Query 047732
Match_columns 128
No_of_seqs 102 out of 184
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 02:35:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047732.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047732hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09696 Ctf8: Ctf8; InterPro 100.0 2.6E-39 5.7E-44 236.4 13.3 103 14-116 6-122 (122)
2 KOG4487 Uncharacterized conser 100.0 4.9E-32 1.1E-36 192.4 8.2 110 1-117 1-110 (110)
3 PF08105 Antimicrobial10: Metc 65.3 3.7 8E-05 26.1 1.1 18 106-123 31-48 (52)
4 KOG4011 Transcription initiati 56.2 12 0.00025 32.0 2.9 32 44-75 53-84 (330)
5 PF04658 TAFII55_N: TAFII55 pr 46.6 66 0.0014 24.6 5.5 34 44-78 35-68 (162)
6 PF04004 Leo1: Leo1-like prote 44.4 91 0.002 23.7 6.0 48 50-110 74-125 (171)
7 PF10419 TFIIIC_sub6: TFIIIC s 43.0 32 0.00069 19.9 2.6 19 50-68 8-26 (35)
8 PF15363 DUF4596: Domain of un 35.5 33 0.00072 21.3 1.9 10 14-23 34-43 (46)
9 cd08047 TAF7 TATA Binding Prot 29.2 99 0.0021 23.3 4.0 36 45-80 33-68 (162)
10 PRK07451 translation initiatio 27.9 29 0.00064 25.3 0.9 19 7-27 78-96 (115)
11 KOG3497 DNA-directed RNA polym 27.3 32 0.0007 22.9 0.9 7 1-7 1-7 (69)
12 COG0023 SUI1 Translation initi 25.3 40 0.00086 24.3 1.2 20 6-27 65-84 (104)
13 cd04479 RPA3 RPA3: A subfamily 25.2 2.2E+02 0.0049 19.5 5.0 50 56-105 13-66 (101)
14 PRK09019 translation initiatio 25.2 34 0.00073 24.7 0.8 19 6-26 70-88 (108)
15 smart00659 RPOLCX RNA polymera 23.5 34 0.00075 20.6 0.5 14 103-116 25-38 (44)
16 PF05132 RNA_pol_Rpc4: RNA pol 23.3 1.2E+02 0.0026 21.8 3.4 60 36-108 64-126 (131)
17 COG1996 RPC10 DNA-directed RNA 22.6 40 0.00086 21.2 0.7 13 103-115 30-42 (49)
18 PLN00032 DNA-directed RNA poly 21.5 33 0.00072 23.2 0.2 7 1-7 1-7 (71)
19 PRK09697 protein secretion pro 21.1 54 0.0012 24.4 1.2 21 106-126 79-99 (139)
20 PF03255 ACCA: Acetyl co-enzym 20.9 1.5E+02 0.0032 22.6 3.5 35 19-61 80-114 (145)
21 PF11047 SopD: Salmonella oute 20.9 22 0.00047 30.2 -1.0 48 14-67 195-242 (319)
22 PRK15380 pathogenicity island 20.5 11 0.00023 31.7 -2.9 48 14-67 195-242 (319)
No 1
>PF09696 Ctf8: Ctf8; InterPro: IPR018607 Ctf8 (chromosome transmissions fidelity 8) is a component of the Ctf18 RFC-like complex which is a DNA clamp loader involved in sister chromatid cohesion.
