And 3'-Datp Length = 537

Iteration: 1
 Score =  112 bits (280), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 62/171 (36%), Positives = 96/171 (56%), Gaps = 8/171 (4%)
Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           ++++RFF + ++W WP PV++ PIE G L   VW+P+   +DRSHRMP+ITPAY  M ++
Sbjct: 254 VILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCAT 313
Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDI-V 119
           + ++  T +V+ ++F  G +I       +I   K  W+ LFE   FF  Y+ YL++    
Sbjct: 314 HNITESTKKVILQEFVRGVQITN-----DIFSNKKSWANLFEKNDFFFRYKFYLEITAYT 368
Query: 120 XXXXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPN 170
                  L W G VES+ R L +K+E    G+   HP+  K  + S  CP 
Sbjct: 369 RGSDEQHLKWSGLVESKVRLLVMKLEV-LAGIKIAHPF-TKPFESSYCCPT 417

>pdb|2O1P|A Chain A, Structure Of Yeast Poly(A) Polymerase In A Somewhat Closed State Length = 546

Iteration: 1
 Score =  112 bits (280), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 62/171 (36%), Positives = 96/171 (56%), Gaps = 8/171 (4%)
Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           ++++RFF + ++W WP PV++ PIE G L   VW+P+   +DRSHRMP+ITPAY  M ++
Sbjct: 254 VILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCAT 313
Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDI-V 119
           + ++  T +V+ ++F  G +I       +I   K  W+ LFE   FF  Y+ YL++    
Sbjct: 314 HNITESTKKVILQEFVRGVQITN-----DIFSNKKSWANLFEKNDFFFRYKFYLEITAYT 368
Query: 120 XXXXXXLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPN 170
                  L W G VES+ R L +K+E    G+   HP+  K  + S  CP 
Sbjct: 369 RGSDEQHLKWSGLVESKVRLLVMKLEV-LAGIKIAHPF-TKPFESSYCCPT 417
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	327
1q79_A	514	Poly(A) polymerase alpha; mRNA processing, nucleot	4e-67
2hhp_A	530	Poly(A) polymerase; template-independent RNA polym	5e-57

>1q79_A Poly(A) polymerase alpha; mRNA processing, nucleotidyl transferase, transferase; HET: 3AT; 2.15A {Bos taurus} SCOP: a.160.1.1 d.218.1.3 d.58.16.1 PDB: 1q78_A* 1f5a_A* Length = 514

 Score =  218 bits (555), Expect = 4e-67
 Identities = 89/253 (35%), Positives = 120/253 (47%), Gaps = 17/253 (6%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
            LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+
Sbjct: 267 TLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNST 326

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           Y VS+ T  VM E+F+ G  I +     EI L KAEWS LFE   FF+ Y++Y+ +   A
Sbjct: 327 YNVSVSTRMVMVEEFKQGLAITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASA 381

Query: 121 ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYI----DPSKPCPNSAFFWG 176
                 L W G VES+ R L   +E++    L  H  P  +     +P K    + +  G
Sbjct: 382 PTEKQRLEWVGLVESKIRILVGSLEKNEFITL-AHVNPQSFPAPKENPDKEEFRTMWVIG 440

Query: 177 LSRKEVGTSKECQ---QFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRR----HLPSF 229
           L  K+   S+       +D Q       R   N ++      I   +V R+     LPS 
Sbjct: 441 LVFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLLPSH 500

Query: 230 VFPDGYKWHRPSR 242
           V     K      
Sbjct: 501 VLQKKKKHSTEGV 513

>2hhp_A Poly(A) polymerase; template-independent RNA polymerase, transferase; HET: FLC; 1.80A {Saccharomyces cerevisiae} SCOP: a.160.1.1 d.218.1.3 d.58.16.1 PDB: 1fa0_A* 3c66_A* 2o1p_A 2q66_A* Length = 530

 Score =  192 bits (487), Expect = 5e-57
 Identities = 74/286 (25%), Positives = 121/286 (42%), Gaps = 54/286 (18%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           ++++RFF + ++W WP PV++ PIE G L   VW+P+   +DRSHRMP+ITPAY  M ++
Sbjct: 254 VILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCAT 313

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVA 120
           + ++  T +V+ ++F  G +I       +I   K  W+ LFE   FF  Y+ YL++    
Sbjct: 314 HNITESTKKVILQEFVRGVQITN-----DIFSNKKSWANLFEKNDFFFRYKFYLEITAYT 368

Query: 121 ADADD-LLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDPSKPCPNSAFFWGLSR 179
             +D+  L W G VES+ R L +K+E    G+   HP+   + + S  CP    +  +  
Sbjct: 369 RGSDEQHLKWSGLVESKVRLLVMKLEV-LAGIKIAHPFTKPF-ESSYCCPTEDDYEMIQD 426

Query: 180 KEVGTSKECQQFDFQGTVKNFR-------------------------------------- 201
           K      E      +      +                                      
Sbjct: 427 KYGSHKTETALNALKLVTDENKEEESIKDAPKAYLSTMYIGLDFNIENKKEKVDIHIPCT 486

Query: 202 ------RGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWHRPS 241
                 R  +      +  ++   +V    LP  VF +  K  RPS
Sbjct: 487 EFVNLCRSFNEDYGDHKVFNLALRFVKGYDLPDEVFDENEK--RPS 530

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	327
1q79_A	514	Poly(A) polymerase alpha; mRNA processing, nucleot	100.0
2hhp_A	530	Poly(A) polymerase; template-independent RNA polym	100.0
4fh3_A	349	Poly(A) RNA polymerase protein CID1; nucleotidyltr	99.24
4e8f_A	405	Poly(A) RNA polymerase protein CID1; beta polymera	99.0
2ikf_A	353	RNA uridylyl transferase; tutase, nucleotidyltrans	98.79
2b4v_A	468	RNA editing complex protein MP57; tbret2, TBMP57,	97.77
3nyb_A	323	Poly(A) RNA polymerase protein 2; polya RNA polyme	97.61
3hj4_A	384	Minor editosome-associated tutase; nucleotidyltran	91.48
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	90.23

>1q79_A Poly(A) polymerase alpha; mRNA processing, nucleotidyl transferase, transferase; HET: 3AT; 2.15A {Bos taurus} SCOP: a.160.1.1 d.218.1.3 d.58.16.1 PDB: 1q78_A* 1f5a_A*

