Psyllid ID: psy13880

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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------
Protein Sequence
ETIVQELLTVSLGLHGNRPLLLVRTQHELLIYQAFRHPKGTLKLRFKKLKVLFVSDRSKRANEQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELYDIEALSSHF
Secondary Structure (PSIPRED)
ccEEEEEEEEEEcccccEEEEEEEEEcEEEEEEEEEccccEEEEEEEEcEEEEEccccccccccccccccEEEEEEEEEcccEEEEEEEccccEEEEEEcccccccccccEEEEEEEEcccccccEEEEEEEccccccccccccccEEEEEEccccEEEEEEEccHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccEEHHHHHHHHcccHHHHHHHHHHHcccHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cEEEEEEEEEEccccccccEEEEEEcccEEEEEEEEcccccEEEEEEEEEEEEEcccccccccccccccEEEEEEEEEccccEEEEEEcccccEEEEEEcccccccccccEEEEEEEEEccccccEEEEEccccccccccccccccEEEEEEEccccEEEEEcccHHHHHHHHHHHHHHHHcccccccccHHHHHccccccccccccccccccHHHHHHHHHccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
ETIVQELLTVSLglhgnrplllVRTQHELLIYQafrhpkgtlKLRFKKLKVLFVSdrskraneqpglprgvYACEFVIesssmgfmisdkdKNVVLFMyqpearesngghrlikktdfhlgqhvntffkirckpspisdapgarsRFLTWYASLDGalgfflplpekNYRRLLMLQNVMVThtshtgglnprafrtykgkgyyagnpsrgiidGSLVWKFLQLSLGERLEICKKIGSKHNDILDELYDIEALSSHF
Flexible Loop (DISEMBL)
ETIVQELLTvslglhgnrpLLLVRTQHELLIYQAfrhpkgtlklrFKKLKVLFVsdrskraneqpglprgvYACEFVIESSSMGFMISDKDKNVVLFMYQPEaresngghrLIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVThtshtgglnprAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELYDiealsshf
Low Complexity Region (SEG)
ETIVQELLTVSLGLHGNRPLLLVRTQHELLIYQAFRHPKGTlklrfkklkvlfvSDRSKRANEQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELYDIEALSSHF
Disordered region (IsUnstruct)
***VQELLTVSLGLHGNRPLLLVRTQHELLIYQAFRHPKGTLKLRFKKLKVLFVS***********LPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEA***NGGHRLIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELYDIE******
Disordered Region (DISOPRED)
***VQELLTVSLGLHGNRPLLLVRTQHELLIYQAFRHPKGTLKLRFKKLKVLFVSDRSKRANEQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLF***************IKKTDFHLGQHVNTFFKI****************FLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELYDIEALSSHF
Disordered Region (DISEMBL)
ETIVQELLTVSLGLHGNRPLLLVRTQHELLIYQAFRHPKGTLKLRFKKLKVLFVSDRSKRANEQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELYDIEALSSHF
Disordered Region (DISPRO)
ETIVQELLTVSLGLHGNRPLLLVRTQHELLIYQAFRHPKGTLKLRFKKLKVLFVSDRSKRANEQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPIS****ARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELYDIEALSSHF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
ETIVQELLTVSLGLHGNRPLLLVRTQHELLIYQAFRHPKGTLKLRFKKLKVLFVSDRSKRANEQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELYDIEALSSHF
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	256	2.2.26 [Sep-21-2011]
Q9V726	1455	Cleavage and polyadenylat	yes	N/A	0.722	0.127	0.466	1e-48
Q9EPU4	1441	Cleavage and polyadenylat	yes	N/A	0.730	0.129	0.432	8e-46
Q10569	1444	Cleavage and polyadenylat	yes	N/A	0.730	0.129	0.432	1e-45
Q10570	1443	Cleavage and polyadenylat	yes	N/A	0.738	0.130	0.427	1e-44
Q9N4C2	1454	Probable cleavage and pol	yes	N/A	0.812	0.143	0.313	7e-28
A8XPU7	1454	Probable cleavage and pol	N/A	N/A	0.812	0.143	0.322	2e-27
Q7XWP1	1441	Probable cleavage and pol	yes	N/A	0.687	0.122	0.359	2e-27
Q9FGR0	1442	Cleavage and polyadenylat	yes	N/A	0.703	0.124	0.336	2e-26
O74733	1441	Protein cft1 OS=Schizosac	yes	N/A	0.710	0.126	0.319	2e-20
Q1E5B0	1387	Protein CFT1 OS=Coccidioi	N/A	N/A	0.687	0.126	0.296	2e-19

>sp|Q9V726|CPSF1_DROME Cleavage and polyadenylation specificity factor subunit 1 OS=Drosophila melanogaster GN=Cpsf160 PE=1 SV=1

 Score =  193 bits (490), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 91/195 (46%), Positives = 133/195 (68%), Gaps = 10/195 (5%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  VY  EF++++S++GF+++D ++N++++MYQPEARES GG +L++K D+HLGQ VNT 
Sbjct: 1265 PLEVYGIEFMVDNSNLGFLVTDAERNIIVYMYQPEARESLGGQKLLRKADYHLGQVVNTM 1324

Query: 128  FKIRCKPSPISDAPGARSRFL------TWYASLDGALGFFLPLPEKNYRRLLMLQNVMVT 181
            F+++C    +      R  FL        Y +LDGALG+ LPLPEK YRR LMLQNV+++
Sbjct: 1325 FRVQCHQKGLHQ----RQPFLYENKHFVVYGTLDGALGYCLPLPEKVYRRFLMLQNVLLS 1380

Query: 182  HTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHND 241
            +  H  GLNP+ +RT K       NPSR IIDG L+W +  ++  ER E+ KKIG++  +
Sbjct: 1381 YQEHLCGLNPKEYRTLKSSKKQGINPSRCIIDGDLIWSYRLMANSERNEVAKKIGTRTEE 1440

Query: 242  ILDELYDIEALSSHF 256
            IL +L +IE L+S F
Sbjct: 1441 ILGDLLEIERLASVF 1455

CPSF plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A)polymerase and other factors to bring about cleavage and poly(A) addition. This subunit is involved in the RNA recognition step of the polyadenylation reaction.
Drosophila melanogaster (taxid: 7227)

>sp|Q9EPU4|CPSF1_MOUSE Cleavage and polyadenylation specificity factor subunit 1 OS=Mus musculus GN=Cpsf1 PE=1 SV=1

 Score =  183 bits (465), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 84/194 (43%), Positives = 133/194 (68%), Gaps = 7/194 (3%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  VY+ +F+++++ +GF++SD+D+N++++MY PEA+ES GG RL+++ DFH+G HVNTF
Sbjct: 1250 PLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESFGGMRLLRRADFHVGAHVNTF 1309

Query: 128  FKIRCKPSPISDAPGARS-----RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTH 182
            ++  C+ +  ++ P  +S     + +TW+A+LDG +G  LP+ EK YRRLLMLQN + T 
Sbjct: 1310 WRTPCRGA--AEGPSKKSVVWENKHITWFATLDGGIGLLLPMQEKTYRRLLMLQNALTTM 1367

Query: 183  TSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDI 242
              H  GLNPRAFR          N  R ++DG L+ ++L LS  ER E+ KKIG+  + I
Sbjct: 1368 LPHHAGLNPRAFRMLHVDRRILQNAVRNVLDGELLNRYLYLSTMERSELAKKIGTTPDII 1427

Query: 243  LDELYDIEALSSHF 256
            LD+L + + +++HF
Sbjct: 1428 LDDLLETDRVTAHF 1441

Component of the cleavage and polyadenylation specificity factor (CPSF) complex that plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition. This subunit is involved in the RNA recognition step of the polyadenylation reaction.

Mus musculus (taxid: 10090)

>sp|Q10569|CPSF1_BOVIN Cleavage and polyadenylation specificity factor subunit 1 OS=Bos taurus GN=CPSF1 PE=1 SV=1

 Score =  183 bits (464), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 84/194 (43%), Positives = 133/194 (68%), Gaps = 7/194 (3%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  VY+ +F+++++ +GF++SD+D+N++++MY PEA+ES GG RL+++ DFH+G HVNTF
Sbjct: 1253 PLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESFGGMRLLRRADFHVGAHVNTF 1312

Query: 128  FKIRCKPSPISDAPGARS-----RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTH 182
            ++  C+ +  ++ P  +S     + +TW+A+LDG +G  LP+ EK YRRLLMLQN + T 
Sbjct: 1313 WRTPCRGA--AEGPSKKSVVWENKHITWFATLDGGIGLLLPMQEKTYRRLLMLQNALTTM 1370

Query: 183  TSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDI 242
              H  GLNPRAFR          N  R ++DG L+ ++L LS  ER E+ KKIG+  + I
Sbjct: 1371 LPHHAGLNPRAFRMLHVDRRVLQNAVRNVLDGELLNRYLYLSTMERGELAKKIGTTPDII 1430

Query: 243  LDELYDIEALSSHF 256
            LD+L + + +++HF
Sbjct: 1431 LDDLLETDRVTAHF 1444

Component of the cleavage and polyadenylation specificity factor (CPSF) complex that plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition. This subunit is involved in the RNA recognition step of the polyadenylation reaction.

Bos taurus (taxid: 9913)

>sp|Q10570|CPSF1_HUMAN Cleavage and polyadenylation specificity factor subunit 1 OS=Homo sapiens GN=CPSF1 PE=1 SV=2

 Score =  180 bits (456), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 82/192 (42%), Positives = 131/192 (68%), Gaps = 3/192 (1%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  VY+ +F+++++ +GF++SD+D+N++++MY PEA+ES GG RL+++ DFH+G HVNTF
Sbjct: 1252 PLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESFGGMRLLRRADFHVGAHVNTF 1311

Query: 128  FKIRCKPSPISDAPGA---RSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTS 184
            ++  C+ +    +  +    ++ +TW+A+LDG +G  LP+ EK YRRLLMLQN + T   
Sbjct: 1312 WRTPCRGATEGLSKKSVVWENKHITWFATLDGGIGLLLPMQEKTYRRLLMLQNALTTMLP 1371

Query: 185  HTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILD 244
            H  GLNPRAFR          N  R ++DG L+ ++L LS  ER E+ KKIG+  + ILD
Sbjct: 1372 HHAGLNPRAFRMLHVDRRTLQNAVRNVLDGELLNRYLYLSTMERSELAKKIGTTPDIILD 1431

Query: 245  ELYDIEALSSHF 256
            +L + + +++HF
Sbjct: 1432 DLLETDRVTAHF 1443

Component of the cleavage and polyadenylation specificity factor (CPSF) complex that plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition. This subunit is involved in the RNA recognition step of the polyadenylation reaction.

Homo sapiens (taxid: 9606)

>sp|Q9N4C2|CPSF1_CAEEL Probable cleavage and polyadenylation specificity factor subunit 1 OS=Caenorhabditis elegans GN=cpsf-1 PE=3 SV=2

 Score =  124 bits (311), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 69/220 (31%), Positives = 123/220 (55%), Gaps = 12/220 (5%)

Query: 44   LRFKKL-KVLFVSDRSKRANEQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPE 102
            +RF++  K + ++ R  R   QP +     A + V++ + +GF++SD+  N+ +F Y PE
Sbjct: 1240 IRFQEDNKAMSIASRDDRKCAQPPM-----ASQLVVDGAHVGFLLSDETGNITMFNYAPE 1294

Query: 103  ARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPI-----SDAPGARSRFLTWYASLDGA 157
            A ESNGG RL  +   ++G ++N F ++R   S +      +      R  T +ASLDG+
Sbjct: 1295 APESNGGERLTVRAAINIGTNINAFVRLRGHTSLLQLNNEDEKEAIEQRMTTVFASLDGS 1354

Query: 158  LGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYK-GKGYYAGNPSRGIIDGSL 216
             GF  PL EK+YRRL  LQ  + + T    GL+ +  R+ K  +    G  +R +IDG +
Sbjct: 1355 FGFVRPLTEKSYRRLHFLQTFIGSVTPQIAGLHIKGSRSAKPSQPIVNGRNARNLIDGDV 1414

Query: 217  VWKFLQLSLGERLEICKKIGSKHNDILDELYDIEALSSHF 256
            V ++L LSL ++ ++ +++G     I+D+L  +  ++ ++
Sbjct: 1415 VEQYLHLSLYDKTDLARRLGVGRYHIIDDLMQLRRMAFYY 1454

CPSF plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A)polymerase and other factors to bring about cleavage and poly(A) addition. This subunit is involved in the RNA recognition step of the polyadenylation reaction.