Probab=100.00 E-value=2.6e-39 Score=236.42 Aligned_cols=103 Identities=38% Similarity=0.563 Sum_probs=89.3
Q ss_pred CCceEEEEeeeeeecCCC------------ccccccceeeeeeecc-CCCCcEEEEEc-eEEEEEeEeccCCCeEEEEEe
Q 047732 14 CREWAIIELQGFVEVQPS------------FQDRLQNLVIGELCRP-SSQESYTFTVG-YHELTGSKVPLKKPLLVLKKV 79 (128)
Q Consensus 14 ~~e~~llElQG~Le~~~~------------~~~~~~~~~iG~L~~~-~~~~~~~L~IG-~h~L~GkvvkL~kPLaVL~k~ 79 (128)
+.|||||||||+||.+.. .+..++++.||+|+|+ ..+++|+|+|| ||+|+|||++|+||||||||+
T Consensus 6 p~~~~llELQG~l~~~~~~~~~~~~~~~~~~~~~~~~~~iG~L~~d~~~~~~~~L~IG~~q~L~Gkv~kL~kPLaVLrk~ 85 (122)
T PF09696_consen 6 PSEWALLELQGTLELPDEDVDEDETDEDSDEDEGLDGVPIGRLHFDSKWMKRVTLYIGKHQRLEGKVVKLKKPLAVLRKR 85 (122)
T ss_pred CCCeEEEEEeeEEECCCccccccccccccccCCccCCcEEEEEEecCCCCCeEEEEECCCEEEEEEEeccCCCEEEEEEc
Confidence 679999999999999972 1257999999999983 34678999999 999999999999999999999
Q ss_pred ecCCCCcccCCCCCcceEEEEEeeeeeeecCCCCccc
Q 047732 80 KCMDVDQSCEGSSAGTDLEVVGIIRHRILFNTRPQAL 116 (128)
Q Consensus 80 ~~~~~~~~~~~~~~~~e~~vv~IIr~KiiFk~RP~PI 116 (128)
..++.++++..++..++|+|+|||||||+||+||+||
T Consensus 86 ~~~~~~~~~~~~~~~~e~evv~II~~KiiFk~RP~PI 122 (122)
T PF09696_consen 86 KSNDDSSDDSEEESSTEYEVVDIIRYKIIFKTRPKPI 122 (122)
T ss_pred ccCcccccccCCCCCeEEEEEEeeeeeeEccCCCCCC
Confidence 8754444445566789999999999999999999997
No 2
>KOG4487 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.97 E-value=4.9e-32 Score=192.35 Aligned_cols=110 Identities=27% Similarity=0.403 Sum_probs=98.4
Q ss_pred CeEEEEcCCCCCCCCceEEEEeeeeeecCCCccccccceeeeeeeccCCCCcEEEEEceEEEEEeEeccCCCeEEEEEee
Q 047732 1 MQIRIKCGCGAESCREWAIIELQGFVEVQPSFQDRLQNLVIGELCRPSSQESYTFTVGYHELTGSKVPLKKPLLVLKKVK 80 (128)
Q Consensus 1 M~i~i~~~~~~~~~~e~~llElQG~Le~~~~~~~~~~~~~iG~L~~~~~~~~~~L~IG~h~L~GkvvkL~kPLaVL~k~~ 80 (128)
|-|.++|.|+...|.||++|||||.+|.++++.++.++..+|++++.+ ...+++.+|+|.|+|++.|+++||+|++|.+
T Consensus 1 ~~~~~~~~~~~~~~~~~m~~ElqG~~e~q~~f~gs~ds~~~Gr~c~~D-~~q~~~~~G~~~l~G~v~k~~rpLlvv~Kld 79 (110)
T KOG4487|consen 1 LTQSREKQTTVITPLGMMMLELQGELELQKDFLGSRDSPNEGRFCEQD-GEQTLIRFGSLQLDGEVGKKQRPLLVVTKLD 79 (110)
T ss_pred CceeeecccccccchHhhhhhhccccccchhhcccccCccccceeccC-CCeEEEEEeeEEEeeeeeeecceeEEEEeeh
Confidence 568899999999999999999999999999777889999999999864 4568899999999999999999999999987
Q ss_pred cCCCCcccCCCCCcceEEEEEeeeeeeecCCCCcccc
Q 047732 81 CMDVDQSCEGSSAGTDLEVVGIIRHRILFNTRPQALI 117 (128)
Q Consensus 81 ~~~~~~~~~~~~~~~e~~vv~IIr~KiiFk~RP~PIi 117 (128)
-+. -++..++++|+||||||++||+||+|+|
T Consensus 80 ~~h------~~~k~~~~evv~Vir~KviFKtRP~Pl~ 110 (110)
T KOG4487|consen 80 VMH------FNSKDNKVEVVDVIRYKVIFKTRPLPLM 110 (110)
T ss_pred hhh------hcCCCceEEeeeeEeEEEEeccCCCCCC
Confidence 632 1245789999999999999999999997
No 3
>PF08105 Antimicrobial10: Metchnikowin family; InterPro: IPR012513 This family consists of the metchnikowin family of antimicrobial peptides from Drosophila. metchnikowin is a proline-rich peptide whose expression is immune-inducible. Induction of the metchnikowin gene expression can be mediated either by the TOLL pathway or by the imd gene product. The metchnikowin peptide is unique among the Drosophila antimicrobial peptides in that it is active against both bacteria and fungi [].