Probab=100.00  E-value=8.5e-61  Score=485.52  Aligned_cols=238  Identities=34%  Similarity=0.542  Sum_probs=206.4

Q ss_pred             ChhHHHHHhhccCCCCCCeeccccccCCCCccccCCCCCCCCCCCcceeeccCCCCCCcccccchhHHHHHHHHHHHHHH
Q 020365            1 MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNR   80 (327)
Q Consensus         1 mLv~rFF~vys~W~Wp~PV~L~~i~~~~l~~~vWdPr~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI~eEf~Rg~~   80 (327)
                      +||.+||.+|++|+|++||+|++++++.+++++|||+.|++|++|+||||||+||++|+|+|||+||+++|++||+||++
T Consensus       267 ~LL~~FF~~y~~~dw~~pV~l~~~~~~~l~~~~w~p~~~~~dr~~~m~IidP~~P~~N~~~nVs~st~~~I~~Ef~rA~~  346 (514)
T 1q79_A          267 TLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEEFKQGLA  346 (514)
T ss_dssp             HHHHHHHHHHHSCCTTSCBCSSCCCCCSSCCCCCCTTTCGGGGGCSSCBBCSSSSCCBTTTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCCCeEecccCCCCCCCcccCCccCCcCcccceeEeCCCCCCCcccccCCHHHHHHHHHHHHHHHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcccchhhhcCccchhhhhcCCccccccccEEEEEEEeCChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeEcCCCCC
Q 020365           81 ICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNK  160 (327)
Q Consensus        81 i~~~~~~~~i~~~~~~W~~Lfep~~FF~~Yk~yL~I~v~a~~~e~~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~  160 (327)
                      +++     +|..++.+|++||++++||.+|+|||+|+|+|.+++++.+|.||||||||.|+.+||+. ..+..|||||+.
T Consensus       347 il~-----~i~~~~~~w~~Lf~~~~ff~~y~~yl~v~~~a~~~~~~~~w~G~veSr~r~Lv~~le~~-~~i~~a~~~P~~  420 (514)
T 1q79_A          347 ITD-----EILLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKN-EFITLAHVNPQS  420 (514)
T ss_dssp             HHH-----HHHTTSSCHHHHTCCCCHHHHCSEEEEEEEEESSHHHHHHHHHHHHTTHHHHHHHHHTS-TTEEEEEECSCC
T ss_pred             HHH-----HHhcCCCCHHHHhCCcchhhhcceEEEEEEEECCHHHhhhheehhhhhHHHHHHHhccC-CCceeeecCccc
Confidence            999     99999999999999999999999999999999999999999999999999999999985 344559999999


Q ss_pred             CCCCCC----CCCceeEEEeeeeccc---CCCCcCceechHHHHHHHHHHhccccccCCCeEEEEEEeccCCCCCCcCCC
Q 020365          161 YIDPSK----PCPNSAFFWGLSRKEV---GTSKECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFSYVCRRHLPSFVFPD  233 (327)
Q Consensus       161 f~d~~~----~~~~~~ffIGL~~~~~---~~~~~~~~~DL~~~v~~F~~~v~~~~~~~~~m~i~v~~Vkr~~LP~~V~~~  233 (327)
                      |.+...    ..+.++|||||+++..   ...+.+.++||+.++++|.+.|++|..|++||+|+|+|||+++||++||++
T Consensus       421 f~~~~~~~~~~~~~~~~~iGL~~~~~~~~~~~~~~~~~di~~~~~~F~~~~~~~~~~~~~~~i~v~~vk~~~Lp~~v~~~  500 (514)
T 1q79_A          421 FPAPKENPDKEEFRTMWVIGLVFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLLPSH  500 (514)
T ss_dssp             EECCCSCTTSCCEEEEEEEEEEEC----------CCHHHHHHHHHHHHHHHHHTTCCCTTCEEEEEEEEHHHHGGGCC--
T ss_pred             cCCccccccCCceeEEEEEEEeecccccccccCcccccchHHHHHHHHHHHhhccccCCCcEEEEEEechHHCchhhcch
Confidence            976643    3567899999998762   222356789999999999999999999999999999999999999999999


Q ss_pred             CcccCCCCCCc
Q 020365          234 GYKWHRPSRHF  244 (327)
Q Consensus       234 g~k~~~~~~~~  244 (327)
                      |+++.|+.+..
T Consensus       501 ~~~~~~~~~~~  511 (514)
T 1q79_A          501 VLQKKKKHSTE  511 (514)
T ss_dssp             -----------
T ss_pred             hccCCCCCCcc
Confidence            99999886653

>2hhp_A Poly(A) polymerase; template-independent RNA polymerase, transferase; HET: FLC; 1.80A {Saccharomyces cerevisiae} SCOP: a.160.1.1 d.218.1.3 d.58.16.1 PDB: 1fa0_A* 3c66_A* 2o1p_A 2q66_A*

Probab=100.00  E-value=6.5e-57  Score=458.52  Aligned_cols=230  Identities=30%  Similarity=0.571  Sum_probs=209.6

Q ss_pred             ChhHHHHHhhccCCCCCCeeccccccCCCCccccCCCCCCCCCCCcceeeccCCCCCCcccccchhHHHHHHHHHHHHHH
Q 020365            1 MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNR   80 (327)
Q Consensus         1 mLv~rFF~vys~W~Wp~PV~L~~i~~~~l~~~vWdPr~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI~eEf~Rg~~   80 (327)
                      +||.+||.+|++|+|++||+|++++++.+++++|+|+.|.+|+.|+||||||+||++|+|+|||.||+++|++||+||++
T Consensus       254 ~LL~~FF~~y~~~dw~~pV~l~~~~~g~~~~~~w~p~~~~~d~~~~m~Ii~P~~P~~N~a~nVs~st~~~I~~Ef~rA~~  333 (530)
T 2hhp_A          254 VILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCATHNITESTKKVILQEFVRGVQ  333 (530)
T ss_dssp             HHHHHHHHHHHHCCTTSCEESSCCCCCSSCSCCCCTTTCHHHHTCSSCEECSSSSCCBTTTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCCceEecccCCCCccccccCcccCCCCCccceeEECCCCCCCccCccCCHHHHHHHHHHHHHHHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcccchhhhcCccchhhhhcCCccccccccEEEEEEEeC-ChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeEcCCCC
Q 020365           81 ICEVRAYFEIELGKAEWSALFEHYPFFEAYENYLQVDIVAA-DADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPN  159 (327)
Q Consensus        81 i~~~~~~~~i~~~~~~W~~Lfep~~FF~~Yk~yL~I~v~a~-~~e~~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~  159 (327)
                      +++     +|..++.+|..||++++||.+|+|||+|++++. +++++..|.||||||||.|+.+||+ ..++..|||||+
T Consensus       334 ll~-----~i~~~~~~w~~Lf~~~~ff~~y~~~l~i~~~~~g~~~~~~~w~G~veSr~r~Lv~~Le~-~~~i~~a~~~p~  407 (530)
T 2hhp_A          334 ITN-----DIFSNKKSWANLFEKNDFFFRYKFYLEITAYTRGSDEQHLKWSGLVESKVRLLVMKLEV-LAGIKIAHPFTK  407 (530)
T ss_dssp             HHH-----HHHTTSSCHHHHTCCCCHHHHCSEEEEEEEEEESCHHHHHHHHHHHHHHHHHHHHHHHT-STTEEEEEECSS
T ss_pred             HHH-----HHhcCCCCHHHHcCCCChHHhcCeEEEEEEEecCCHHHHhhhcchHHHHHHHHHHHhhc-ccCceeeecCCc
Confidence            999     998899999999999999999999999999998 9999999999999999999999998 456677999999