Caenorhabditis elegans (taxid: 6239)

>sp|A8XPU7|CPSF1_CAEBR Probable cleavage and polyadenylation specificity factor subunit 1 OS=Caenorhabditis briggsae GN=cpsf-1 PE=3 SV=1

 Score =  122 bits (307), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 71/220 (32%), Positives = 124/220 (56%), Gaps = 12/220 (5%)

Query: 44   LRFKKL-KVLFVSDRSKRANEQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPE 102
            +RF++  K + ++ R  R   Q  +     A EF+++   +GF++SD+  N+ LF Y PE
Sbjct: 1240 IRFQEENKAMSIASRDDRKCAQAPM-----ASEFLVDGMHIGFLLSDEHGNITLFSYSPE 1294

Query: 103  ARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPI-SDAPGARS----RFLTWYASLDGA 157
            A ESNGG RL  K   ++G ++N F +++   S + S +P  R     R  T + SLDG+
Sbjct: 1295 APESNGGERLTVKAAINIGTNINAFLRVKGHTSLLDSSSPEERENIEQRMNTIFGSLDGS 1354

Query: 158  LGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYK-GKGYYAGNPSRGIIDGSL 216
             G+  PL EK+YRRL  LQ  + + T    GL+ +  R+ K  +    G  +R +IDG +
Sbjct: 1355 FGYIRPLTEKSYRRLHFLQTFIGSVTPQIAGLHIKGARSSKPSQPIVNGRNARNLIDGDV 1414

Query: 217  VWKFLQLSLGERLEICKKIGSKHNDILDELYDIEALSSHF 256
            V ++L LS+ ++ ++ +++G     ILD+L  +  ++ ++
Sbjct: 1415 VEQYLHLSVYDKTDLARRLGVGRYHILDDLMQLRRMAYYY 1454

CPSF plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A)polymerase and other factors to bring about cleavage and poly(A) addition. This subunit is involved in the RNA recognition step of the polyadenylation reaction.

Caenorhabditis briggsae (taxid: 6238)

>sp|Q7XWP1|CPSF1_ORYSJ Probable cleavage and polyadenylation specificity factor subunit 1 OS=Oryza sativa subsp. japonica GN=Os04g0252200 PE=3 SV=2

 Score =  122 bits (306), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 65/181 (35%), Positives = 103/181 (56%), Gaps = 5/181 (2%)

Query: 71   VYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKI 130
             +A EF+I+ S++  + SD DKNV +F Y P+  ES  G +L+ + +FH+G H+  F ++
Sbjct: 1257 CFATEFLIDGSTLSLVASDSDKNVQIFYYAPKMVESWKGQKLLSRAEFHVGAHITKFLRL 1316

Query: 131  RCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLN 190
            +  P+    +    +RF   + +LDG +G   P+ E  +RRL  LQ  +V    H  GLN
Sbjct: 1317 QMLPTQ-GLSSEKTNRFALLFGNLDGGIGCIAPIDELTFRRLQSLQRKLVDAVPHVCGLN 1375

Query: 191  PRAFRTY--KGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELYD 248
            PR+FR +   GKG+  G     IID  L+  +  LSL E+L++ ++IG+  + IL    D
Sbjct: 1376 PRSFRQFHSNGKGHRPG--PDNIIDFELLCSYEMLSLDEQLDVAQQIGTTRSQILSNFSD 1433

Query: 249  I 249
            I
Sbjct: 1434 I 1434

CPSF plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A)polymerase and other factors to bring about cleavage and poly(A) addition. This subunit is involved in the RNA recognition step of the polyadenylation reaction.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9FGR0|CPSF1_ARATH Cleavage and polyadenylation specificity factor subunit 1 OS=Arabidopsis thaliana GN=CPSF160 PE=1 SV=2

 Score =  119 bits (298), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 62/184 (33%), Positives = 101/184 (54%), Gaps = 4/184 (2%)

Query: 71   VYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKI 130
             +A EF+I+ S++   +SD+ KN+ +F Y P+  ES  G +L+ + +FH+G HV+ F ++
Sbjct: 1261 CFATEFLIDGSTLSLAVSDEQKNIQVFYYAPKMIESWKGLKLLSRAEFHVGAHVSKFLRL 1320

Query: 131  RCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLN 190
            +     +S      +RF   + +LDG+ G   PL E  +RRL  LQ  +V    H  GLN
Sbjct: 1321 QM----VSSGADKINRFALLFGTLDGSFGCIAPLDEVTFRRLQSLQKKLVDAVPHVAGLN 1376

Query: 191  PRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELYDIE 250
            P AFR ++  G    +    I+D  L+  +  L L E+LE+  +IG+    IL +L D+ 
Sbjct: 1377 PLAFRQFRSSGKARRSGPDSIVDCELLCHYEMLPLEEQLELAHQIGTTRYSILKDLVDLS 1436

Query: 251  ALSS 254
              +S
Sbjct: 1437 VGTS 1440

CPSF plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A)polymerase and other factors to bring about cleavage and poly(A) addition. This subunit is involved in the RNA recognition step of the polyadenylation reaction.

Arabidopsis thaliana (taxid: 3702)

>sp|O74733|CFT1_SCHPO Protein cft1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=cft1 PE=3 SV=1

 Score = 99.8 bits (247), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 60/188 (31%), Positives = 100/188 (53%), Gaps = 6/188 (3%)

Query: 70   GVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFK 129
             V A +F+++  ++ F+++D   N+ L  Y PE  ES+ G RL+ + DFH+G +V T   
Sbjct: 1254 NVSAADFLVQGENLYFVVADTSGNLRLLAYDPENPESHSGERLVTRGDFHIG-NVITAMT 1312

Query: 130  IRCKPSPISDAP---GARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHT 186
            I  K     +A         F     + DG L   +P+ ++ YRRL ++QN +    +  
Sbjct: 1313 ILPKEKKHQNAEYGYDTGDDFSCVMVNSDGGLQMLVPISDRVYRRLNIIQNYLANRVNTI 1372

Query: 187  GGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDEL 246
            GGLNP+++R          NP+R I+DG L+  F  +S+  R E+  K G   + I+++L
Sbjct: 1373 GGLNPKSYRLITSPSNLT-NPTRRILDGMLIDYFTYMSVAHRHEMAHKCGVPVSTIMNDL 1431

Query: 247  YDI-EALS 253
             ++ EALS
Sbjct: 1432 VELDEALS 1439

RNA-binding component of the cleavage and polyadenylation factor (CPF) complex, which plays a key role in polyadenylation-dependent pre-mRNA 3'-end formation and cooperates with cleavage factors including the CFIA complex and NAB4/CFIB. Involved in poly(A) site recognition. May be involved in coupling transcription termination and mRNA 3'-end formation.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q1E5B0|CFT1_COCIM Protein CFT1 OS=Coccidioides immitis (strain RS) GN=CFT1 PE=3 SV=1

 Score = 95.9 bits (237), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 57/192 (29%), Positives = 97/192 (50%), Gaps = 16/192 (8%)

Query: 71   VYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKI 130
            V A +F+ +   +  +++D D  + +  Y PE   S+ G RL+ ++ FH G   +T   +
Sbjct: 1197 VIAADFLPDGKRLYILVADDDCTIHVLEYDPEDPTSSKGDRLLHRSSFHTGHFTSTMTLL 1256

Query: 131  -RCKPSPISDAPGARS--------RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVT 181
                 SP +D P             +     S +G++G   PL E +YRRL  LQ+ +VT
Sbjct: 1257 PEHSSSPSADDPEEDDMDVDYVPKSYQVLVTSQEGSIGVVTPLTEDSYRRLSALQSQLVT 1316

Query: 182  HTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHND 241
               H  GLNP+A+R  +  G+      RGI+DG+L+ ++L + +  + EI  ++G+   D
Sbjct: 1317 SMEHPCGLNPKAYRAVESDGFGG----RGIVDGNLLLRWLDMGVQRKAEIAGRVGA---D 1369

Query: 242  ILDELYDIEALS 253
            I     D+E +S
Sbjct: 1370 IESIRVDLETIS 1381

RNA-binding component of the cleavage and polyadenylation factor (CPF) complex, which plays a key role in polyadenylation-dependent pre-mRNA 3'-end formation and cooperates with cleavage factors including the CFIA complex and NAB4/CFIB. Involved in poly(A) site recognition. May be involved in coupling transcription termination and mRNA 3'-end formation.

Coccidioides immitis (strain RS) (taxid: 246410)

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	256
383863556	1415	PREDICTED: cleavage and polyadenylation	0.738	0.133	0.544	4e-58
270003792	1392	hypothetical protein TcasGA2_TC003068 [T	0.738	0.135	0.533	5e-58
91078626	1413	PREDICTED: similar to cleavage and polya	0.738	0.133	0.533	5e-58
350413821	1417	PREDICTED: cleavage and polyadenylation	0.738	0.133	0.538	8e-58
340710064	1417	PREDICTED: cleavage and polyadenylation	0.738	0.133	0.538	1e-57
110750698	1415	PREDICTED: cleavage and polyadenylation	0.738	0.133	0.538	4e-57
307191845	1214	Cleavage and polyadenylation specificity	0.804	0.169	0.481	5e-56
345482082	1415	PREDICTED: cleavage and polyadenylation	0.804	0.145	0.486	6e-55
307190910	1418	Cleavage and polyadenylation specificity	0.738	0.133	0.525	8e-55
242021233	1409	Cleavage and polyadenylation specificity	0.738	0.134	0.492	6e-53

>gi|383863556|ref|XP_003707246.1| PREDICTED: cleavage and polyadenylation specificity factor subunit 1-like [Megachile rotundata]

 Score =  230 bits (587), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 105/193 (54%), Positives = 147/193 (76%), Gaps = 4/193 (2%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  VY  E++I+++++GF+++D + N+ LFMYQPE+RES GG +LI+K DFHLGQ VNTF
Sbjct: 1223 PAEVYTIEYLIDNNNLGFLVADGESNIALFMYQPESRESLGGQKLIRKADFHLGQKVNTF 1282

Query: 128  FKIRCKPS-PISDA---PGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHT 183
            F+IRC+ S P +D     GA  R +T YASLDG+LG+ LP+PEK YRRLLMLQNV+VTH 
Sbjct: 1283 FRIRCRISDPANDKKHFSGADKRHVTMYASLDGSLGYILPVPEKTYRRLLMLQNVLVTHI 1342

Query: 184  SHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDIL 243
             H  GLNP+A+RTYK      GNP+RGIIDG LVW++L L   E++++ KKIG++  +I+
Sbjct: 1343 CHIAGLNPKAYRTYKSYIRTQGNPARGIIDGDLVWRYLYLPNNEKIDVAKKIGTRVQEII 1402

Query: 244  DELYDIEALSSHF 256
            ++L +I+  ++HF
Sbjct: 1403 EDLTEIDRQTAHF 1415

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270003792|gb|EFA00240.1| hypothetical protein TcasGA2_TC003068 [Tribolium castaneum]

 Score =  230 bits (586), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 103/193 (53%), Positives = 148/193 (76%), Gaps = 4/193 (2%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  V++ E++I++++MGF++SD +KN+VL+MYQPE+RES GG RL++K DFHLGQ VN+F
Sbjct: 1200 PCEVFSVEYMIDNTTMGFLVSDSEKNLVLYMYQPESRESLGGQRLLRKADFHLGQAVNSF 1259

Query: 128  FKIRCKPSPISDA----PGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHT 183
            F+I+CK   + +      GA  R +T YA+LDG LG+ +P+PEK YRRLLMLQNV+V+  
Sbjct: 1260 FRIKCKLGELGEDKKNLTGADKRHITMYATLDGGLGYIMPVPEKTYRRLLMLQNVLVSQG 1319

Query: 184  SHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDIL 243
            +H  GLNP+AFRTYK       NP+R +IDG LV+ +LQLS+ E+LE+ KKIG+K  ++L
Sbjct: 1320 AHIAGLNPKAFRTYKSWKKLQTNPARSVIDGELVYNYLQLSIPEKLEVSKKIGTKLEELL 1379

Query: 244  DELYDIEALSSHF 256
            D+L DI+ +++HF
Sbjct: 1380 DDLSDIQKITNHF 1392

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91078626|ref|XP_968117.1| PREDICTED: similar to cleavage and polyadenylation specificity factor cpsf [Tribolium castaneum]

 Score =  230 bits (586), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 103/193 (53%), Positives = 148/193 (76%), Gaps = 4/193 (2%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  V++ E++I++++MGF++SD +KN+VL+MYQPE+RES GG RL++K DFHLGQ VN+F
Sbjct: 1221 PCEVFSVEYMIDNTTMGFLVSDSEKNLVLYMYQPESRESLGGQRLLRKADFHLGQAVNSF 1280