Probab=65.27 E-value=3.7 Score=26.06 Aligned_cols=18 Identities=22% Similarity=0.464 Sum_probs=15.0
Q ss_pred eeecCCCCccccccCccc
Q 047732 106 RILFNTRPQALISSTSKL 123 (128)
Q Consensus 106 KiiFk~RP~PIi~~~~~~ 123 (128)
-=||.+||.|.-.|.++.
T Consensus 31 gpiFDTRPSPFNPN~Prp 48 (52)
T PF08105_consen 31 GPIFDTRPSPFNPNQPRP 48 (52)
T ss_pred CCCCCCCCCCCCCCCCCC
Confidence 347999999999998765
No 4
>KOG4011 consensus Transcription initiation factor TFIID, subunit TAF7 [Transcription]
Probab=56.24 E-value=12 Score=32.04 Aligned_cols=32 Identities=9% Similarity=0.008 Sum_probs=25.5
Q ss_pred eeccCCCCcEEEEEceEEEEEeEeccCCCeEE
Q 047732 44 LCRPSSQESYTFTVGYHELTGSKVPLKKPLLV 75 (128)
Q Consensus 44 L~~~~~~~~~~L~IG~h~L~GkvvkL~kPLaV 75 (128)
+.|..+.+.+++.||+|.|-||++.|+.=.-+
T Consensus 53 i~~~~D~R~~vV~i~n~~l~akLvDLPtVvEs 84 (330)
T KOG4011|consen 53 IKLKPDGRHAVVRINNQLLPAKLVDLPTVVES 84 (330)
T ss_pred eeeccCCceeEEEECCEEccceeeccchhhhh
Confidence 44555688999999999999999999854333
No 5
>PF04658 TAFII55_N: TAFII55 protein conserved region; InterPro: IPR006751 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex. TAFII55 binds to TAFII250 and inhibits its acetyltransferase activity. The exact role of TAFII55 is currently unknown. The conserved region is situated towards the N-terminal of the protein [].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005669 transcription factor TFIID complex
Probab=46.59 E-value=66 Score=24.56 Aligned_cols=34 Identities=12% Similarity=-0.019 Sum_probs=28.8
Q ss_pred eeccCCCCcEEEEEceEEEEEeEeccCCCeEEEEE
Q 047732 44 LCRPSSQESYTFTVGYHELTGSKVPLKKPLLVLKK 78 (128)
Q Consensus 44 L~~~~~~~~~~L~IG~h~L~GkvvkL~kPLaVL~k 78 (128)
+.| .+++.+++.+|++.+.|+.+.|+.-+-..+-
T Consensus 35 ~~~-~d~R~~~v~i~~~~y~a~LvDLP~IvEs~KT 68 (162)
T PF04658_consen 35 FKF-KDGRRAVVRIGGQIYSAKLVDLPCIVESHKT 68 (162)
T ss_pred Eec-CCCCEEEEEECCEEcceEEeecCceeeEEee
Confidence 444 5688999999999999999999988877764
No 6
>PF04004 Leo1: Leo1-like protein; InterPro: IPR007149 Members of this family are part of the Paf1/RNA polymerase II complex [, ]. The Paf1 complex probably functions during the elongation phase of transcription [].
Probab=44.44 E-value=91 Score=23.70 Aligned_cols=48 Identities=21% Similarity=0.354 Sum_probs=28.6
Q ss_pred CCcEEEEEceEEEEE-eEeccCC---CeEEEEEeecCCCCcccCCCCCcceEEEEEeeeeeeecC
Q 047732 50 QESYTFTVGYHELTG-SKVPLKK---PLLVLKKVKCMDVDQSCEGSSAGTDLEVVGIIRHRILFN 110 (128)
Q Consensus 50 ~~~~~L~IG~h~L~G-kvvkL~k---PLaVL~k~~~~~~~~~~~~~~~~~e~~vv~IIr~KiiFk 110 (128)
+|..+|.||+-.+.= +...+.. -+++.+. ...+-++..++|+.|+-|.