Q ss_pred             CCCCCC-------------------------------------------CCCCceeEEEeeeecccCCCCcCceechHHH
Q 020365          160 KYIDPS-------------------------------------------KPCPNSAFFWGLSRKEVGTSKECQQFDFQGT  196 (327)
Q Consensus       160 ~f~d~~-------------------------------------------~~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~  196 (327)
                      .|.+..                                           ...+.++|||||.++...   .++++||+.+
T Consensus       408 ~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~igl~~~~~~---~~~~~di~~~  484 (530)
T 2hhp_A          408 PFESSYCCPTEDDYEMIQDKYGSHKTETALNALKLVTDENKEEESIKDAPKAYLSTMYIGLDFNIEN---KKEKVDIHIP  484 (530)
T ss_dssp             CEEEEEECCSSSHHHHHHHHCSCHHHHTTCCSCC---------------CEEEEEEEEEEEEEC-------CCCCCCHHH
T ss_pred             ccCccccccchhhhhhhhccccccccccccccccccccccccccccccccceeeEEEEEEEeecCCC---CCceEeChhH
Confidence            984210                                           123458999999997532   3578999999


Q ss_pred             HHHHHHHhccccc-cCCC-eE-EEEEEeccCCCCCCcCCCCcccCC
Q 020365          197 VKNFRRGIDNYRV-RREG-RD-IYFSYVCRRHLPSFVFPDGYKWHR  239 (327)
Q Consensus       197 v~~F~~~v~~~~~-~~~~-m~-i~v~~Vkr~~LP~~V~~~g~k~~~  239 (327)
                      +++|++.|++|.. |+++ |+ |.|+|||++|||+|||++|++||+
T Consensus       485 ~~~F~~~~~~~~~~~~~~~~~~~~v~~v~~~~lp~~v~~~~~~~~~  530 (530)
T 2hhp_A          485 CTEFVNLCRSFNEDYGDHKVFNLALRFVKGYDLPDEVFDENEKRPS  530 (530)
T ss_dssp             HHHHHHHHHHTSTTTTCSSSEEEEEEEEEGGGCCGGGSCTTSCCCC
T ss_pred             HHHHHHHHHhhhhhcccCCcceEEEEEechhhCCHhhccCCCcCCC
Confidence            9999999999998 8876 89 999999999999999999998874

>4fh3_A Poly(A) RNA polymerase protein CID1; nucleotidyltransferase, poly(U) polymerase, transferase; 2.00A {Schizosaccharomyces pombe} PDB: 4fh5_A* 4fhp_A* 4fhv_A* 4fhw_A* 4fhy_A* 4fhx_A* 4ep7_A*

Probab=99.24  E-value=1.1e-11  Score=118.72  Aligned_cols=96  Identities=19%  Similarity=0.182  Sum_probs=69.0

Q ss_pred             hhHHHHHhhc-cCCCCCCeeccccccCC---------CCccccCCCCCCCCCCCcceeeccCCCCCCcccccchhHHHHH
Q 020365            2 LVSRFFRVYT-QWRWPNPVMMCPIEMGE---------LGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVM   71 (327)
Q Consensus         2 Lv~rFF~vys-~W~Wp~PV~L~~i~~~~---------l~~~vWdPr~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI   71 (327)
                      |+..||+.|+ +|+|+++|+......+-         .....|++..+..+..++|+|++|..|..|+++||+..++..|
T Consensus       243 LL~~FF~~Y~~~Fd~~~~vIsi~~~~~~~~k~~k~~~~~~~~~~~~~~~~~~~~~l~IeDPf~~~~Nvar~Vs~~~~~~I  322 (349)
T 4fh3_A          243 LLHGFFRFYAYKFEPREKVVTFRRPDGYLTKQEKGWTSATEHTGSADQIIKDRYILAIEDPFEISHNVGRTVSSSGLYRI  322 (349)
T ss_dssp             HHHHHHHHHHHTCCTTTBCBCSSSTTCCCBHHHHTCC---------------CCSSCBBCSSSTTCBGGGGCCHHHHHHH
T ss_pred             HHHHHHHHhhhccCCCCceEEecCCCCccchHHhcccccccccCcccccCCCCceEEEECCCCCCCcCCCCCCHHHHHHH
Confidence            7889999998 69999998865332211         1234556666666677899999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcccchhhhcCccchhhhhcC
Q 020365           72 TEQFQCGNRICEVRAYFEIELGKAEWSALFEH  103 (327)
Q Consensus        72 ~eEf~Rg~~i~~~~~~~~i~~~~~~W~~Lfep  103 (327)
                      ++||+||+++++     +. .....|+.||+.
T Consensus       323 ~~eF~~A~~~L~-----~~-~~~~~~~~lfe~  348 (349)
T 4fh3_A          323 RGEFMAASRLLN-----SR-SYPIPYDSLFEE  348 (349)
T ss_dssp             HHHHHHHHHHHH-----CC-SSSCCGGGGGSC
T ss_pred             HHHHHHHHHHHh-----Cc-ccCCCHHHHhhc
Confidence            999999999998     43 235689999986