Query: 128  FKIRCKPSPISDA----PGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHT 183
            F+I+CK   + +      GA  R +T YA+LDG LG+ +P+PEK YRRLLMLQNV+V+  
Sbjct: 1281 FRIKCKLGELGEDKKNLTGADKRHITMYATLDGGLGYIMPVPEKTYRRLLMLQNVLVSQG 1340

Query: 184  SHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDIL 243
            +H  GLNP+AFRTYK       NP+R +IDG LV+ +LQLS+ E+LE+ KKIG+K  ++L
Sbjct: 1341 AHIAGLNPKAFRTYKSWKKLQTNPARSVIDGELVYNYLQLSIPEKLEVSKKIGTKLEELL 1400

Query: 244  DELYDIEALSSHF 256
            D+L DI+ +++HF
Sbjct: 1401 DDLSDIQKITNHF 1413

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350413821|ref|XP_003490124.1| PREDICTED: cleavage and polyadenylation specificity factor subunit 1-like [Bombus impatiens]

 Score =  229 bits (584), Expect = 8e-58,   Method: Compositional matrix adjust.
 Identities = 104/193 (53%), Positives = 147/193 (76%), Gaps = 4/193 (2%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  VY  E++I+++++GF+++D + N+ LFMYQPE+RES GG +LI+K DFHLGQ VNTF
Sbjct: 1225 PAEVYTIEYLIDNTNLGFLVADGESNMALFMYQPESRESLGGQKLIRKADFHLGQKVNTF 1284

Query: 128  FKIRCKPS-PISDA---PGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHT 183
            F+I+C+ S P +D     GA  R +T YASLDG+LG+ LP+PEK YRRLLMLQNV+VTH 
Sbjct: 1285 FRIKCRVSDPANDKKHFSGADKRHVTMYASLDGSLGYILPVPEKTYRRLLMLQNVLVTHI 1344

Query: 184  SHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDIL 243
             H  GLNP+A+RTYK      GNP+RGIIDG LVW++L L   E++++ KKIG++  +I+
Sbjct: 1345 CHIAGLNPKAYRTYKSHIRTQGNPARGIIDGDLVWRYLYLPNNEKIDVAKKIGTRVQEII 1404

Query: 244  DELYDIEALSSHF 256
            ++L +I+  ++HF
Sbjct: 1405 EDLTEIDRQTAHF 1417

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340710064|ref|XP_003393618.1| PREDICTED: cleavage and polyadenylation specificity factor subunit 1-like [Bombus terrestris]

 Score =  229 bits (583), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 104/193 (53%), Positives = 146/193 (75%), Gaps = 4/193 (2%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  VY  E++I+++++GF+++D + N+ LFMYQPE+RES GG +LI+K DFHLGQ VNTF
Sbjct: 1225 PAEVYTIEYLIDNTNLGFLVADGESNMALFMYQPESRESLGGQKLIRKADFHLGQKVNTF 1284

Query: 128  FKIRCKPS-PISDA---PGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHT 183
            F+IRC+ S P +D     GA  R +T YASLDG+LG+ LP+PEK YRRLLMLQNV+VTH 
Sbjct: 1285 FRIRCRLSDPANDKKHFSGADKRHVTMYASLDGSLGYILPVPEKTYRRLLMLQNVLVTHI 1344

Query: 184  SHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDIL 243
             H  GLNP+A+RTYK      GNP+RGIIDG LVW++  L   E++++ KKIG++  +I+
Sbjct: 1345 CHIAGLNPKAYRTYKSHIRTQGNPARGIIDGDLVWRYFYLPNNEKIDVAKKIGTRVQEII 1404

Query: 244  DELYDIEALSSHF 256
            ++L +I+  ++HF
Sbjct: 1405 EDLTEIDRQTAHF 1417

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|110750698|ref|XP_624382.2| PREDICTED: cleavage and polyadenylation specificity factor subunit 1 [Apis mellifera]

 Score =  227 bits (579), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 104/193 (53%), Positives = 145/193 (75%), Gaps = 4/193 (2%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  VY  E++I+++++GF+++D + N+ LFMYQPE+RES GG +LI+K DFHLGQ VNTF
Sbjct: 1223 PAEVYTIEYLIDNTNLGFLVADGESNIALFMYQPESRESLGGQKLIRKADFHLGQKVNTF 1282

Query: 128  FKIRCKPS-PISDA---PGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHT 183
            F+IRC+ S P +D      A  R +T YASLDG LG+ LP+PEK YRRLLMLQNV+VTH 
Sbjct: 1283 FRIRCRISDPANDKKHFSDADKRHVTMYASLDGNLGYILPVPEKTYRRLLMLQNVLVTHI 1342

Query: 184  SHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDIL 243
             H  GLNP+A+RTYK      GNP+RGIIDG LVW++L L   E++++ KKIG++  +I+
Sbjct: 1343 CHIAGLNPKAYRTYKSHIRTQGNPARGIIDGDLVWRYLYLPNNEKIDVAKKIGTRVQEII 1402

Query: 244  DELYDIEALSSHF 256
            ++L +I+  ++HF
Sbjct: 1403 EDLTEIDRQTAHF 1415

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307191845|gb|EFN75271.1| Cleavage and polyadenylation specificity factor subunit 1 [Harpegnathos saltator]

 Score =  223 bits (569), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 105/218 (48%), Positives = 154/218 (70%), Gaps = 12/218 (5%)

Query: 44   LRFK-KLKVLFVSDRSKRANEQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPE 102
            LRF+ K + L +  R  R       P  VY  E++I+++++GF+I+D + N+ LFMYQPE
Sbjct: 1004 LRFQEKCRTLSLVSRDFR-------PAEVYTIEYLIDNTNLGFLIADGESNLALFMYQPE 1056

Query: 103  ARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPISDA----PGARSRFLTWYASLDGAL 158
            +RES GG +LI+K DFHLGQ +NTFF+I+C+ + ++        A  + +T YASLDG+L
Sbjct: 1057 SRESLGGQKLIRKADFHLGQKINTFFRIKCRVTDVASDKKHFSDADKKHVTMYASLDGSL 1116

Query: 159  GFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVW 218
            G+ LP+PEK YRRLLMLQNV+VTH  H  GLNP+A+RTYK      GNP+RGIIDG LVW
Sbjct: 1117 GYVLPVPEKTYRRLLMLQNVLVTHICHIAGLNPKAYRTYKSYVRNQGNPARGIIDGDLVW 1176

Query: 219  KFLQLSLGERLEICKKIGSKHNDILDELYDIEALSSHF 256
            ++L L   E+ ++ KKIG++  +I++++ +I+  ++HF
Sbjct: 1177 RYLSLPNNEKADVAKKIGTRVQEIIEDITEIDRQTAHF 1214

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345482082|ref|XP_001607052.2| PREDICTED: cleavage and polyadenylation specificity factor subunit 1-like [Nasonia vitripennis]

 Score =  219 bits (559), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 106/218 (48%), Positives = 150/218 (68%), Gaps = 12/218 (5%)

Query: 44   LRFK-KLKVLFVSDRSKRANEQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPE 102
            LRF+ + K L +  R  R  E       +YA E+ I+++ +GF+++D + N+ +F YQPE
Sbjct: 1205 LRFQPEYKTLSLVSRDFRTTE-------IYAIEYFIQNNELGFIVADGESNISIFSYQPE 1257

Query: 103  ARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPS----PISDAPGARSRFLTWYASLDGAL 158
            + +S GG +LI+K D HLGQ +NTFF+I+CK +    P     GA  R +T YA+LDG+L
Sbjct: 1258 SSQSLGGQKLIRKADIHLGQKINTFFRIKCKTTDSANPTKQFSGADKRHVTMYATLDGSL 1317

Query: 159  GFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVW 218
            G+ LP+PEK YRRLLMLQNV+V+H  H  GLNP+AFRTYK      GNP+RGIIDG LV 
Sbjct: 1318 GYILPVPEKTYRRLLMLQNVLVSHIYHIAGLNPKAFRTYKSCVRMQGNPARGIIDGDLVR 1377

Query: 219  KFLQLSLGERLEICKKIGSKHNDILDELYDIEALSSHF 256
            K+L L + E++EI KKIG+   +I+D++++I   +SHF
Sbjct: 1378 KYLDLPVNEKIEIAKKIGTGAQEIMDDMHEIYKQTSHF 1415

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307190910|gb|EFN74734.1| Cleavage and polyadenylation specificity factor subunit 1 [Camponotus floridanus]

 Score =  219 bits (558), Expect = 8e-55,   Method: Compositional matrix adjust.
 Identities = 102/194 (52%), Positives = 145/194 (74%), Gaps = 5/194 (2%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  VY  E++I+++++GF ++D + N+ LFMYQPE+RES GG +LI+K DFHLGQ VNTF
Sbjct: 1225 PAEVYTIEYLIDNTNLGFFLADGESNLALFMYQPESRESLGGQKLIRKADFHLGQKVNTF 1284

Query: 128  FKIRCKPS-PISDA---PGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHT 183
            F+IRC+ S P +D     GA  R +T YA+LDG+LG+ LP+PEK YRRLLMLQNV+VTH 
Sbjct: 1285 FRIRCRVSDPANDKKQFSGADKRHVTMYATLDGSLGYILPVPEKTYRRLLMLQNVLVTHI 1344

Query: 184  SHTGGLNPRAFR-TYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDI 242
             H  GLNP+++R TYK      GNP+RGIIDG LVW++L L   E+ ++ KKIG++  +I
Sbjct: 1345 CHIAGLNPKSYRQTYKSYIRNQGNPARGIIDGDLVWRYLFLPNNEKTDVAKKIGTRVQEI 1404

Query: 243  LDELYDIEALSSHF 256
            ++++ +I+  ++HF
Sbjct: 1405 IEDITEIDRQTAHF 1418

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242021233|ref|XP_002431050.1| Cleavage and polyadenylation specificity factor 160 kDa subunit, putative [Pediculus humanus corporis] gi|212516279|gb|EEB18312.1| Cleavage and polyadenylation specificity factor 160 kDa subunit, putative [Pediculus humanus corporis]

 Score =  213 bits (542), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 95/193 (49%), Positives = 141/193 (73%), Gaps = 4/193 (2%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  VYA E +++++ MGF+ISD + N++++MY+PE R+S GG +L++K DFHLGQH+N++
Sbjct: 1217 PCEVYAIELLLDNTQMGFLISDVEMNIIMYMYKPEDRDSVGGQKLLRKADFHLGQHINSW 1276

Query: 128  FKIRCK---PSPISDAP-GARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHT 183
            F+IRC+    +   D P GA  R ++ +A+LDGALG+ LP+PEK YRRL MLQN++V H 
Sbjct: 1277 FRIRCRLGDQAENYDFPIGAEKRHISMFATLDGALGYLLPIPEKTYRRLQMLQNILVYHI 1336

Query: 184  SHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDIL 243
             H  GLNP+AFR YK      GNP + I+DG L+W +L L++ E+ ++ KK+GSK +DI+
Sbjct: 1337 PHLAGLNPKAFRIYKSGRKLLGNPCKRIVDGELIWMYLSLTVMEKQDVAKKMGSKMDDII 1396

Query: 244  DELYDIEALSSHF 256
            +++  IE LS HF
Sbjct: 1397 EDIAVIERLSGHF 1409

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	256
FB|FBgn0024698	1455	Cpsf160 "Cleavage and polyaden	0.738	0.129	0.465	1.9e-54
UNIPROTKB|K7GNU1	757	CPSF1 "Uncharacterized protein	0.730	0.247	0.438	7.1e-50
UNIPROTKB|F1RSN8	1108	CPSF1 "Uncharacterized protein	0.730	0.168	0.438	8.7e-49
UNIPROTKB|J9P418	1107	CPSF1 "Uncharacterized protein	0.730	0.168	0.432	1.8e-48
RGD|1306406	1386	Cpsf1 "cleavage and polyadenyl	0.730	0.134	0.432	2.7e-48
MGI|MGI:2679722	1441	Cpsf1 "cleavage and polyadenyl	0.730	0.129	0.432	3.1e-48
UNIPROTKB|F1PC28	1398	CPSF1 "Uncharacterized protein	0.730	0.133	0.432	4.6e-48
UNIPROTKB|Q10569	1444	CPSF1 "Cleavage and polyadenyl	0.730	0.129	0.432	6.6e-48
UNIPROTKB|Q10570	1443	CPSF1 "Cleavage and polyadenyl	0.738	0.130	0.432	2.2e-47
ZFIN|ZDB-GENE-040709-2	1451	cpsf1 "cleavage and polyadenyl	0.738	0.130	0.442	1.6e-46

FB|FBgn0024698 Cpsf160 "Cleavage and polyadenylation specificity factor 160" [Drosophila melanogaster (taxid:7227)]