T Consensus 74 DGS~sL~iG~E~fdi~~~~~~~~~~~~~L~~~~-------------~~~~~l~~~~~i~~~l~~r 125 (171)
T PF04004_consen 74 DGSLSLHIGNEVFDIQKKYPLVQDDHNYLFVRH-------------GSSGVLQGQGHITKKLTFR 125 (171)
T ss_pred CCceEEEeccEEEEeccccccccCCcceEEEEc-------------CCcceEEEEEEecccEEEe
Confidence 578999999854332 2222211 1112111 1236699999999999984
No 7
>PF10419 TFIIIC_sub6: TFIIIC subunit; InterPro: IPR019481 This conserved domain is found in a family of proteins that function as subunits of transcription factor IIIC (TFIIIC) []. TFIIIC in yeast and humans is required for transcription of tRNA and 5 S RNA genes by RNA polymerase III. The yeast proteins in this entry are fused to phosphoglycerate mutase domain.
Probab=43.01 E-value=32 Score=19.91 Aligned_cols=19 Identities=16% Similarity=0.230 Sum_probs=15.6
Q ss_pred CCcEEEEEceEEEEEeEec
Q 047732 50 QESYTFTVGYHELTGSKVP 68 (128)
Q Consensus 50 ~~~~~L~IG~h~L~Gkvvk 68 (128)
...|++.||++.++|+-..
T Consensus 8 t~~Pil~i~~~vf~G~~~~ 26 (35)
T PF10419_consen 8 TENPILQIGNQVFEGEWED 26 (35)
T ss_pred CCCCEEEECCEEEEEEEhh
Confidence 4579999999999998543
No 8
>PF15363 DUF4596: Domain of unknown function (DUF4596)
Probab=35.55 E-value=33 Score=21.30 Aligned_cols=10 Identities=50% Similarity=1.046 Sum_probs=7.8
Q ss_pred CCceEEEEee
Q 047732 14 CREWAIIELQ 23 (128)
Q Consensus 14 ~~e~~llElQ 23 (128)
..||.+|||.
T Consensus 34 qGeWTivElE 43 (46)
T PF15363_consen 34 QGEWTIVELE 43 (46)
T ss_pred CCceEEEEEe
Confidence 3479999984
No 9
>cd08047 TAF7 TATA Binding Protein (TBP) Associated Factor 7 (TAF7) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 7 (TAF7) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the preinitiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving
Probab=29.24 E-value=99 Score=23.29 Aligned_cols=36 Identities=8% Similarity=-0.006 Sum_probs=30.1
Q ss_pred eccCCCCcEEEEEceEEEEEeEeccCCCeEEEEEee
Q 047732 45 CRPSSQESYTFTVGYHELTGSKVPLKKPLLVLKKVK 80 (128)
Q Consensus 45 ~~~~~~~~~~L~IG~h~L~GkvvkL~kPLaVL~k~~ 80 (128)
.+..+.+.+++.|+++.+.|+.+.|+.-+-..+--+
T Consensus 33 ~~~~d~R~~~v~v~~~~y~a~LvdLPtiiEs~KT~D 68 (162)
T cd08047 33 TLFEDSRRAVVRINGQKYPAKLVDLPTIIESHKTLD 68 (162)
T ss_pred ccCCCCcEEEEEECCEEcceEEeecCceeeeeeccc
Confidence 344568899999999999999999999888776544
No 10
>PRK07451 translation initiation factor Sui1; Validated
Probab=27.92 E-value=29 Score=25.31 Aligned_cols=19 Identities=37% Similarity=0.702 Sum_probs=11.5
Q ss_pred cCCCCCCCCceEEEEeeeeee
Q 047732 7 CGCGAESCREWAIIELQGFVE 27 (128)
Q Consensus 7 ~~~~~~~~~e~~llElQG~Le 27 (128)
|.||.. ..+. .|||||+.-
T Consensus 78 ~gcGGt-vkd~-~IelQGD~r 96 (115)
T PRK07451 78 CGSGGT-VKDN-TIEIQGDHR 96 (115)
T ss_pred hcCCce-EcCC-EEEEcCcHH
Confidence 556543 3333 399999863
No 11
>KOG3497 consensus DNA-directed RNA polymerase, subunit RPB10 [Transcription]
Probab=27.33 E-value=32 Score=22.86 Aligned_cols=7 Identities=57% Similarity=1.127 Sum_probs=6.4
Q ss_pred CeEEEEc
Q 047732 1 MQIRIKC 7 (128)
Q Consensus 1 M~i~i~~ 7 (128)
|+|||+|
T Consensus 1 MIiPiRC 7 (69)
T KOG3497|consen 1 MIIPIRC 7 (69)
T ss_pred CeeeeEe
Confidence 8999998
No 12
>COG0023 SUI1 Translation initiation factor 1 (eIF-1/SUI1) and related proteins [Translation, ribosomal structure and biogenesis]
Probab=25.31 E-value=40 Score=24.27 Aligned_cols=20 Identities=40% Similarity=0.767 Sum_probs=12.2
Q ss_pred EcCCCCCCCCceEEEEeeeeee
Q 047732 6 KCGCGAESCREWAIIELQGFVE 27 (128)
Q Consensus 6 ~~~~~~~~~~e~~llElQG~Le 27 (128)
+|.||.. ..+- .|||||+-.