>4e8f_A Poly(A) RNA polymerase protein CID1; beta polymerase-like nucleotidyl transferase, terminal uridi transferase, UTP, cytoplasmic; 2.60A {Schizosaccharomyces pombe 972h-} PDB: 4e7x_A* 4e80_A

Probab=99.00  E-value=6.5e-10  Score=109.76  Aligned_cols=103  Identities=20%  Similarity=0.237  Sum_probs=77.6

Q ss_pred             hhHHHHHhhc-cCCCCCCeeccccccCCCC--ccccCCCCC-------CCCCCCcceeeccCCCCCCcccccchhHHHHH
Q 020365            2 LVSRFFRVYT-QWRWPNPVMMCPIEMGELG--FSVWDPRKN-------PKDRSHRMPIITPAYHCMNSSYKVSLGTLQVM   71 (327)
Q Consensus         2 Lv~rFF~vys-~W~Wp~PV~L~~i~~~~l~--~~vWdPr~n-------~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI   71 (327)
                      |+..||++|+ .|+|.+.|+-.....+.+.  ...|+...+       ..++.+.|+|..|..|..|.+.+|+..++..|
T Consensus       271 LL~~FF~yY~~~Fd~~~~vIsir~~g~~~~K~~k~w~~~~~~~g~~~~~~~~~~~L~IeDPf~~~~Nv~r~vs~~~~~~I  350 (405)
T 4e8f_A          271 LLHGFFRFYAYKFEPREKVVTFRRPDGYLTKQEKGWTSATEHTGSADQIIKDRYILAIEDPFEISHNVGRTVSSSGLYRI  350 (405)
T ss_dssp             HHHHHHHHHHHTCCTTTBEECSSSTTCCCBHHHHTCCC-------------CCCSSEEBCSSSTTCBTTTTCCHHHHHHH
T ss_pred             HHHHHHHHHhcccCCCCcEEEEecCCcccccccccccccccccccccccccCCceEEEECCCCcccccccCCCHHHHHHH
Confidence            7889999999 8999998865331111122  146876521       12456899999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcccchhhhcCccchhhhhcCCcccccc
Q 020365           72 TEQFQCGNRICEVRAYFEIELGKAEWSALFEHYPFFEAY  110 (327)
Q Consensus        72 ~eEf~Rg~~i~~~~~~~~i~~~~~~W~~Lfep~~FF~~Y  110 (327)
                      ++||+||++++.     +.. .+..|+.||+++++..+.
T Consensus       351 ~~eF~rA~~iL~-----~~~-~~~~w~~Lf~~~~~~~~~  383 (405)
T 4e8f_A          351 RGEFMAASRLLN-----SRS-YPIPYDSLFEEAPIPPRR  383 (405)
T ss_dssp             HHHHHHHHHHHT-----CSS-SSCCGGGGGSCCCCC---
T ss_pred             HHHHHHHHHHHh-----hhc-cCCCHHHHhCcCCCcccc
Confidence            999999999999     432 267899999999998754

>2ikf_A RNA uridylyl transferase; tutase, nucleotidyltransferase, UTP-binding, RNA editing; HET: UTP; 2.00A {Trypanosoma brucei} PDB: 2nom_A* 2q0c_A* 2q0d_A* 2q0e_A* 2q0f_A* 2q0g_A*

Probab=98.79  E-value=1.6e-09  Score=104.70  Aligned_cols=81  Identities=12%  Similarity=0.079  Sum_probs=64.2

Q ss_pred             hhHHHHHhhc-cCCCCCCeeccccccCCC--CccccCCC------CCCCCCCCcceeeccCCCCCCcccccchhHHHHHH
Q 020365            2 LVSRFFRVYT-QWRWPNPVMMCPIEMGEL--GFSVWDPR------KNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMT   72 (327)
Q Consensus         2 Lv~rFF~vys-~W~Wp~PV~L~~i~~~~l--~~~vWdPr------~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI~   72 (327)
                      |+..||++|+ +|+|.++|+-... .+.+  ....|+++      .++.++.+.|+|.+|..|..|.++||+.+++..|+
T Consensus       260 LL~~Ff~~Y~~~fd~~~~vIsi~~-~~~~~k~~~~w~~~~~~~~~~~~~~~~~~l~IeDP~~~~~N~~r~v~~~~~~~i~  338 (353)
T 2ikf_A          260 QVLDFLHFFLHEFDSDKQVISLNR-PGITTKEELDWTKSAEDFARMNGEKVHYQWCIEDPYELNLNVGRNVTPLKRDFLR  338 (353)
T ss_dssp             HHHHHHHHHHHTSCTTTEEECSSS-SSCEEHHHHTCSHHHHTTCEETTEECCCSSEEBCSSSTTCBTTTTCCHHHHHHHH
T ss_pred             HHHHHHHHhccccCcCceEEEcCC-CcceechhhcccccccccccccCCCCcceEEEECCCCCCCcccCCCCHHHHHHHH
Confidence            7899999999 8999999874311 1111  11358742      33345678999999999999999999999999999


Q ss_pred             HHHHHHHHhhh
Q 020365           73 EQFQCGNRICE   83 (327)
Q Consensus        73 eEf~Rg~~i~~   83 (327)
                      +||+||+++|-
T Consensus       339 ~~f~~A~~~~~  349 (353)
T 2ikf_A          339 RHLEKARDTAL  349 (353)
T ss_dssp             HHHHHHHTTTT
T ss_pred             HHHHHHHHHHH
Confidence            99999999986

>2b4v_A RNA editing complex protein MP57; tbret2, TBMP57, terminal uridylyl transferase, editosome, transferase/RNA binding protein complex; 1.80A {Trypanosoma brucei} SCOP: a.160.1.4 d.218.1.10 PDB: 2b51_A* 2b56_A*

Probab=97.77  E-value=1.2e-05  Score=80.89  Aligned_cols=80  Identities=18%  Similarity=0.239  Sum_probs=61.3