 Score = 479 (173.7 bits), Expect = 1.9e-54, Sum P(2) = 1.9e-54
 Identities = 89/191 (46%), Positives = 133/191 (69%)

Query:    68 PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
             P  VY  EF++++S++GF+++D ++N++++MYQPEARES GG +L++K D+HLGQ VNT 
Sbjct:  1265 PLEVYGIEFMVDNSNLGFLVTDAERNIIVYMYQPEARESLGGQKLLRKADYHLGQVVNTM 1324

Query:   128 FKIRCKPSPISDA-PGA-RSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSH 185
             F+++C    +    P    ++    Y +LDGALG+ LPLPEK YRR LMLQNV++++  H
Sbjct:  1325 FRVQCHQKGLHQRQPFLYENKHFVVYGTLDGALGYCLPLPEKVYRRFLMLQNVLLSYQEH 1384

Query:   186 TGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDE 245
               GLNP+ +RT K       NPSR IIDG L+W +  ++  ER E+ KKIG++  +IL +
Sbjct:  1385 LCGLNPKEYRTLKSSKKQGINPSRCIIDGDLIWSYRLMANSERNEVAKKIGTRTEEILGD 1444

Query:   246 LYDIEALSSHF 256
             L +IE L+S F
Sbjct:  1445 LLEIERLASVF 1455

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

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

GO:0006379 "mRNA cleavage" evidence=ISS;NAS

GO:0003730 "mRNA 3'-UTR binding" evidence=ISS

GO:0003729 "mRNA binding" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

GO:0022008 "neurogenesis" evidence=IMP

UNIPROTKB|K7GNU1 CPSF1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 456 (165.6 bits), Expect = 7.1e-50, Sum P(2) = 7.1e-50
 Identities = 85/194 (43%), Positives = 133/194 (68%)

Query:    68 PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
             P  VY+ +F+++++ +GF++SD+D+N++++MY PEA+ES GG RL+++ DFH+G HVNTF
Sbjct:   566 PLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESFGGMRLLRRADFHVGAHVNTF 625

Query:   128 FKIRCKPSPISDAPGARS-----RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTH 182
             ++  C+ +  +D P  +S     + +TW+A+LDG +G  LP+ EK YRRLLMLQN + T 
Sbjct:   626 WRTPCRGA--TDGPSKKSVVWENKHITWFATLDGGIGLLLPMQEKTYRRLLMLQNALTTM 683

Query:   183 TSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDI 242
               H  GLNPRAFR          N  R ++DG L+ ++L LS  ER E+ KKIG+  + I
Sbjct:   684 LPHHAGLNPRAFRMLHVDRRVLQNAVRNVLDGELLNRYLYLSTMERGELAKKIGTTPDII 743

Query:   243 LDELYDIEALSSHF 256
             LD+L + + +++HF
Sbjct:   744 LDDLLETDRVTAHF 757

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|F1RSN8 CPSF1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 456 (165.6 bits), Expect = 8.7e-49, Sum P(2) = 8.7e-49
 Identities = 85/194 (43%), Positives = 133/194 (68%)

Query:    68 PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
             P  VY+ +F+++++ +GF++SD+D+N++++MY PEA+ES GG RL+++ DFH+G HVNTF
Sbjct:   917 PLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESFGGMRLLRRADFHVGAHVNTF 976

Query:   128 FKIRCKPSPISDAPGARS-----RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTH 182
             ++  C+ +  +D P  +S     + +TW+A+LDG +G  LP+ EK YRRLLMLQN + T 
Sbjct:   977 WRTPCRGA--TDGPSKKSVVWENKHITWFATLDGGIGLLLPMQEKTYRRLLMLQNALTTM 1034

Query:   183 TSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDI 242
               H  GLNPRAFR          N  R ++DG L+ ++L LS  ER E+ KKIG+  + I
Sbjct:  1035 LPHHAGLNPRAFRMLHVDRRVLQNAVRNVLDGELLNRYLYLSTMERGELAKKIGTTPDII 1094

Query:   243 LDELYDIEALSSHF 256
             LD+L + + +++HF
Sbjct:  1095 LDDLLETDRVTAHF 1108

GO:0006379 "mRNA cleavage" evidence=IEA

GO:0006378 "mRNA polyadenylation" evidence=IEA

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

GO:0003730 "mRNA 3'-UTR binding" evidence=IEA

UNIPROTKB|J9P418 CPSF1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 452 (164.2 bits), Expect = 1.8e-48, Sum P(2) = 1.8e-48
 Identities = 84/194 (43%), Positives = 133/194 (68%)

Query:    68 PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
             P  VY+ +F+++++ +GF++SD+D+N++++MY PEA+ES GG RL+++ DFH+G HVNTF
Sbjct:   916 PLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESFGGMRLLRRADFHVGAHVNTF 975

Query:   128 FKIRCKPSPISDAPGARS-----RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTH 182
             ++  C+ +  ++ P  +S     + +TW+A+LDG +G  LP+ EK YRRLLMLQN + T 
Sbjct:   976 WRTPCRGA--AEGPSKKSVVWENKHITWFATLDGGIGLLLPMQEKTYRRLLMLQNALTTM 1033

Query:   183 TSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDI 242
               H  GLNPRAFR          N  R ++DG L+ ++L LS  ER E+ KKIG+  + I
Sbjct:  1034 LPHHAGLNPRAFRMLHVDRRILQNAVRNVLDGELLNRYLYLSTMERGELAKKIGTTPDII 1093

Query:   243 LDELYDIEALSSHF 256
             LD+L + + +++HF
Sbjct:  1094 LDDLLETDRVTAHF 1107

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

RGD|1306406 Cpsf1 "cleavage and polyadenylation specific factor 1, 160kDa" [Rattus norvegicus (taxid:10116)]

 Score = 454 (164.9 bits), Expect = 2.7e-48, Sum P(2) = 2.7e-48
 Identities = 84/194 (43%), Positives = 133/194 (68%)

Query:    68 PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
             P  VY+ +F+++++ +GF++SD+D+N++++MY PEA+ES GG RL+++ DFH+G HVNTF
Sbjct:  1195 PLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESFGGMRLLRRADFHVGAHVNTF 1254

Query:   128 FKIRCKPSPISDAPGARS-----RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTH 182
             ++  C+ +  ++ P  +S     + +TW+A+LDG +G  LP+ EK YRRLLMLQN + T 
Sbjct:  1255 WRTPCRGA--AEGPSKKSVMWENKHITWFATLDGGIGLLLPMQEKTYRRLLMLQNALTTM 1312

Query:   183 TSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDI 242
               H  GLNPRAFR          N  R ++DG L+ ++L LS  ER E+ KKIG+  + I
Sbjct:  1313 LPHHAGLNPRAFRMLHVDRRILQNAVRNVLDGELLNRYLYLSTMERSELAKKIGTTPDII 1372

Query:   243 LDELYDIEALSSHF 256
             LD+L + + +++HF
Sbjct:  1373 LDDLLETDRVTAHF 1386

GO:0003730 "mRNA 3'-UTR binding" evidence=IEA;ISO

GO:0005847 "mRNA cleavage and polyadenylation specificity factor complex" evidence=IEA;ISO

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

GO:0006379 "mRNA cleavage" evidence=IEA;ISO

MGI|MGI:2679722 Cpsf1 "cleavage and polyadenylation specific factor 1" [Mus musculus (taxid:10090)]

 Score = 454 (164.9 bits), Expect = 3.1e-48, Sum P(2) = 3.1e-48
 Identities = 84/194 (43%), Positives = 133/194 (68%)

Query:    68 PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
             P  VY+ +F+++++ +GF++SD+D+N++++MY PEA+ES GG RL+++ DFH+G HVNTF
Sbjct:  1250 PLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESFGGMRLLRRADFHVGAHVNTF 1309

Query:   128 FKIRCKPSPISDAPGARS-----RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTH 182
             ++  C+ +  ++ P  +S     + +TW+A+LDG +G  LP+ EK YRRLLMLQN + T 
Sbjct:  1310 WRTPCRGA--AEGPSKKSVVWENKHITWFATLDGGIGLLLPMQEKTYRRLLMLQNALTTM 1367

Query:   183 TSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDI 242
               H  GLNPRAFR          N  R ++DG L+ ++L LS  ER E+ KKIG+  + I
Sbjct:  1368 LPHHAGLNPRAFRMLHVDRRILQNAVRNVLDGELLNRYLYLSTMERSELAKKIGTTPDII 1427

Query:   243 LDELYDIEALSSHF 256
             LD+L + + +++HF
Sbjct:  1428 LDDLLETDRVTAHF 1441

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0003730 "mRNA 3'-UTR binding" evidence=ISO

GO:0005634 "nucleus" evidence=IEA

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

GO:0006378 "mRNA polyadenylation" evidence=ISO

GO:0006379 "mRNA cleavage" evidence=ISO

GO:0006397 "mRNA processing" evidence=IEA

UNIPROTKB|F1PC28 CPSF1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 452 (164.2 bits), Expect = 4.6e-48, Sum P(2) = 4.6e-48
 Identities = 84/194 (43%), Positives = 133/194 (68%)

Query:    68 PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
             P  VY+ +F+++++ +GF++SD+D+N++++MY PEA+ES GG RL+++ DFH+G HVNTF
Sbjct:  1207 PLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESFGGMRLLRRADFHVGAHVNTF 1266

Query:   128 FKIRCKPSPISDAPGARS-----RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTH 182
             ++  C+ +  ++ P  +S     + +TW+A+LDG +G  LP+ EK YRRLLMLQN + T 
Sbjct:  1267 WRTPCRGA--AEGPSKKSVVWENKHITWFATLDGGIGLLLPMQEKTYRRLLMLQNALTTM 1324

Query:   183 TSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDI 242
               H  GLNPRAFR          N  R ++DG L+ ++L LS  ER E+ KKIG+  + I
Sbjct:  1325 LPHHAGLNPRAFRMLHVDRRILQNAVRNVLDGELLNRYLYLSTMERGELAKKIGTTPDII 1384

Query:   243 LDELYDIEALSSHF 256
             LD+L + + +++HF
Sbjct:  1385 LDDLLETDRVTAHF 1398

GO:0006379 "mRNA cleavage" evidence=IEA

GO:0006378 "mRNA polyadenylation" evidence=IEA

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

GO:0003730 "mRNA 3'-UTR binding" evidence=IEA

UNIPROTKB|Q10569 CPSF1 "Cleavage and polyadenylation specificity factor subunit 1" [Bos taurus (taxid:9913)]

 Score = 452 (164.2 bits), Expect = 6.6e-48, Sum P(2) = 6.6e-48
 Identities = 84/194 (43%), Positives = 133/194 (68%)

Query:    68 PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
             P  VY+ +F+++++ +GF++SD+D+N++++MY PEA+ES GG RL+++ DFH+G HVNTF
Sbjct:  1253 PLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESFGGMRLLRRADFHVGAHVNTF 1312

Query:   128 FKIRCKPSPISDAPGARS-----RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTH 182
             ++  C+ +  ++ P  +S     + +TW+A+LDG +G  LP+ EK YRRLLMLQN + T 
Sbjct:  1313 WRTPCRGA--AEGPSKKSVVWENKHITWFATLDGGIGLLLPMQEKTYRRLLMLQNALTTM 1370

Query:   183 TSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDI 242
               H  GLNPRAFR          N  R ++DG L+ ++L LS  ER E+ KKIG+  + I
Sbjct:  1371 LPHHAGLNPRAFRMLHVDRRVLQNAVRNVLDGELLNRYLYLSTMERGELAKKIGTTPDII 1430

Query:   243 LDELYDIEALSSHF 256
             LD+L + + +++HF
Sbjct:  1431 LDDLLETDRVTAHF 1444

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

GO:0006379 "mRNA cleavage" evidence=IEA

GO:0006378 "mRNA polyadenylation" evidence=IEA

GO:0003730 "mRNA 3'-UTR binding" evidence=IEA

UNIPROTKB|Q10570 CPSF1 "Cleavage and polyadenylation specificity factor subunit 1" [Homo sapiens (taxid:9606)]

 Score = 446 (162.1 bits), Expect = 2.2e-47, Sum P(2) = 2.2e-47
 Identities = 83/192 (43%), Positives = 131/192 (68%)

Query:    68 PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
             P  VY+ +F+++++ +GF++SD+D+N++++MY PEA+ES GG RL+++ DFH+G HVNTF
Sbjct:  1252 PLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESFGGMRLLRRADFHVGAHVNTF 1311

Query:   128 FKIRCKPSP--ISDAPGA-RSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTS 184
             ++  C+ +   +S       ++ +TW+A+LDG +G  LP+ EK YRRLLMLQN + T   
Sbjct:  1312 WRTPCRGATEGLSKKSVVWENKHITWFATLDGGIGLLLPMQEKTYRRLLMLQNALTTMLP 1371