T Consensus 65 ~cacGGt-vk~~-~IeiQGdhr 84 (104)
T COG0023 65 KCACGGT-VKDG-EIEIQGDHR 84 (104)
T ss_pred HcCCCce-ecCC-EEEEeChHH
Confidence 3556553 3332 899999853
No 13
>cd04479 RPA3 RPA3: A subfamily of OB folds similar to human RPA3 (also called RPA14). RPA3 is the smallest subunit of Replication protein A (RPA). RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA3 is believed to have a structural role in assembly of the RPA heterotrimer.
Probab=25.24 E-value=2.2e+02 Score=19.53 Aligned_cols=50 Identities=18% Similarity=0.156 Sum_probs=27.5
Q ss_pred EEceE-EEEEeEeccCCCeEEEEEeecCCC---CcccCCCCCcceEEEEEeeee
Q 047732 56 TVGYH-ELTGSKVPLKKPLLVLKKVKCMDV---DQSCEGSSAGTDLEVVGIIRH 105 (128)
Q Consensus 56 ~IG~h-~L~GkvvkL~kPLaVL~k~~~~~~---~~~~~~~~~~~e~~vv~IIr~ 105 (128)
++|.. ++.||+.+++---+.++-.+..+- -+.........-+||++.+.-
T Consensus 13 f~gk~V~ivGkV~~~~~~~~~~~~~Dg~~v~v~l~~~~~~~~~~~vEViG~V~~ 66 (101)
T cd04479 13 FVGKTVRIVGKVEKVDGDSLTLISSDGVNVTVELNRPLDLPISGYVEVIGKVSP 66 (101)
T ss_pred hCCCEEEEEEEEEEecCCeEEEEcCCCCEEEEEeCCCCCcccCCEEEEEEEECC
Confidence 35654 788888888866444443322100 000112334567999998864
No 14
>PRK09019 translation initiation factor Sui1; Validated
Probab=25.18 E-value=34 Score=24.73 Aligned_cols=19 Identities=47% Similarity=1.015 Sum_probs=11.9
Q ss_pred EcCCCCCCCCceEEEEeeeee
Q 047732 6 KCGCGAESCREWAIIELQGFV 26 (128)
Q Consensus 6 ~~~~~~~~~~e~~llElQG~L 26 (128)
+|.||.. ..+. .|||||+-
T Consensus 70 k~gcGGt-vk~~-~IelQGD~ 88 (108)
T PRK09019 70 KCGCGGA-VKDG-VIEIQGDK 88 (108)
T ss_pred HhcCCCe-EEcC-EEEEcCcH
Confidence 3566553 4443 49999986
No 15
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=23.53 E-value=34 Score=20.64 Aligned_cols=14 Identities=36% Similarity=0.574 Sum_probs=10.9
Q ss_pred eeeeeecCCCCccc
Q 047732 103 IRHRILFNTRPQAL 116 (128)
Q Consensus 103 Ir~KiiFk~RP~PI 116 (128)
.-++|+||.||.-+
T Consensus 25 CG~rIlyK~R~~~~ 38 (44)
T smart00659 25 CGYRILYKKRTKRL 38 (44)
T ss_pred CCceEEEEeCCCce
Confidence 45789999998743
No 16
>PF05132 RNA_pol_Rpc4: RNA polymerase III RPC4; InterPro: IPR007811 This family comprises a specific subunit for Pol III, the tRNA specific polymerase.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006383 transcription from RNA polymerase III promoter, 0005666 DNA-directed RNA polymerase III complex
Probab=23.34 E-value=1.2e+02 Score=21.84 Aligned_cols=60 Identities=13% Similarity=0.257 Sum_probs=36.5
Q ss_pred ccceeeeeeeccCCCCcEEEEEceEEEE---EeEeccCCCeEEEEEeecCCCCcccCCCCCcceEEEEEeeeeeee
Q 047732 36 LQNLVIGELCRPSSQESYTFTVGYHELT---GSKVPLKKPLLVLKKVKCMDVDQSCEGSSAGTDLEVVGIIRHRIL 108 (128)