Q ss_pred             hhHHHHHhhc-cCCCCCCeeccccccCCC---CccccCCCCCC-CCCCCcceeeccCCC----CCCcccccchhHHHHHH
Q 020365            2 LVSRFFRVYT-QWRWPNPVMMCPIEMGEL---GFSVWDPRKNP-KDRSHRMPIITPAYH----CMNSSYKVSLGTLQVMT   72 (327)
Q Consensus         2 Lv~rFF~vys-~W~Wp~PV~L~~i~~~~l---~~~vWdPr~n~-~Dr~hlMPIITPayP----~mNSt~NVs~STl~vI~   72 (327)
                      |+..||+.|+ .|+|.+.|+--  ..+..   ....|+...|. ....+.|.|..|..|    ..|.+.||+..+++.|+
T Consensus       350 LL~~FF~yYg~~Fd~~~~vISi--r~g~~~~K~~~~w~~~~n~~~~~~~~L~IeDPfd~~~~~~~Nvgr~v~~~~~~~I~  427 (468)
T 2b4v_A          350 LLHGFFIFYAHHFDYEREVVSL--NRNRRSYRSDIGWNFPQNKKGTFSYNFCIEDPYEDVGTGGLNLVRHLHPAKFQLVK  427 (468)
T ss_dssp             HHHHHHHHHHHSSCTTTEEBCS--SSSSCEEHHHHTCCCGGGEETTEECSSCBBCSSTTTTTTCCBTTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHccccCCCCcEEEe--cCCcceecccccccccccccCCCcceEEEECCCCCCCCCCcccCCCCCHHHHHHHH
Confidence            7889999999 99999987622  11211   11347642221 112357999999999    99999999999999999


Q ss_pred             HHHHHHHHhhh
Q 020365           73 EQFQCGNRICE   83 (327)
Q Consensus        73 eEf~Rg~~i~~   83 (327)
                      +||.+|+++|+
T Consensus       428 ~eF~~A~~~L~  438 (468)
T 2b4v_A          428 QEFLRAAQCME  438 (468)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999998

>3nyb_A Poly(A) RNA polymerase protein 2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}

Probab=97.61  E-value=2.8e-05  Score=74.23  Aligned_cols=77  Identities=17%  Similarity=0.281  Sum_probs=57.9

Q ss_pred             hhHHHHHhhc-cCCCCCCeeccccccCC---CCccccCCCCCCCCCCCcceeeccCCCCCCcccccchhHHHHHHHHHHH
Q 020365            2 LVSRFFRVYT-QWRWPNPVMMCPIEMGE---LGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQC   77 (327)
Q Consensus         2 Lv~rFF~vys-~W~Wp~PV~L~~i~~~~---l~~~vWdPr~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI~eEf~R   77 (327)
                      |+..||++|+ +|+|++.++-  +.+|.   ..-..|..- ++..+.+.|+|..|..|..|.+.++  ..++.|++||.+
T Consensus       217 LL~~Ff~~Y~~~Fd~~~~~Is--v~~g~~~~~~k~~~~~~-~~~~~~~~l~IeDP~~~~~nigr~~--~~~~~I~~~F~~  291 (323)
T 3nyb_A          217 LLIEFFELYGKNFGYDDVALG--SSDGYPVYFPKSTWSAI-QPIKNPFSLAIQDPGDESNNISRGS--FNIRDIKKAFAG  291 (323)
T ss_dssp             HHHHHHHHHHHTCCTTTEEEE--ESSSCEEEEEGGGCGGG-CSCSCSSSCCBEETTEEEEETTTTC--TTHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCCcEEE--EecCCcceeeHHhcccc-cccCCCceEEEeCCCCCCcccccch--HHHHHHHHHHHH
Confidence            7899999999 9999997663  22221   112357542 2234568999999999988888874  457899999999


Q ss_pred             HHHhhh
Q 020365           78 GNRICE   83 (327)
Q Consensus        78 g~~i~~   83 (327)
                      |++++.
T Consensus       292 A~~~L~  297 (323)
T 3nyb_A          292 AFDLLT  297 (323)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999988

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=90.23  E-value=0.27  Score=49.25  Aligned_cols=49  Identities=16%  Similarity=0.207  Sum_probs=36.8

Q ss_pred             hhHHHHHhhccCCCCCCeeccccccCCCCccccCCCCCCCCCCCcceeeccCCCCCCcccccchhHHHHHHHHHHHHHHh
Q 020365            2 LVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNRI   81 (327)
Q Consensus         2 Lv~rFF~vys~W~Wp~PV~L~~i~~~~l~~~vWdPr~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI~eEf~Rg~~i   81 (327)
                      |+.-||..|++++|-+-|+=                           |      ..|.+.||+.+.+..++.|+.+|.-|
T Consensus       388 LL~gFF~yYa~FDf~~~vIs---------------------------I------~~Nvs~nV~~~~~~r~~~~~r~a~~i  434 (464)
T 3pq1_A          388 LLKEFFEYFGNFAXXXXXXX---------------------------X------XXXXXXXVSQSQLQKFVDLARESAWI  434 (464)
T ss_dssp             HHHHHHHHGGGCCCCCCCCC---------------------------C------C-------CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcccccc---------------------------c------ccccccccCHHHHHHHHHHHHHHHHH
Confidence            68899999999999876541                           0      78999999999999999999999999


Q ss_pred             hh
Q 020365           82 CE   83 (327)
Q Consensus        82 ~~   83 (327)
                      |+
T Consensus       435 l~  436 (464)
T 3pq1_A          435 LQ  436 (464)
T ss_dssp             HH
T ss_pred             Hh
Confidence            98

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	327
d2q66a1	150	a.160.1.1 (A:202-351) Poly(A) polymerase, PAP, mid	3e-41
d1q79a1	150	a.160.1.1 (A:215-364) Poly(A) polymerase, PAP, mid	2e-39
d1q79a3	134	d.58.16.1 (A:365-498) Poly(A) polymerase, PAP, C-t	6e-34
d2q66a3	178	d.58.16.1 (A:352-529) Poly(A) polymerase, PAP, C-t	1e-25

>d2q66a1 a.160.1.1 (A:202-351) Poly(A) polymerase, PAP, middle domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 150

class: All alpha proteins
fold: PAP/OAS1 substrate-binding domain
superfamily: PAP/OAS1 substrate-binding domain
family: Poly(A) polymerase, PAP, middle domain
domain: Poly(A) polymerase, PAP, middle domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  138 bits (350), Expect = 3e-41
 Identities = 40/102 (39%), Positives = 65/102 (63%), Gaps = 5/102 (4%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
           ++++RFF + ++W WP PV++ PIE G L   VW+P+   +DRSHRMP+ITPAY  M ++
Sbjct: 53  VILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCAT 112

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFE 102
           + ++  T +V+ ++F  G +I       +I   K  W+ LFE
Sbjct: 113 HNITESTKKVILQEFVRGVQITN-----DIFSNKKSWANLFE 149