Query:   185 HTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILD 244
             H  GLNPRAFR          N  R ++DG L+ ++L LS  ER E+ KKIG+  + ILD
Sbjct:  1372 HHAGLNPRAFRMLHVDRRTLQNAVRNVLDGELLNRYLYLSTMERSELAKKIGTTPDIILD 1431

Query:   245 ELYDIEALSSHF 256
             +L + + +++HF
Sbjct:  1432 DLLETDRVTAHF 1443

GO:0003730 "mRNA 3'-UTR binding" evidence=IDA

GO:0006379 "mRNA cleavage" evidence=IDA

GO:0006378 "mRNA polyadenylation" evidence=IDA

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

GO:0005515 "protein binding" evidence=IPI

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

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006366 "transcription from RNA polymerase II promoter" evidence=TAS

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

GO:0006397 "mRNA processing" evidence=TAS

GO:0006406 "mRNA export from nucleus" evidence=TAS

GO:0008380 "RNA splicing" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0031124 "mRNA 3'-end processing" evidence=TAS

ZFIN|ZDB-GENE-040709-2 cpsf1 "cleavage and polyadenylation specific factor 1" [Danio rerio (taxid:7955)]

 Score = 446 (162.1 bits), Expect = 1.6e-46, Sum P(2) = 1.6e-46
 Identities = 85/192 (44%), Positives = 132/192 (68%)

Query:    68 PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
             P  VY+ EF+++++ +GF++SD+DKN++++MY PEA+ES GG RL+++ DF++G HVN F
Sbjct:  1260 PLEVYSIEFMVDNNQLGFLVSDRDKNLMVYMYLPEAKESFGGMRLLRRADFNVGSHVNAF 1319

Query:   128 FKIRCKPSPISDAPGARS---RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTS 184
             +++ C+ +  +    A +   + +TW+A+LDG +G  LP+ EK YRRLLMLQN + T   
Sbjct:  1320 WRMPCRGTLDTANKKALTWDNKHITWFATLDGGVGLLLPMQEKTYRRLLMLQNALTTMLP 1379

Query:   185 HTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILD 244
             H  GLNP+AFR          N  + I+DG L+ K+L LS  ER E+ KKIG+  + ILD
Sbjct:  1380 HHAGLNPKAFRMLHCDRRTLQNAVKNILDGELLNKYLYLSTMERSELAKKIGTTPDIILD 1439

Query:   245 ELYDIEALSSHF 256
             +L +IE +++HF
Sbjct:  1440 DLLEIERVTAHF 1451

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006378 "mRNA polyadenylation" evidence=IMP

GO:0060216 "definitive hemopoiesis" evidence=IMP

---

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 EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	256
pfam03178	318	pfam03178, CPSF_A, CPSF A subunit region	1e-38
COG5161	1319	COG5161, SFT1, Pre-mRNA cleavage and polyadenylati	9e-21

>gnl|CDD|217409 pfam03178, CPSF_A, CPSF A subunit region

 Score =  136 bits (345), Expect = 1e-38
 Identities = 56/156 (35%), Positives = 84/156 (53%), Gaps = 10/156 (6%)

Query: 68  PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGH-RLIKKTDFHLGQHVNT 126
           PR V A EF+++  +   + +DK  N+ +  Y PEA ES  G  RL+ + +FHLG  V +
Sbjct: 170 PRWVTAAEFLVDYDT--ILGADKFGNLHVLRYDPEAPESLDGDPRLLHRAEFHLGDIVTS 227

Query: 127 FFKIRCKPSPISDAPGARSRFLTWYASLDGALGFFLP-LPEKNYRRLLMLQNVMVTHTSH 185
           F K      P +    + S     Y +LDG++G  +P + E+ YRRL  LQ  +     H
Sbjct: 228 FQKG--SLVPKTGGAESTSSPQILYGTLDGSIGLLVPFISEEEYRRLQHLQQQLRDELPH 285

Query: 186 TGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFL 221
             GL+PRAFR+Y  +      P + +IDG L+ +FL
Sbjct: 286 LCGLDPRAFRSYYSRSP----PVKNVIDGDLLERFL 317

This family includes a region that lies towards the C-terminus of the cleavage and polyadenylation specificity factor (CPSF) A (160 kDa) subunit. CPSF is involved in mRNA polyadenylation and binds the AAUAAA conserved sequence in pre-mRNA. CPSF has also been found to be necessary for splicing of single-intron pre-mRNAs. The function of the aligned region is unknown but may be involved in RNA/DNA binding. Length = 318

>gnl|CDD|227490 COG5161, SFT1, Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]

 Score = 91.2 bits (226), Expect = 9e-21
 Identities = 45/187 (24%), Positives = 77/187 (41%), Gaps = 5/187 (2%)

Query: 69   RGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFF 128
            R   + EF++  + + F+  D   N+    Y P    S  G RL+K++ F L    +   
Sbjct: 1136 RNATSTEFLVTGNELYFLCCDAKGNIHGLTYSPNNPISMSGARLVKRSSFTLH---SAEI 1192

Query: 129  KIRCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGG 188
            K+   P       G +  F+  Y+  DG L   +P+ + +YRRLL +Q  ++      GG
Sbjct: 1193 KMNLLPRNSEFGAGFKKNFIMVYSRSDGMLIHVVPISDAHYRRLLGIQTAIMARLKSVGG 1252

Query: 189  LNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELYD 248
            LNPR +R      +      R  +D  ++  F    +  R  +  K G      + ++  
Sbjct: 1253 LNPRDYR-LNSDIHLHSLSLRSPLDLHIINLFSYFDMSTRESVASKAGRIDRKEISDMIA 1311

Query: 249  IE-ALSS 254
                L S
Sbjct: 1312 SLNLLRS 1318

Length = 1319

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	256
KOG1896|consensus	1366		100.0
KOG1897|consensus	1096		100.0
KOG1898|consensus	1205		100.0
PF03178	321	CPSF_A: CPSF A subunit region; InterPro: IPR004871	100.0
COG5161	1319	SFT1 Pre-mRNA cleavage and polyadenylation specifi	99.95
PF14783	111	BBS2_Mid: Ciliary BBSome complex subunit 2, middle	88.74
PF00325	32	Crp: Bacterial regulatory proteins, crp family; In	85.29
KOG1896|consensus	1366		81.34

>KOG1896|consensus

Probab=100.00  E-value=4.2e-41  Score=334.05  Aligned_cols=230  Identities=38%  Similarity=0.661  Sum_probs=195.8

Q ss_pred             CCCeeEEEEEecCeEEEEEEeeCC--------------------CCceeeeeeecc-eEEEeeccccccCCCCCccceEE
Q psy13880         15 HGNRPLLLVRTQHELLIYQAFRHP--------------------KGTLKLRFKKLK-VLFVSDRSKRANEQPGLPRGVYA   73 (256)
Q Consensus        15 ~~~~~~l~~~~~~e~~iy~~~~~~--------------------~g~l~~r~~~~~-~~~~~~~~~~~~~~d~~~~~vta   73 (256)
                      +|.++++-..+++.-+|=.+|.+.                    .|...++|+.-+ .++++++       |..|+.|++
T Consensus      1114 ~GqKI~v~~l~r~~~ligVaFiD~~~yv~s~~~vknlIl~gDV~ksisfl~fqeep~rlsL~sr-------d~~~l~v~s 1186 (1366)
T KOG1896|consen 1114 QGQKIIVRKLDRDSELIGVAFIDLPLYVHSMKVVKNLILAGDVMKSISFLGFQEEPYRLSLLSR-------DFEPLNVYS 1186 (1366)
T ss_pred             cCcEEEEEEeccCCcceeeEEeccceeEEehhhhhhheehhhhhhceEEEEEccCceEEEEeec-------CCchhhcee
Confidence            567887776656667777777440                    444445555333 4444444       456999999


Q ss_pred             EEEEEcCCeeEEEEEeCCCcEEEEeeCCCccCCCCCCeeeeeeccccCcccceEeeeecCCCCCCCCCCCCCcceE--EE
Q psy13880         74 CEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARSRFLT--WY  151 (256)
Q Consensus        74 ~~fL~~~~~l~~l~aD~~gNl~vl~~~p~~~~s~~g~kL~~~~~fhlG~~v~~~~~~~~~~~~~~~~~~~~~~~~l--l~  151 (256)
                      +|||+++++|+|+++|+++||++|.|+|++++|++|+||+++++||+|..|++|.+.+++...+-    ...++..  +|
T Consensus      1187 ~EFLVdg~~L~flvsDa~rNi~vy~Y~Pe~~eS~~G~RLv~radfhvg~~vs~m~~lp~~~~~e~----~~~~~~~~~v~ 1262 (1366)
T KOG1896|consen 1187 TEFLVDGSNLSFLVSDADRNIHVYMYAPENIESLSGQRLVRRADFHVGAHVSTMFRLPCHQNAEF----GSNSPMFYEVF 1262 (1366)
T ss_pred             eeeEEcCCeeEEEEEcCCCcEEEEEeCCCCccccCcceeeeeeeeEeccceeeeEeccccccchh----ccCCchhhhhh
Confidence            99999999999999999999999999999999999999999999999999999999986532110    0123334  49


Q ss_pred             EeCCcceEEEEecChhhHHHHHHHHHHHHhcCCCCCCCCccccccccCCCccCCCCCCceeehHHHHHHhcCCHHHHHHH
Q psy13880        152 ASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEI  231 (256)
Q Consensus       152 ~T~~GsIg~l~pl~~~~~~~L~~LQ~~l~~~~~~~~Gl~~~~~R~~~~~~~~~~~~~k~~IDGDLle~Fl~L~~~~q~~i  231 (256)
                      ||+||++|+++|++|++||||+.||++|.+.++|+|||||++||.++... ...++.|++|||+||.+|..|+.++|+++
T Consensus      1263 gtlDG~l~~~~Pl~e~~YRRL~~lQn~L~~~~~hv~GLNPr~yR~~~s~~-~~~n~~r~ilDg~ll~~f~yl~~~er~el 1341 (1366)
T KOG1896|consen 1263 GTLDGGLGHLVPLDEKTYRRLLMLQNALMDRLPHVGGLNPRAYRLLDSSL-QLSNSLRSILDGELLNRFSYLSMSEREEL 1341 (1366)
T ss_pred             cccCCceeEEecCCHHHHHHHHHHHHHHHHhhhhhcCCCHHHhhhccchh-hhcCCCcccchHhHHHHhhccchhhHHHH
Confidence            99999999999999999999999999999999999999999999988776 44689999999999999999999999999


Q ss_pred             HHHhCCCHHHHHHHHHHHhhhcCCC
Q psy13880        232 CKKIGSKHNDILDELYDIEALSSHF  256 (256)
Q Consensus       232 a~~lg~s~~ei~~~l~~i~~~~~~~  256 (256)
                      |+++|+++.+|++||.+++.+|++|
T Consensus      1342 A~kiGt~~~eIl~DLvel~~~~s~~ 1366 (1366)
T KOG1896|consen 1342 AHKIGTTRKEILDDLVELDRLTSSL 1366 (1366)
T ss_pred             HHhcCCCHHHHHHHHHHHHHHhhcC
Confidence            9999999999999999999999987

>KOG1897|consensus

Probab=100.00  E-value=3.2e-39  Score=316.33  Aligned_cols=219  Identities=19%  Similarity=0.297  Sum_probs=195.6

Q ss_pred             EEEEeccCCCCeeEEEEEecCeEEEEEEeeCCCCceeeeeeecceEEEeeccccccCCCCCccceEEEEEEEcCCeeEEE
Q psy13880          7 LLTVSLGLHGNRPLLLVRTQHELLIYQAFRHPKGTLKLRFKKLKVLFVSDRSKRANEQPGLPRGVYACEFVIESSSMGFM   86 (256)
Q Consensus         7 ~~~v~~g~~~~~~~l~~~~~~e~~iy~~~~~~~g~l~~r~~~~~~~~~~~~~~~~~~~d~~~~~vta~~fL~~~~~l~~l   86 (256)
                      +...-+...|.+++  |-+..+++.+..|+.+||.+.+++                 ||+.|.|+||+++++++   +++
T Consensus       871 ~~aL~l~v~gdeI~--VgDlm~Sitll~y~~~eg~f~evA-----------------rD~~p~Wmtaveil~~d---~yl  928 (1096)
T KOG1897|consen  871 IIALDLQVKGDEIA--VGDLMRSITLLQYKGDEGNFEEVA-----------------RDYNPNWMTAVEILDDD---TYL  928 (1096)
T ss_pred             eEEEEEEecCcEEE--EeeccceEEEEEEeccCCceEEee-----------------hhhCccceeeEEEecCc---eEE
Confidence            45566777788877  558888999999999999998854                 47899999999999999   799