Q Consensus 36 ~~~~~iG~L~~~~~~~~~~L~IG~h~L~---GkvvkL~kPLaVL~k~~~~~~~~~~~~~~~~~e~~vv~IIr~Kii 108 (128)
+.+-.||+|.+. +.++..|.||...|. |.-...-.=++.+.. .+...+....+=|.+|++
T Consensus 64 ~~~G~iGkL~V~-kSGkv~l~iG~~~~dV~~G~~~~FlQevv~i~~------------~~~~~~~~~LG~v~~k~v 126 (131)
T PF05132_consen 64 LPEGQIGKLRVH-KSGKVTLKIGGVVFDVSPGTQCSFLQEVVAIDE------------EEEEGECYFLGQVSGKFV 126 (131)
T ss_pred CCCCeeEEEEEE-eCCcEEEEECCEEEEecCCCCCCchheEEEeec------------cCCCCeEEEeccccceEE
Confidence 444599999986 567889999987774 333333333333332 112345666777777764
No 17
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=22.65 E-value=40 Score=21.17 Aligned_cols=13 Identities=38% Similarity=0.644 Sum_probs=11.1
Q ss_pred eeeeeecCCCCcc
Q 047732 103 IRHRILFNTRPQA 115 (128)
Q Consensus 103 Ir~KiiFk~RP~P 115 (128)
..+||+||-||.-
T Consensus 30 Cg~rIl~K~R~~~ 42 (49)
T COG1996 30 CGSRILVKERPKV 42 (49)
T ss_pred CCcEEEEeccCCc
Confidence 5689999999974
No 18
>PLN00032 DNA-directed RNA polymerase; Provisional
Probab=21.47 E-value=33 Score=23.16 Aligned_cols=7 Identities=43% Similarity=1.084 Sum_probs=6.2
Q ss_pred CeEEEEc
Q 047732 1 MQIRIKC 7 (128)
Q Consensus 1 M~i~i~~ 7 (128)
|+|||+|
T Consensus 1 MiiPVRC 7 (71)
T PLN00032 1 MIIPVRC 7 (71)
T ss_pred CCCceee
Confidence 8899988
No 19
>PRK09697 protein secretion protein GspB; Provisional
Probab=21.12 E-value=54 Score=24.41 Aligned_cols=21 Identities=19% Similarity=0.387 Sum_probs=16.8
Q ss_pred eeecCCCCccccccCccccCC
Q 047732 106 RILFNTRPQALISSTSKLLLP 126 (128)
Q Consensus 106 KiiFk~RP~PIi~~~~~~~~~ 126 (128)
...||..|.|+..+++.+.=|
T Consensus 79 H~~FKKqPLPV~E~V~~edE~ 99 (139)
T PRK09697 79 HYFFKKQPLPVVESVEEEDEP 99 (139)
T ss_pred heeeecCCCCCcccccccccc
Confidence 468999999999988766543
No 20
>PF03255 ACCA: Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; InterPro: IPR001095 This entry contains the alpha subunit the acetyl coenzyme A carboxylase complex (6.4.1.2 from EC). It catalyses the first step in the synthesis of long-chain fatty acids which involves the carboxylation of acetyl-CoA to malonyl-CoA. The acetyl-CoA carboxylase complex is a heterohexamer of biotin carboxyl carrier protein, biotin carboxylase and two non-identical carboxyl transferase subunits (alpha and beta) in a 2:2 association []. The reaction involves two steps: Biotin carrier protein + ATP + HCO3 - -> Carboxybiotin carrier protein + ADP + Pi Carboxybiotin carrier protein + Acetyl-CoA -> Malonyl-CoA + Biotin carrier protein ; GO: 0003989 acetyl-CoA carboxylase activity, 0006633 fatty acid biosynthetic process, 0009317 acetyl-CoA carboxylase complex; PDB: 2F9I_A 2F9Y_A.