>d1q79a1 a.160.1.1 (A:215-364) Poly(A) polymerase, PAP, middle domain {Cow (Bos taurus) [TaxId: 9913]} Length = 150

class: All alpha proteins
fold: PAP/OAS1 substrate-binding domain
superfamily: PAP/OAS1 substrate-binding domain
family: Poly(A) polymerase, PAP, middle domain
domain: Poly(A) polymerase, PAP, middle domain
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  134 bits (339), Expect = 2e-39
 Identities = 54/102 (52%), Positives = 65/102 (63%), Gaps = 5/102 (4%)

Query: 1   MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSS 60
            LV +FF V+++W WPNPV++   E   L   VWDPR NP DR H MPIITPAY   NS+
Sbjct: 53  TLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNST 112

Query: 61  YKVSLGTLQVMTEQFQCGNRICEVRAYFEIELGKAEWSALFE 102
           Y VS+ T  VM E+F+ G  I +     EI L KAEWS LFE
Sbjct: 113 YNVSVSTRMVMVEEFKQGLAITD-----EILLSKAEWSKLFE 149

>d1q79a3 d.58.16.1 (A:365-498) Poly(A) polymerase, PAP, C-terminal domain {Cow (Bos taurus) [TaxId: 9913]} Length = 134

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: PAP/Archaeal CCA-adding enzyme, C-terminal domain
family: Poly(A) polymerase, PAP, C-terminal domain
domain: Poly(A) polymerase, PAP, C-terminal domain
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  119 bits (299), Expect = 6e-34
 Identities = 30/131 (22%), Positives = 50/131 (38%), Gaps = 6/131 (4%)

Query: 106 FFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLL---QCHPYPNKYI 162
           FF+ Y++Y+ +   A      L W G VES+ R L   +E++    L       +P    
Sbjct: 3   FFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKE 62

Query: 163 DPSKPCPNSAFFWGLSRKEVGTS---KECQQFDFQGTVKNFRRGIDNYRVRREGRDIYFS 219
           +P K    + +  GL  K+   S        +D Q       R   N ++      I   
Sbjct: 63  NPDKEEFRTMWVIGLVFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAM 122

Query: 220 YVCRRHLPSFV 230
           +V R+ L   +
Sbjct: 123 HVKRKQLHQLL 133

>d2q66a3 d.58.16.1 (A:352-529) Poly(A) polymerase, PAP, C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 178

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: PAP/Archaeal CCA-adding enzyme, C-terminal domain
family: Poly(A) polymerase, PAP, C-terminal domain
domain: Poly(A) polymerase, PAP, C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 98.6 bits (245), Expect = 1e-25
 Identities = 33/182 (18%), Positives = 53/182 (29%), Gaps = 53/182 (29%)

Query: 106 FFEAYENYLQVDIVAAD-ADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKY--- 161
           FF  Y+ YL++        +  L W G VES+ R L +K+E    G+   HP+   +   
Sbjct: 3   FFFRYKFYLEITAYTRGSDEQHLKWSGLVESKVRLLVMKLEV-LAGIKIAHPFTKPFESS 61

Query: 162 ----------------------------------------IDPSKPCPNSAFFWGLSRKE 181
                                                   I  +     S  + GL    
Sbjct: 62  YCCPTEDDYEMIQDKYGSHKTETALNALKLVTDENKEEESIKDAPKAYLSTMYIGLDFNI 121

Query: 182 VGTSKECQQFDFQGTVKNFR---RGIDNYRVRREGRDIYFSYVCRRHLPSFVFPDGYKWH 238
               +   + D       F    R  +      +  ++   +V    LP  VF +  K  
Sbjct: 122 ENKKE---KVDIHIPCTEFVNLCRSFNEDYGDHKVFNLALRFVKGYDLPDEVFDENEK-- 176

Query: 239 RP 240
           RP
Sbjct: 177 RP 178

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	327
d1q79a1	150	Poly(A) polymerase, PAP, middle domain {Cow (Bos t	100.0
d2q66a1	150	Poly(A) polymerase, PAP, middle domain {Baker's ye	100.0
d2q66a3	178	Poly(A) polymerase, PAP, C-terminal domain {Baker'	100.0
d1q79a3	134	Poly(A) polymerase, PAP, C-terminal domain {Cow (B	100.0
d2b4va1	183	RNA editing terminal uridyl transferase 2, TUTase	98.19

>d1q79a1 a.160.1.1 (A:215-364) Poly(A) polymerase, PAP, middle domain {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: PAP/OAS1 substrate-binding domain
superfamily: PAP/OAS1 substrate-binding domain
family: Poly(A) polymerase, PAP, middle domain
domain: Poly(A) polymerase, PAP, middle domain
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=4e-38  Score=270.86  Aligned_cols=98  Identities=55%  Similarity=0.959  Sum_probs=95.7

Q ss_pred             ChhHHHHHhhccCCCCCCeeccccccCCCCccccCCCCCCCCCCCcceeeccCCCCCCcccccchhHHHHHHHHHHHHHH
Q 020365            1 MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNR   80 (327)
Q Consensus         1 mLv~rFF~vys~W~Wp~PV~L~~i~~~~l~~~vWdPr~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI~eEf~Rg~~   80 (327)
                      +||++||.+|++|+||+||+|++++++.+++++||||.|++|+.|+|||||||||+||||||||.||+++|++||+||++
T Consensus        53 ~ll~~FF~~ys~W~Wp~PV~l~~~~~~~~~~~~w~pr~~~~dr~~lMpIiTPayP~~Nst~nvt~st~~~i~~E~~ra~~  132 (150)
T d1q79a1          53 TLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEEFKQGLA  132 (150)
T ss_dssp             HHHHHHHHHHHSCCTTSCBCSSCCCCCSSCCCCCCTTTCGGGGGCSSCBBCSSSSCCBTTTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCCCeeccCcccccCCCCCCCCCCCCcccccccccccCCCCcccccccccHHHHHHHHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcccchhhhcCccchhhhhcC
Q 020365           81 ICEVRAYFEIELGKAEWSALFEH  103 (327)
Q Consensus        81 i~~~~~~~~i~~~~~~W~~Lfep  103 (327)
                      ||+     +|..++.+|++|||.
T Consensus       133 i~~-----~i~~~~~~W~~Lfe~  150 (150)
T d1q79a1         133 ITD-----EILLSKAEWSKLFEA  150 (150)
T ss_dssp             HHH-----HHHTTSSCHHHHTCC
T ss_pred             HHH-----HHHhCCCCHHHHhcC
Confidence            999     999999999999984