Q ss_pred             EEeCCCcEEEEeeCCCccCCCCCCeeeeeeccccCcccceEeeeecCCCCCCCCCCCCCcceEEEEeCCcceEEEEecCh
Q psy13880         87 ISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPE  166 (256)
Q Consensus        87 ~aD~~gNl~vl~~~p~~~~s~~g~kL~~~~~fhlG~~v~~~~~~~~~~~~~~~~~~~~~~~~ll~~T~~GsIg~l~pl~~  166 (256)
                      +||++||++++++|..++++.++++|+..+.||+|+.||+|++++++.....  ......+.++|||++|+||+|+.++.
T Consensus       929 gae~~gNlf~v~~d~~~~td~eR~~l~~~~~~hlGelvn~f~hg~lv~~~~~--s~~~~~~~vlfgTv~GsIG~i~sl~~ 1006 (1096)
T KOG1897|consen  929 GAENSGNLFTVRKDSDATTDEERQILEEVGKFHLGELVNKFRHGSLVMQLGD--SMIPLEPKVLFGTVNGSIGIIVSLPQ 1006 (1096)
T ss_pred             eecccccEEEEEecCCCCchhhhhcccceeeEEeccceeeeeecceEeeccc--cccCCCCcEEEEEccceEEEEEecCc
Confidence            9999999999999999999999999999999999999999999998722111  11234466999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhcCCCCCCCCccccccccCCCccCCCCCCceeehHHHHHHhcCCHHHHHHHHHHhCCC-----HHH
Q psy13880        167 KNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK-----HND  241 (256)
Q Consensus       167 ~~~~~L~~LQ~~l~~~~~~~~Gl~~~~~R~~~~~~~~~~~~~k~~IDGDLle~Fl~L~~~~q~~ia~~lg~s-----~~e  241 (256)
                      +.|.+|..||++|++.+|++||++|.+||+|+++.+.  .|++|||||||||+|++|++++|.+|++++..+     ++|
T Consensus      1007 d~~~fL~~Lq~~irk~i~s~gglsH~~yrsf~~e~~~--~P~~gfIDGDLiEsfl~l~~~~~~~i~~~~~~~~~~~s~~e 1084 (1096)
T KOG1897|consen 1007 DWYDFLEELQRRIRKVIKSVGGLSHMDYRSFEFEKRT--SPVKGFIDGDLIESFLDLSRSKMREIVRGLEHTESLASVQE 1084 (1096)
T ss_pred             chhHHHHHHHHHHHHhhcccCCcchhhHhhhhccccc--CCCcCcccchHHHhhhccCHHHHHHHHhhcccccccCCHHH
Confidence            9999999999999999999999999999999998864  799999999999999999999999999999876     999


Q ss_pred             HHHHHHHHhh
Q psy13880        242 ILDELYDIEA  251 (256)
Q Consensus       242 i~~~l~~i~~  251 (256)
                      |.|.+||+++
T Consensus      1085 l~k~vEel~r 1094 (1096)
T KOG1897|consen 1085 LLKIVEELTR 1094 (1096)
T ss_pred             HHHHHHHHHh
Confidence            9999999975

>KOG1898|consensus

Probab=100.00  E-value=5.7e-37  Score=301.71  Aligned_cols=210  Identities=21%  Similarity=0.321  Sum_probs=186.4

Q ss_pred             eEEEEeccCCCCeeEEEEEecCeEEEEEEeeCCCCceeeeeeecceEEEeeccccccCCCCCccceEEEEEEEcCCeeEE
Q psy13880          6 ELLTVSLGLHGNRPLLLVRTQHELLIYQAFRHPKGTLKLRFKKLKVLFVSDRSKRANEQPGLPRGVYACEFVIESSSMGF   85 (256)
Q Consensus         6 e~~~v~~g~~~~~~~l~~~~~~e~~iy~~~~~~~g~l~~r~~~~~~~~~~~~~~~~~~~d~~~~~vta~~fL~~~~~l~~   85 (256)
                      ..-|.++..++.|++  |.+.+|++.|..|+.++++|.+           .      ++|+.|||||++.++|++   ++
T Consensus       976 p~~Is~iqt~~~RI~--VgD~qeSV~~~~y~~~~n~l~~-----------f------adD~~pR~Vt~~~~lD~~---tv 1033 (1205)
T KOG1898|consen  976 PNRISSIQTYGARIV--VGDIQESVHFVRYRREDNQLIV-----------F------ADDPVPRHVTALELLDYD---TV 1033 (1205)
T ss_pred             ceEEEEEeecceEEE--EeeccceEEEEEEecCCCeEEE-----------E------eCCCccceeeEEEEecCC---ce
Confidence            356788999999998  6699999999999886666544           3      357899999999999999   89


Q ss_pred             EEEeCCCcEEEEeeCCCccCCCC------------------CCeeeeeeccccCcccceEeeeecCCCCCCCCCCCCCcc
Q psy13880         86 MISDKDKNVVLFMYQPEARESNG------------------GHRLIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARSRF  147 (256)
Q Consensus        86 l~aD~~gNl~vl~~~p~~~~s~~------------------g~kL~~~~~fhlG~~v~~~~~~~~~~~~~~~~~~~~~~~  147 (256)
                      ++||++||+++++.+|+.++..+                  -+|.....+||+|+.++++++....|.         .++
T Consensus      1034 agaDrfGNi~~vR~P~d~~e~~~edpt~~k~~~~~g~lN~~~~K~~~i~~f~v~Dvits~q~~~~i~~---------a~e 1104 (1205)
T KOG1898|consen 1034 AGADRFGNIAVVRIPPDVSEEASEDPTELKIAWEQGFLNDAPQKVQLISQFFVGDVITSLQKVSSIPG---------ARE 1104 (1205)
T ss_pred             eeccccCcEEEEECCCcchhhhccCCccccceecccccccccHhhhhhhhccccCeeeeceeeeeccC---------Ccc
Confidence            99999999999999987654321                  357888999999999999999887653         357


Q ss_pred             eEEEEeCCcceEEEEecCh-hhHHHHHHHHHHHHhcCCCCCCCCccccccccCCCccCCCCCCceeehHHHHHHhcCCHH
Q psy13880        148 LTWYASLDGALGFFLPLPE-KNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLG  226 (256)
Q Consensus       148 ~ll~~T~~GsIg~l~pl~~-~~~~~L~~LQ~~l~~~~~~~~Gl~~~~~R~~~~~~~~~~~~~k~~IDGDLle~Fl~L~~~  226 (256)
                      .++|+|+.|+||+++|+.. ++++|++.+|++|+++.|+++|+||.+||+|++       |+|.+|||||||+|+.|+..
T Consensus      1105 ~~iy~tl~GtiG~f~p~~s~~d~~Ff~~~e~~~r~e~ppl~GrDH~~yRsyy~-------Pvk~VIDGDlceqF~~L~~~ 1177 (1205)
T KOG1898|consen 1105 SLIYTTLLGTIGVFAPFLSREDVDFFQHLEMHMRKEYPPLLGRDHLEYRSYYA-------PVKKVIDGDLCEQFLRLEEN 1177 (1205)
T ss_pred             eeeeeeccccceEEeecccccchHHHHHHHHhccccCCcccCcchhhhhhhcc-------chhhcccHHHHHHHhhCCHH
Confidence            8999999999999999986 699999999999999999999999999999984       89999999999999999999


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHhhhc
Q psy13880        227 ERLEICKKIGSKHNDILDELYDIEALS  253 (256)
Q Consensus       227 ~q~~ia~~lg~s~~ei~~~l~~i~~~~  253 (256)
                      +|++||++++++++||.++|+++|+..
T Consensus      1178 ~Qe~va~el~~ti~eI~kkledir~~~ 1204 (1205)
T KOG1898|consen 1178 QQEEVAEELDRTIEEISKKLEDIRTRY 1204 (1205)
T ss_pred             HHHHHHhcccCCHHHHHHHHHHHHhhc
Confidence            999999999999999999999999864

>PF03178 CPSF_A: CPSF A subunit region; InterPro: IPR004871 This family includes a region that lies towards the C terminus of the cleavage and polyadenylation specificity factor (CPSF) A (160 kDa) subunit

Probab=100.00  E-value=6.6e-33  Score=252.20  Aligned_cols=154  Identities=38%  Similarity=0.648  Sum_probs=119.4

Q ss_pred             cCCCCCccceEEEEEEEcCCeeEEEEEeCCCcEEEEeeCCCccCCCCCC-eeeeeeccccCcccceEeeeecCCCCCCCC
Q psy13880         62 NEQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGH-RLIKKTDFHLGQHVNTFFKIRCKPSPISDA  140 (256)
Q Consensus        62 ~~~d~~~~~vta~~fL~~~~~l~~l~aD~~gNl~vl~~~p~~~~s~~g~-kL~~~~~fhlG~~v~~~~~~~~~~~~~~~~  140 (256)
                      -++|+.|+|+++++||.+++  +++++|.+||+++++++|+++++.+++ +|+..++||+|+.||+++++++.|....  
T Consensus       166 va~d~~~~~v~~~~~l~d~~--~~i~~D~~gnl~~l~~~~~~~~~~~~~~~L~~~~~f~lg~~v~~~~~~~l~~~~~~--  241 (321)
T PF03178_consen  166 VARDYQPRWVTAAEFLVDED--TIIVGDKDGNLFVLRYNPEIPNSRDGDPKLERISSFHLGDIVNSFRRGSLIPRSGS--  241 (321)
T ss_dssp             EEEESS-BEEEEEEEE-SSS--EEEEEETTSEEEEEEE-SS-SSTTTTTTBEEEEEEEE-SS-EEEEEE--SS--SSS--
T ss_pred             EEecCCCccEEEEEEecCCc--EEEEEcCCCeEEEEEECCCCcccccccccceeEEEEECCCccceEEEEEeeecCCC--
Confidence            34678899999999996554  999999999999999999999999999 9999999999999999999987753111  


Q ss_pred             CCCCCcceEEEEeCCcceEEEEe-cChhhHHHHHHHHHHHHhcCCCCCCCCccccccccCCCccCCCCCCceeehHHHHH
Q psy13880        141 PGARSRFLTWYASLDGALGFFLP-LPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWK  219 (256)
Q Consensus       141 ~~~~~~~~ll~~T~~GsIg~l~p-l~~~~~~~L~~LQ~~l~~~~~~~~Gl~~~~~R~~~~~~~~~~~~~k~~IDGDLle~  219 (256)
                      ......+.++|+|++|+||+|+| ++++.|++|+.||++|.+.++++|||||++||+++++ +.  ..++|||||||||+
T Consensus       242 ~~~~~~~~i~~~T~~G~Ig~l~p~l~~~~~~~L~~lQ~~l~~~~~~~~gl~~~~~R~~~~~-~~--~~~~~~iDgdll~~  318 (321)
T PF03178_consen  242 SESPNRPQILYGTVDGSIGVLIPFLSEEEYRFLQALQNNLRKHIPSLGGLNPRSFRSYKNP-RM--KRSKGFIDGDLLEQ  318 (321)
T ss_dssp             S-TTEEEEEEEEETTS-EEEEEE-E-HHHHHHHHHHHHHHHHHS--TTS--HHHHTSEEES-EE--E--BSEEEHHHHHG
T ss_pred             CcccccceEEEEecCCEEEEEEecCCHHHHHHHHHHHHHHHhhCCCCccCChHHhccccCc-cc--cCCCccCcHHHHHH
Confidence            11123578999999999999999 8999999999999999999999999999999999976 21  23899999999999


Q ss_pred             Hhc
Q psy13880        220 FLQ  222 (256)
Q Consensus       220 Fl~  222 (256)
                      |++
T Consensus       319 fl~  321 (321)
T PF03178_consen  319 FLE  321 (321)
T ss_dssp             GGG
T ss_pred             hhC
Confidence            985

CPSF is involved in mRNA polyadenylation and binds the AAUAAA conserved sequence in pre-mRNA. CPSF has also been found to be necessary for splicing of single-intron pre-mRNAs []. The function of the aligned region is unknown but may be involved in RNA/DNA binding.; GO: 0003676 nucleic acid binding, 0005634 nucleus; PDB: 2B5M_A 4A0K_C 4A0B_C 3I7L_A 3I8E_A 4A09_A 4A0A_A 3EI4_C 2B5L_A 3I7O_A ....