Probab=20.93 E-value=1.5e+02 Score=22.63 Aligned_cols=35 Identities=20% Similarity=0.282 Sum_probs=15.1
Q ss_pred EEEeeeeeecCCCccccccceeeeeeeccCCCCcEEEEEceEE
Q 047732 19 IIELQGFVEVQPSFQDRLQNLVIGELCRPSSQESYTFTVGYHE 61 (128)
Q Consensus 19 llElQG~Le~~~~~~~~~~~~~iG~L~~~~~~~~~~L~IG~h~ 61 (128)
.+||.|+=...++ .--+|=+-.. ++.|+.+||+++
T Consensus 80 f~ElhGDR~~~dD------~AivgG~a~~--~g~~V~vig~~K 114 (145)
T PF03255_consen 80 FIELHGDRLFGDD------PAIVGGIARF--DGQPVTVIGQQK 114 (145)
T ss_dssp EEE----SSS---------TTEEEEEEEE--TTEEEEEEEE--
T ss_pred CeEecCCccCCcC------ccceeeeEEE--CCEEEEEEEEec
Confidence 5788888766543 2233322221 367899999985
No 21
>PF11047 SopD: Salmonella outer protein D; InterPro: IPR022747 The proteins in this entry are also known as secreted effector proteins. Effector proteins function to alter host cell physiology and promote bacterial survival in host tissues. They contribute to the formation of Salmonella-induced filaments (Sifs) in infected epithelial cells and to replication in macrophages []. SopD is a type III virulence effector protein whose structure consists of 38% alpha-helix and 26% beta-strand [].; GO: 0009405 pathogenesis, 0033644 host cell membrane
Probab=20.88 E-value=22 Score=30.19 Aligned_cols=48 Identities=25% Similarity=0.429 Sum_probs=34.8
Q ss_pred CCceEEEEeeeeeecCCCccccccceeeeeeeccCCCCcEEEEEceEEEEEeEe
Q 047732 14 CREWAIIELQGFVEVQPSFQDRLQNLVIGELCRPSSQESYTFTVGYHELTGSKV 67 (128)
Q Consensus 14 ~~e~~llElQG~Le~~~~~~~~~~~~~iG~L~~~~~~~~~~L~IG~h~L~Gkvv 67 (128)
-+..++||-||+|...+. +.+.-...|+... ..-.+-||++.++|+|.
T Consensus 195 ~~~~~~vew~~~lt~~e~--~~l~c~~~g~f~~----~tqf~kigy~e~~gev~ 242 (319)
T PF11047_consen 195 DRDHACVEWNGTLTEDEK--SKLACLNMGSFDP----ITQFFKIGYQEVQGEVA 242 (319)
T ss_pred CCCCcceeecCcCCHhHH--hhhhhhhcCCCCc----cchhhccchhhhcceee
Confidence 567899999999975543 3455567777652 12347799999999985
No 22
>PRK15380 pathogenicity island 1 protein SopD2; Provisional
Probab=20.50 E-value=11 Score=31.71 Aligned_cols=48 Identities=25% Similarity=0.466 Sum_probs=34.4
Q ss_pred CCceEEEEeeeeeecCCCccccccceeeeeeeccCCCCcEEEEEceEEEEEeEe
Q 047732 14 CREWAIIELQGFVEVQPSFQDRLQNLVIGELCRPSSQESYTFTVGYHELTGSKV 67 (128)
Q Consensus 14 ~~e~~llElQG~Le~~~~~~~~~~~~~iG~L~~~~~~~~~~L~IG~h~L~Gkvv 67 (128)
-+..++||-||+|.-..- +.+.-...|+.... .-..-||++.|+|+|.
T Consensus 195 ~~~~~~vew~~~lt~~e~--~~l~cl~~g~f~~~----tqf~kigy~elegev~ 242 (319)
T PRK15380 195 DRKMECVEWNGTLTEEEK--NKLRCLQMGSFNIT----TQFFKIGYWELEGEVL 242 (319)
T ss_pred CCCCcceeecCccCHhHH--HHHHHhhcCCCcch----hhhhhhhhHhhhhhHH
Confidence 567899999999965433 34555677776531 2347799999999984
Done!