>d2q66a1 a.160.1.1 (A:202-351) Poly(A) polymerase, PAP, middle domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: PAP/OAS1 substrate-binding domain
superfamily: PAP/OAS1 substrate-binding domain
family: Poly(A) polymerase, PAP, middle domain
domain: Poly(A) polymerase, PAP, middle domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.4e-37  Score=267.34  Aligned_cols=98  Identities=41%  Similarity=0.864  Sum_probs=95.7

Q ss_pred             ChhHHHHHhhccCCCCCCeeccccccCCCCccccCCCCCCCCCCCcceeeccCCCCCCcccccchhHHHHHHHHHHHHHH
Q 020365            1 MLVSRFFRVYTQWRWPNPVMMCPIEMGELGFSVWDPRKNPKDRSHRMPIITPAYHCMNSSYKVSLGTLQVMTEQFQCGNR   80 (327)
Q Consensus         1 mLv~rFF~vys~W~Wp~PV~L~~i~~~~l~~~vWdPr~n~~Dr~hlMPIITPayP~mNSt~NVs~STl~vI~eEf~Rg~~   80 (327)
                      +||++||.+|++|+||+||+|++++++.+++++|||+.|.+|+.|+|||||||||+||||||||.||+++|++||+||++
T Consensus        53 ~ll~~FF~~ys~W~Wp~PV~l~~~~~~~~~~~~w~p~~~~~d~~~~MpIiTPayP~~Nst~nvt~st~~~i~~E~~ra~~  132 (150)
T d2q66a1          53 VILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCATHNITESTKKVILQEFVRGVQ  132 (150)
T ss_dssp             HHHHHHHHHHHHCCTTSCEESSCCCCCCTTSCCCCTTTCHHHHTCSSCEECSSSSCCBTTTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCCceeccCcccccccCCCCCCCCCCCCcccccceecCCCCcccccccccHHHHHHHHHHHHHHHH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcccchhhhcCccchhhhhcC
Q 020365           81 ICEVRAYFEIELGKAEWSALFEH  103 (327)
Q Consensus        81 i~~~~~~~~i~~~~~~W~~Lfep  103 (327)
                      ||+     +|..++.+|++|||.
T Consensus       133 i~~-----~i~~~~~~W~~Lfe~  150 (150)
T d2q66a1         133 ITN-----DIFSNKKSWANLFEK  150 (150)
T ss_dssp             HHH-----HHHTTSSCHHHHTCC
T ss_pred             HHH-----HHHcCCCCHHHHhhC
Confidence            999     999999999999984

>d2q66a3 d.58.16.1 (A:352-529) Poly(A) polymerase, PAP, C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: PAP/Archaeal CCA-adding enzyme, C-terminal domain
family: Poly(A) polymerase, PAP, C-terminal domain
domain: Poly(A) polymerase, PAP, C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.3e-35  Score=260.59  Aligned_cols=131  Identities=22%  Similarity=0.368  Sum_probs=109.7

Q ss_pred             CccccccccEEEEEEEe-CChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeEcCCCCCCCCC------------------
Q 020365          104 YPFFEAYENYLQVDIVA-ADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDP------------------  164 (327)
Q Consensus       104 ~~FF~~Yk~yL~I~v~a-~~~e~~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~d~------------------  164 (327)
                      ++||.+|||||+|.+++ ++++++.+|.||||||||.||.+||+. .++..|||||+.|.+.                  
T Consensus         1 ~dFF~~YK~YL~V~a~s~~t~e~~~~W~G~VESKlR~LV~~LE~~-~~I~lAHP~pk~F~~~~~~~~~~e~~~v~~~~~~   79 (178)
T d2q66a3           1 NDFFFRYKFYLEITAYTRGSDEQHLKWSGLVESKVRLLVMKLEVL-AGIKIAHPFTKPFESSYCCPTEDDYEMIQDKYGS   79 (178)
T ss_dssp             CCHHHHCSEEEEEEEEEESCHHHHHHHHHHHHHHHHHHHHHHHTS-TTEEEEEECSSCEEEEEECCSHHHHHHHHHHTTC
T ss_pred             CchhhhcccEEEEEEEeCCcHHHhhhhhhHHHHHHHHHHHHhccC-CCeeEEecCCcCcccccccccHHHHHHHhhcccc
Confidence            58999999999999976 689999999999999999999999995 5777899999999420                  


Q ss_pred             -------------------------CCCCCceeEEEeeeecccCCCCcCceechHHHHHHHHHHhccccc--cCC-CeEE
Q 020365          165 -------------------------SKPCPNSAFFWGLSRKEVGTSKECQQFDFQGTVKNFRRGIDNYRV--RRE-GRDI  216 (327)
Q Consensus       165 -------------------------~~~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~~F~~~v~~~~~--~~~-~m~i  216 (327)
                                               ....+.+.|||||+++...   .++++||+.++++|.+.|++|..  +++ +|+|
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~fIGL~~~~~~---~~~~lDi~~~i~~F~~~~~~w~~~~~~~~~m~i  156 (178)
T d2q66a3          80 HKTETALNALKLVTDENKEEESIKDAPKAYLSTMYIGLDFNIEN---KKEKVDIHIPCTEFVNLCRSFNEDYGDHKVFNL  156 (178)
T ss_dssp             TTTGGGGTTSBCCTTTC-CCHHHHHSCEEEEEEEEEEEEECC--------CCCCHHHHHHHHHHHHCSCSTTCCTTTEEE
T ss_pred             cccccccccccccccccccccccCCCCcceEEEEEEEEEeccCC---CCccccChHHHHHHHHHHHhhhhcccCCCCceE
Confidence                                     0112557999999997432   35689999999999999999964  554 6999


Q ss_pred             EEEEeccCCCCCCcCCCCcccC
Q 020365          217 YFSYVCRRHLPSFVFPDGYKWH  238 (327)
Q Consensus       217 ~v~~Vkr~~LP~~V~~~g~k~~  238 (327)
                      .|+|||++|||++||++|+.||
T Consensus       157 ~I~hVk~~dLP~~Vf~~Ge~rP  178 (178)
T d2q66a3         157 ALRFVKGYDLPDEVFDENEKRP  178 (178)
T ss_dssp             EEEEEEGGGCCGGGSCTTCCCC
T ss_pred             EEEEechhhCchhhcCCCCCCc
Confidence            9999999999999999998775