>COG5161 SFT1 Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]

Probab=99.95  E-value=3.6e-28  Score=235.81  Aligned_cols=233  Identities=21%  Similarity=0.325  Sum_probs=186.1

Q ss_pred             CCCeeEEEEEecCeEEEEEEeeCCCCceeeeeeecceEEEee-ccccc-----cCCCC---------CccceEEEEEEEc
Q psy13880         15 HGNRPLLLVRTQHELLIYQAFRHPKGTLKLRFKKLKVLFVSD-RSKRA-----NEQPG---------LPRGVYACEFVIE   79 (256)
Q Consensus        15 ~~~~~~l~~~~~~e~~iy~~~~~~~g~l~~r~~~~~~~~~~~-~~~~~-----~~~d~---------~~~~vta~~fL~~   79 (256)
                      ||++.++-...++..+|=..|.+ =+.+....+-++|.++.. ..++.     ++.||         ..+.+++++||+.
T Consensus      1068 qgqKV~Vr~i~~~~~iipV~F~D-l~~ft~s~k~~~Nlll~gD~~qg~~F~gF~~ePyRm~l~s~s~~~~n~~s~efLv~ 1146 (1319)
T COG5161        1068 QGQKVMVRKIDRSSGIIPVGFYD-LHIFTSSIKVVKNLLLAGDIYQGLSFFGFQSEPYRMHLISSSEPLRNATSTEFLVT 1146 (1319)
T ss_pred             cCcEEEEEEecccCCcceeEEEe-eeeeeehhhhhhheeehhhhhcCcEEEEecCCcEEEEEecCCchhhcchhhHhhcc
Confidence            66777755555666777777755 444444455455443332 22222     44443         3467999999999


Q ss_pred             CCeeEEEEEeCCCcEEEEeeCCCccCCCCCCeeeeeeccccCcccceEeeeecC-CCCCCCCCCCCCcceEEEEeCCcce
Q psy13880         80 SSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKIRCK-PSPISDAPGARSRFLTWYASLDGAL  158 (256)
Q Consensus        80 ~~~l~~l~aD~~gNl~vl~~~p~~~~s~~g~kL~~~~~fhlG~~v~~~~~~~~~-~~~~~~~~~~~~~~~ll~~T~~GsI  158 (256)
                      +++|+|+++|++||++.+.|+|++|+|.+|+||+++++||+|...++|..++.. .++    +...+.++++++-++|++
T Consensus      1147 G~~lyf~~~Da~gnih~l~Y~P~np~S~sG~RLV~rssFtlhs~~~~m~llPrn~efG----~~~~~~f~~v~~~sdG~l 1222 (1319)
T COG5161        1147 GNELYFLCCDAKGNIHGLTYSPNNPISMSGARLVKRSSFTLHSAEIKMNLLPRNSEFG----AGFKKNFIMVYSRSDGML 1222 (1319)
T ss_pred             CCeeEEEEEcCCCCEEEEecCCCCccccCcceeEeeccccccchhhhhhhccchhhhC----CCCCCceeEEEEccCCcE
Confidence            999999999999999999999999999999999999999999999999877533 222    223456889999999999


Q ss_pred             EEEEecChhhHHHHHHHHHHHHhcCCCCCCCCccccccccCCCccCCCCCCceeehHHHHHHhcCCHHHHHHHHHHhCCC
Q psy13880        159 GFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK  238 (256)
Q Consensus       159 g~l~pl~~~~~~~L~~LQ~~l~~~~~~~~Gl~~~~~R~~~~~~~~~~~~~k~~IDGDLle~Fl~L~~~~q~~ia~~lg~s  238 (256)
                      -.++|++++.|+||..+|+++...+.++|||||++||-.. +...+..+.|.+||+.+|..|-.|+.+.|+++|.++|+-
T Consensus      1223 ~~vvpisd~~YrrL~~IQ~~i~~r~~~vgGLNpr~yRL~~-d~~~~~~s~r~~ld~~ii~~F~y~~~~~r~sva~kaGr~ 1301 (1319)
T COG5161        1223 IHVVPISDAHYRRLLGIQTAIMARLKSVGGLNPRDYRLNS-DIHLHSLSLRSPLDLHIINLFSYFDMSTRESVASKAGRI 1301 (1319)
T ss_pred             EEEeccCHHHHHHHHHHHHHHHHHHHhhcCCChhhhhhcc-CHHHhcCCcccchhhhhhhhhhhcchhhhhHHHhhcCCc
Confidence            9999999999999999999999999999999999999643 322345788999999999999999999999999999997


Q ss_pred             HHHHHHHHHHHhhhc
Q psy13880        239 HNDILDELYDIEALS  253 (256)
Q Consensus       239 ~~ei~~~l~~i~~~~  253 (256)
                      ..-++.||.++..+.
T Consensus      1302 ~~~e~~D~i~~~~~l 1316 (1319)
T COG5161        1302 DRKEISDMIASLNLL 1316 (1319)
T ss_pred             hHHHHHHHHHHHHHH
Confidence            765555777776553

>PF14783 BBS2_Mid: Ciliary BBSome complex subunit 2, middle region

Probab=88.74  E-value=4.1  Score=31.72  Aligned_cols=65  Identities=14%  Similarity=0.147  Sum_probs=47.8

Q ss_pred             eEEEEEEEcCC--eeEEEEEeCCCcEEEEeeCCCccCCCCCCeeeeeeccccCcccceEeeeecCCCCCCCCCCCCCcce
Q psy13880         71 VYACEFVIESS--SMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARSRFL  148 (256)
Q Consensus        71 vta~~fL~~~~--~l~~l~aD~~gNl~vl~~~p~~~~s~~g~kL~~~~~fhlG~~v~~~~~~~~~~~~~~~~~~~~~~~~  148 (256)
                      |+|..+.+.++  +..++++-.+.-|++|+-+            +...++...+.|+++..+.              ...
T Consensus         2 V~al~~~d~d~dg~~eLlvGs~D~~IRvf~~~------------e~~~Ei~e~~~v~~L~~~~--------------~~~   55 (111)
T PF14783_consen    2 VTALCLFDFDGDGENELLVGSDDFEIRVFKGD------------EIVAEITETDKVTSLCSLG--------------GGR   55 (111)
T ss_pred             eeEEEEEecCCCCcceEEEecCCcEEEEEeCC------------cEEEEEecccceEEEEEcC--------------CCE
Confidence            56666665433  3688999999999999853            3456677777778776432              145


Q ss_pred             EEEEeCCcceEEE
Q psy13880        149 TWYASLDGALGFF  161 (256)
Q Consensus       149 ll~~T~~GsIg~l  161 (256)
                      ..|+..+|+||+.
T Consensus        56 F~Y~l~NGTVGvY   68 (111)
T PF14783_consen   56 FAYALANGTVGVY   68 (111)
T ss_pred             EEEEecCCEEEEE
Confidence            9999999999997

>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif

Probab=85.29  E-value=1.7  Score=26.15  Aligned_cols=25  Identities=20%  Similarity=0.318  Sum_probs=20.6

Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHhh
Q psy13880        227 ERLEICKKIGSKHNDILDELYDIEA  251 (256)
Q Consensus       227 ~q~~ia~~lg~s~~ei~~~l~~i~~  251 (256)
                      .+++||+.+|.++|.+.+.|..++.
T Consensus         4 tr~diA~~lG~t~ETVSR~l~~l~~   28 (32)
T PF00325_consen    4 TRQDIADYLGLTRETVSRILKKLER   28 (32)
T ss_dssp             -HHHHHHHHTS-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            3689999999999999999888865

These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....

>KOG1896|consensus

Probab=81.34  E-value=0.65  Score=49.05  Aligned_cols=50  Identities=36%  Similarity=0.558  Sum_probs=39.3

Q ss_pred             eeEEEEeccCC---CCeeEEEEEecCeEEEEEEee-CCCCceeeeeeecceEEE
Q psy13880          5 QELLTVSLGLH---GNRPLLLVRTQHELLIYQAFR-HPKGTLKLRFKKLKVLFV   54 (256)
Q Consensus         5 ~e~~~v~~g~~---~~~~~l~~~~~~e~~iy~~~~-~~~g~l~~r~~~~~~~~~   54 (256)
                      +++.+..||+.   +.+|++.+..++|+++|.||+ +..|...++|+++|+.+.
T Consensus       781 ~q~~~~~L~~e~~~~e~~L~lv~~~~eil~Ykaf~~~~~~~~~~~f~kvp~~~~  834 (1366)
T KOG1896|consen  781 KQLFVNPLGSEIVFKEPHLFLVVSDNEILIYKAFPQLSQGNLKVFFKKVPHNLN  834 (1366)
T ss_pred             HHhhccccchhhhccCCceEEEEeCceEEEEeeccccCccchhhhhhhCCHhhc
Confidence            45566667765   677777788889999999995 568999999999997333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	256
4a08_A	1159	Structure Of Hsddb1-Drddb2 Bound To A 13 Bp Cpd-Dup		1e-04
4a11_A	1159	Structure Of The Hsddb1-Hscsa Complex Length = 1159		1e-04
4a0b_A	1159	Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Dup		1e-04
2b5l_A	1140	Crystal Structure Of Ddb1 In Complex With Simian Vi		1e-04
4a0a_A	1159	Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Dup		1e-04
3ei1_A	1158	Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4 Pho		1e-04
3e0c_A	1140	Crystal Structure Of Dna Damage-Binding Protein 1(D		1e-04
4e54_A	1150	Damaged Dna Induced Uv-Damaged Dna-Binding Protein		1e-04
4a0l_A	1144	Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp		1e-04
3ei4_A	1158	Structure Of The Hsddb1-Hsddb2 Complex Length = 115		1e-04
3i7h_A	1143	Crystal Structure Of Ddb1 In Complex With The H-Box		1e-04

>pdb|4A08|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 13 Bp Cpd-Duplex ( Purine At D-1 Position) At 3.0 A Resolution (Cpd 1) Length = 1159

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/165 (24%), Positives = 69/165 (41%), Gaps = 17/165 (10%)
Query: 96   LFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARS---RFLTW 150
            LF+ Q ++  +    R  L +   FHLG+ VN F    C  S +    G  S   +    
Sbjct: 993  LFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF----CHGSLVMQNLGETSTPTQGSVL 1048
Query: 151  YASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRG 210
            + +++G +G    L E  Y  LL +QN +       G +    +R++  +      P+ G
Sbjct: 1049 FGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTE--RKTEPATG 1106
Query: 211  IIDGSLVWKFLQLSLGERLEICKKI------GSKHNDILDELYDI 249
             IDG L+  FL +S  +  E+   +      G K     D+L  +
Sbjct: 1107 FIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATADDLIKV 1151

>pdb|4A11|A Chain A, Structure Of The Hsddb1-Hscsa Complex Length = 1159

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/165 (24%), Positives = 69/165 (41%), Gaps = 17/165 (10%)
Query: 96   LFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARS---RFLTW 150
            LF+ Q ++  +    R  L +   FHLG+ VN F    C  S +    G  S   +    
Sbjct: 993  LFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF----CHGSLVMQNLGETSTPTQGSVL 1048
Query: 151  YASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRG 210
            + +++G +G    L E  Y  LL +QN +       G +    +R++  +      P+ G
Sbjct: 1049 FGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTE--RKTEPATG 1106
Query: 211  IIDGSLVWKFLQLSLGERLEICKKI------GSKHNDILDELYDI 249
             IDG L+  FL +S  +  E+   +      G K     D+L  +
Sbjct: 1107 FIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATADDLIKV 1151

>pdb|4A0B|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex ( Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4) Length = 1159

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/165 (24%), Positives = 69/165 (41%), Gaps = 17/165 (10%)
Query: 96   LFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARS---RFLTW 150
            LF+ Q ++  +    R  L +   FHLG+ VN F    C  S +    G  S   +    
Sbjct: 993  LFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF----CHGSLVMQNLGETSTPTQGSVL 1048
Query: 151  YASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRG 210
            + +++G +G    L E  Y  LL +QN +       G +    +R++  +      P+ G
Sbjct: 1049 FGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTE--RKTEPATG 1106
Query: 211  IIDGSLVWKFLQLSLGERLEICKKI------GSKHNDILDELYDI 249
             IDG L+  FL +S  +  E+   +      G K     D+L  +
Sbjct: 1107 FIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATADDLIKV 1151

>pdb|2B5L|A Chain A, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V Protein Length = 1140

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/165 (24%), Positives = 69/165 (41%), Gaps = 17/165 (10%)
Query: 96   LFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARS---RFLTW 150
            LF+ Q ++  +    R  L +   FHLG+ VN F    C  S +    G  S   +    
Sbjct: 974  LFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF----CHGSLVMQNLGETSTPTQGSVL 1029
Query: 151  YASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRG 210
            + +++G +G    L E  Y  LL +QN +       G +    +R++  +      P+ G
Sbjct: 1030 FGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTE--RKTEPATG 1087
Query: 211  IIDGSLVWKFLQLSLGERLEICKKI------GSKHNDILDELYDI 249
             IDG L+  FL +S  +  E+   +      G K     D+L  +
Sbjct: 1088 FIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATADDLIKV 1132