>d1q79a3 d.58.16.1 (A:365-498) Poly(A) polymerase, PAP, C-terminal domain {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: PAP/Archaeal CCA-adding enzyme, C-terminal domain
family: Poly(A) polymerase, PAP, C-terminal domain
domain: Poly(A) polymerase, PAP, C-terminal domain
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3.2e-34  Score=242.64  Aligned_cols=126  Identities=22%  Similarity=0.324  Sum_probs=102.6

Q ss_pred             CccccccccEEEEEEEeCChhhhhhhhhhhhhHHHHHHHHhhhcCCCceeEcCCCCCCCCC----CCCCCceeEEEeeee
Q 020365          104 YPFFEAYENYLQVDIVAADADDLLTWKGWVESRFRQLTLKIEQDTNGLLQCHPYPNKYIDP----SKPCPNSAFFWGLSR  179 (327)
Q Consensus       104 ~~FF~~Yk~yL~I~v~a~~~e~~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~d~----~~~~~~~~ffIGL~~  179 (327)
                      .+||.+|||||+|+++|.+++++++|.||||||||.|+.+||++. ++..|||||+.|.+.    +..+++|+|||||++
T Consensus         1 ~~FF~~yk~yl~v~~~a~~~~~~~~w~G~vESrlR~Lv~~lE~~~-~i~~a~~~p~~f~~~~~~~~~~~~~~~~fIGL~~   79 (134)
T d1q79a3           1 PNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNE-FITLAHVNPQSFPAPKENPDKEEFRTMWVIGLVF   79 (134)
T ss_dssp             CCHHHHCSEEEEEEEEESSHHHHHHHHHHHHTTHHHHHHHHHTST-TEEEEEECSCCEECCCSCTTSCCEEEEEEEEEEE
T ss_pred             CChhhhCceEEEEEEEECCHHHHHHHHHHHHHHHHHHHHHhcccC-CceEEecCCCCcCCcccCCCCCceEEEEEEEEEe
Confidence            489999999999999999999999999999999999999999975 556799999999754    345678999999998


Q ss_pred             cccCCCCcCceechHHHHHHHHHHhcc----ccccCCCeEEEEEEeccCCCCCCcC
Q 020365          180 KEVGTSKECQQFDFQGTVKNFRRGIDN----YRVRREGRDIYFSYVCRRHLPSFVF  231 (327)
Q Consensus       180 ~~~~~~~~~~~~DL~~~v~~F~~~v~~----~~~~~~~m~i~v~~Vkr~~LP~~V~  231 (327)
                      +.... ..+.++||+..+++|.+.+++    +..|++||+|.|+||||+|||+||.
T Consensus        80 ~~~~~-~~~~~ldl~~~i~~F~~~~~~~~~~~~~~~~~m~I~v~hVkr~~LP~~v~  134 (134)
T d1q79a3          80 KKTEN-SENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLLP  134 (134)
T ss_dssp             C-----------CCHHHHHHHHHHHHHHHHHTTCCCTTCEEEEEEEEHHHHGGGCC
T ss_pred             ccCCC-CCCcccccchHHHHHHHHHHHhccccccCCCCCEEEEEEechHHcchhcC
Confidence            75432 234678999988888877654    4567889999999999999999983

>d2b4va1 a.160.1.4 (A:289-471) RNA editing terminal uridyl transferase 2, TUTase 2, RET2 {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: PAP/OAS1 substrate-binding domain
superfamily: PAP/OAS1 substrate-binding domain
family: RNA editing terminal uridyl transferase 2, RET2, domain 2
domain: RNA editing terminal uridyl transferase 2, TUTase 2, RET2
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.19  E-value=3.2e-07  Score=77.47  Aligned_cols=94  Identities=14%  Similarity=0.216  Sum_probs=67.3

Q ss_pred             hhHHHHHhhc-cCCCCCCeeccccccCCCCc---cccCCCC-CCCCCCCcceeeccCCCCCCcccccc----hhHHHHHH
Q 020365            2 LVSRFFRVYT-QWRWPNPVMMCPIEMGELGF---SVWDPRK-NPKDRSHRMPIITPAYHCMNSSYKVS----LGTLQVMT   72 (327)
Q Consensus         2 Lv~rFF~vys-~W~Wp~PV~L~~i~~~~l~~---~vWdPr~-n~~Dr~hlMPIITPayP~mNSt~NVs----~STl~vI~   72 (327)
                      |+..||+.|+ .++|.+=|+ +. ..+..-.   ..|.... ...-+.+.|+|..|.-|..|.++||+    ..+++.|+
T Consensus        81 Ll~~FF~~Y~~~fd~~~~~I-si-~~g~~~~k~~~~~~~~~~~~~~~~~~l~IeDPfd~~~~~~~Nv~r~v~~~~~~~I~  158 (183)
T d2b4va1          81 LLHGFFIFYAHHFDYEREVV-SL-NRNRRSYRSDIGWNFPQNKKGTFSYNFCIEDPYEDVGTGGLNLVRHLHPAKFQLVK  158 (183)
T ss_dssp             HHHHHHHHHHHSSCTTTEEB-CS-SSSSCEEHHHHTCCCGGGEETTEECSSCBBCSSTTTTTTCCBTTTTCCHHHHHHHH
T ss_pred             HHHHHHHHhccccCHHHcee-ee-ccCCccchhhhhccccccCCCCCCcceEEeCCCccccccccchhhhcCHHHHHHHH
Confidence            7889999998 699998544 22 2222111   1233211 11224578999999999888888875    45799999


Q ss_pred             HHHHHHHHhhhcccchhhhcCccchhhhhc
Q 020365           73 EQFQCGNRICEVRAYFEIELGKAEWSALFE  102 (327)
Q Consensus        73 eEf~Rg~~i~~~~~~~~i~~~~~~W~~Lfe  102 (327)
                      +||+||.++|+     .+......|..+++
T Consensus       159 ~~f~~a~~~l~-----~~~~~~~~~~~i~g  183 (183)
T d2b4va1         159 QEFLRAAQCME-----RFLPTNAPEKSILG  183 (183)
T ss_dssp             HHHHHHHHHHH-----HCCTTTCSCCGGGC
T ss_pred             HHHHHHHHHHH-----HHHhcCCchhhhcC
Confidence            99999999999     88888888888764