>pdb|4A0A|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex ( Pyrimidine At D-1 Position) At 3.6 A Resolution (Cpd 3) Length = 1159

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/165 (24%), Positives = 69/165 (41%), Gaps = 17/165 (10%)
Query: 96   LFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARS---RFLTW 150
            LF+ Q ++  +    R  L +   FHLG+ VN F    C  S +    G  S   +    
Sbjct: 993  LFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF----CHGSLVMQNLGETSTPTQGSVL 1048
Query: 151  YASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRG 210
            + +++G +G    L E  Y  LL +QN +       G +    +R++  +      P+ G
Sbjct: 1049 FGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTE--RKTEPATG 1106
Query: 211  IIDGSLVWKFLQLSLGERLEICKKI------GSKHNDILDELYDI 249
             IDG L+  FL +S  +  E+   +      G K     D+L  +
Sbjct: 1107 FIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATADDLIKV 1151

>pdb|3EI1|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4 Photoproduct Containing Dna-Duplex Length = 1158

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/165 (24%), Positives = 69/165 (41%), Gaps = 17/165 (10%)
Query: 96   LFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARS---RFLTW 150
            LF+ Q ++  +    R  L +   FHLG+ VN F    C  S +    G  S   +    
Sbjct: 992  LFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF----CHGSLVMQNLGETSTPTQGSVL 1047
Query: 151  YASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRG 210
            + +++G +G    L E  Y  LL +QN +       G +    +R++  +      P+ G
Sbjct: 1048 FGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTE--RKTEPATG 1105
Query: 211  IIDGSLVWKFLQLSLGERLEICKKI------GSKHNDILDELYDI 249
             IDG L+  FL +S  +  E+   +      G K     D+L  +
Sbjct: 1106 FIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATADDLIKV 1150

>pdb|3E0C|A Chain A, Crystal Structure Of Dna Damage-Binding Protein 1(Ddb1) Length = 1140

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/165 (24%), Positives = 69/165 (41%), Gaps = 17/165 (10%)
Query: 96   LFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARS---RFLTW 150
            LF+ Q ++  +    R  L +   FHLG+ VN F    C  S +    G  S   +    
Sbjct: 974  LFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF----CHGSLVMQNLGETSTPTQGSVL 1029
Query: 151  YASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRG 210
            + +++G +G    L E  Y  LL +QN +       G +    +R++  +      P+ G
Sbjct: 1030 FGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTE--RKTEPATG 1087
Query: 211  IIDGSLVWKFLQLSLGERLEICKKI------GSKHNDILDELYDI 249
             IDG L+  FL +S  +  E+   +      G K     D+L  +
Sbjct: 1088 FIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATADDLIKV 1132

>pdb|4E54|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein (Uv-Ddb) Dimerization And Its Roles In Chromatinized Dna Repair Length = 1150

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/165 (24%), Positives = 69/165 (41%), Gaps = 17/165 (10%)
Query: 96   LFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARS---RFLTW 150
            LF+ Q ++  +    R  L +   FHLG+ VN F    C  S +    G  S   +    
Sbjct: 984  LFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF----CHGSLVMQNLGETSTPTQGSVL 1039
Query: 151  YASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRG 210
            + +++G +G    L E  Y  LL +QN +       G +    +R++  +      P+ G
Sbjct: 1040 FGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTE--RKTEPATG 1097
Query: 211  IIDGSLVWKFLQLSLGERLEICKKI------GSKHNDILDELYDI 249
             IDG L+  FL +S  +  E+   +      G K     D+L  +
Sbjct: 1098 FIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATADDLIKV 1142

>pdb|4A0L|A Chain A, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic Site Containing Dna-Duplex Length = 1144

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/165 (24%), Positives = 69/165 (41%), Gaps = 17/165 (10%)
Query: 96   LFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARS---RFLTW 150
            LF+ Q ++  +    R  L +   FHLG+ VN F    C  S +    G  S   +    
Sbjct: 978  LFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF----CHGSLVMQNLGETSTPTQGSVL 1033
Query: 151  YASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRG 210
            + +++G +G    L E  Y  LL +QN +       G +    +R++  +      P+ G
Sbjct: 1034 FGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTE--RKTEPATG 1091
Query: 211  IIDGSLVWKFLQLSLGERLEICKKI------GSKHNDILDELYDI 249
             IDG L+  FL +S  +  E+   +      G K     D+L  +
Sbjct: 1092 FIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATADDLIKV 1136

>pdb|3EI4|A Chain A, Structure Of The Hsddb1-Hsddb2 Complex Length = 1158

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/165 (24%), Positives = 69/165 (41%), Gaps = 17/165 (10%)
Query: 96   LFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARS---RFLTW 150
            LF+ Q ++  +    R  L +   FHLG+ VN F    C  S +    G  S   +    
Sbjct: 992  LFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF----CHGSLVMQNLGETSTPTQGSVL 1047
Query: 151  YASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRG 210
            + +++G +G    L E  Y  LL +QN +       G +    +R++  +      P+ G
Sbjct: 1048 FGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTE--RKTEPATG 1105
Query: 211  IIDGSLVWKFLQLSLGERLEICKKI------GSKHNDILDELYDI 249
             IDG L+  FL +S  +  E+   +      G K     D+L  +
Sbjct: 1106 FIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATADDLIKV 1150

>pdb|3I7H|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of Hbx Length = 1143

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/165 (24%), Positives = 69/165 (41%), Gaps = 17/165 (10%)
Query: 96   LFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKIRCKPSPISDAPGARS---RFLTW 150
            LF+ Q ++  +    R  L +   FHLG+ VN F    C  S +    G  S   +    
Sbjct: 977  LFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF----CHGSLVMQNLGETSTPTQGSVL 1032
Query: 151  YASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRG 210
            + +++G +G    L E  Y  LL +QN +       G +    +R++  +      P+ G
Sbjct: 1033 FGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTE--RKTEPATG 1090
Query: 211  IIDGSLVWKFLQLSLGERLEICKKI------GSKHNDILDELYDI 249
             IDG L+  FL +S  +  E+   +      G K     D+L  +
Sbjct: 1091 FIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATADDLIKV 1135

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	256
3ei3_A	1158	DNA damage-binding protein 1; UV-damage, DDB, nucl	2e-36

>3ei3_A DNA damage-binding protein 1; UV-damage, DDB, nucleotide excision repair, xeroderma pigmentosum, cytoplasm, DNA repair; HET: DNA PG4; 2.30A {Homo sapiens} PDB: 3ei1_A* 3ei2_A* 3ei4_A* 4a0l_A* 3e0c_A* 3i7k_A* 3i7h_A* 3i7l_A* 3i7n_A* 3i7o_A* 3i7p_A* 3i89_A* 3i8c_A* 3i8e_A* 2b5l_A 2b5m_A 2hye_A* 4a11_A* 4a0k_C* 4a0a_A* ... Length = 1158

 Score =  135 bits (341), Expect = 2e-36
 Identities = 36/185 (19%), Positives = 69/185 (37%), Gaps = 6/185 (3%)

Query: 68   PRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTF 127
            P  + A E + + + +G    +   N+ +      A        L +   FHLG+ VN F
Sbjct: 969  PNWMSAVEILDDDNFLGA---ENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF 1025

Query: 128  FKIRCKPSPISDAPGARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 187
                     + +     ++    + +++G +G    L E  Y  LL +QN +       G
Sbjct: 1026 CHGSLVMQNLGETSTP-TQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1084

Query: 188  GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSKHNDILDELY 247
             +    +R++         P+ G IDG L+  FL +S  +  E+   +       +    
Sbjct: 1085 KIEHSFWRSF--HTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1142

Query: 248  DIEAL 252
              + L
Sbjct: 1143 TADDL 1147

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	256
3ei3_A	1158	DNA damage-binding protein 1; UV-damage, DDB, nucl	100.0

>3ei3_A DNA damage-binding protein 1; UV-damage, DDB, nucleotide excision repair, xeroderma pigmentosum, cytoplasm, DNA repair; HET: DNA PG4; 2.30A {Homo sapiens} PDB: 3ei1_A* 3ei2_A* 3ei4_A* 4a0l_A* 3e0c_A* 3i7k_A* 3i7h_A* 3i7l_A* 3i7n_A* 3i7o_A* 3i7p_A* 3i89_A* 3i8c_A* 3i8e_A* 2b5l_A 2b5m_A 2hye_A* 4a11_A* 4a0k_C* 4a0a_A* ...

Probab=100.00  E-value=7.1e-42  Score=354.53  Aligned_cols=183  Identities=20%  Similarity=0.331  Sum_probs=163.8

Q ss_pred             CCCCCccceEEEEEEEcCCeeEEEEEeCCCcEEEEeeCCCccCCCCCCeeeeeeccccCcccceEeeeecCCCCCCCCCC
Q psy13880         63 EQPGLPRGVYACEFVIESSSMGFMISDKDKNVVLFMYQPEARESNGGHRLIKKTDFHLGQHVNTFFKIRCKPSPISDAPG  142 (256)
Q Consensus        63 ~~d~~~~~vta~~fL~~~~~l~~l~aD~~gNl~vl~~~p~~~~s~~g~kL~~~~~fhlG~~v~~~~~~~~~~~~~~~~~~  142 (256)
                      +||+.|+||||++||+++   +++++|++|||++++|+|+++++++|+||+++++||+|+.||+|+++++.+....+ ..
T Consensus       964 a~D~~~~~vta~~~ld~~---t~l~aD~~gNl~vl~~~~~~~~~~~~~~L~~~~~fhlG~~vt~~~~~sl~~~~~~~-~~ 1039 (1158)
T 3ei3_A          964 ARDFNPNWMSAVEILDDD---NFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVFCHGSLVMQNLGE-TS 1039 (1158)
T ss_dssp             EECCSCBCEEEEEEEETT---EEEEEETTSEEEEEEECTTCCSTTGGGBEEEEEEEECSSCEEEEEECCSCCC-------
T ss_pred             EeecccccEEEEEEEccC---cEEEEcCCCcEEEEecCCCCCCccccceeeeEEEEeCCCcEeeEEeeeeecCCCcc-cc
Confidence            357899999999999998   89999999999999999999999999999999999999999999998877432111 11


Q ss_pred             CCCcceEEEEeCCcceEEEEecChhhHHHHHHHHHHHHhcCCCCCCCCccccccccCCCccCCCCCCceeehHHHHHHhc
Q psy13880        143 ARSRFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTGGLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQ  222 (256)
Q Consensus       143 ~~~~~~ll~~T~~GsIg~l~pl~~~~~~~L~~LQ~~l~~~~~~~~Gl~~~~~R~~~~~~~~~~~~~k~~IDGDLle~Fl~  222 (256)
                      ...++.++|||++|+||+|+|++++.|+||+.||++|++.++++||+||++||+|+++.+.  .|+||||||||||+|++
T Consensus      1040 ~~~~~~il~~T~~GsIg~l~pl~~~~~~~L~~Lq~~l~~~~~~~~gl~~~~~Rs~~~~~~~--~~~~~~iDGdLle~fl~ 1117 (1158)
T 3ei3_A         1040 TPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKT--EPATGFIDGDLIESFLD 1117 (1158)
T ss_dssp             -CEEEEEEEEETTSCEEEEEEECHHHHHHHHHHHHHHHHHSCCTTSCCHHHHHSEECSSCE--ECCBSEEEHHHHHGGGG
T ss_pred             ccccceEEEEecCCEEEEEEEcCHHHHHHHHHHHHHHHhhCCCCcCCCHHHhhCeeccccc--CCCCccCcHHHHHHHHc
Confidence            2356889999999999999999999999999999999999999999999999999987543  58899999999999999


Q ss_pred             CCHHHHHHHHHHhC----------CCHHHHHHHHHHHhh
Q psy13880        223 LSLGERLEICKKIG----------SKHNDILDELYDIEA  251 (256)
Q Consensus       223 L~~~~q~~ia~~lg----------~s~~ei~~~l~~i~~  251 (256)
                      |+.++|++||+++|          +|++||.|+|+||++
T Consensus      1118 L~~~~q~~ia~~l~~~~~~~~~~~~t~~ei~k~~e~l~r 1156 (1158)
T 3ei3_A         1118 ISRPKMQEVVANLQYDDGSGMKREATADDLIKVVEELTR 1156 (1158)
T ss_dssp             SCHHHHHHHCCCC------------CCHHHHHHHHHHGG
T ss_pred             CCHHHHHHHHHhhCccccccccCCCCHHHHHHHHHHHhh
Confidence            99999999999997          599999999999986

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00