Query 014596
Match_columns 422
No_of_seqs 108 out of 120
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 06:40:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014596.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014596hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4508 Uncharacterized conser 100.0 1.9E-94 4.1E-99 717.2 20.3 417 2-421 63-498 (522)
2 PF10155 DUF2363: Uncharacteri 100.0 2.6E-44 5.7E-49 316.1 5.1 115 305-421 1-116 (126)
3 TIGR01446 DnaD_dom DnaD and ph 59.9 44 0.00095 26.0 6.7 69 327-404 3-71 (73)
4 PF09808 SNAPc_SNAP43: Small n 58.9 25 0.00054 33.1 6.1 76 5-85 4-94 (194)
5 PF05819 NolX: NolX protein; 51.7 39 0.00085 36.8 6.6 118 195-315 211-339 (624)
6 PF07261 DnaB_2: Replication i 42.8 39 0.00084 26.3 3.9 69 328-405 4-72 (77)
7 PF03540 TFIID_30kDa: Transcri 42.1 32 0.0007 26.2 3.1 37 353-396 2-38 (51)
8 PF02847 MA3: MA3 domain; Int 33.9 54 0.0012 27.3 3.7 57 340-403 17-73 (113)
9 TIGR00601 rad23 UV excision re 31.9 97 0.0021 32.6 5.8 91 273-374 253-365 (378)
10 PF02847 MA3: MA3 domain; Int 31.6 1.6E+02 0.0035 24.4 6.2 79 307-400 33-113 (113)
11 cd08318 Death_NMPP84 Death dom 28.4 47 0.001 27.3 2.3 48 270-317 3-51 (86)
12 TIGR00207 fliG flagellar motor 27.7 2.7E+02 0.0059 28.7 8.2 123 259-393 81-211 (338)
13 PF10678 DUF2492: Protein of u 26.2 56 0.0012 27.0 2.3 36 8-43 7-44 (78)
14 PF07637 PSD5: Protein of unkn 26.1 94 0.002 24.1 3.5 29 258-286 5-33 (64)
15 TIGR03882 cyclo_dehyd_2 bacter 25.5 91 0.002 29.4 4.0 49 1-53 26-74 (193)
16 PF13490 zf-HC2: Putative zinc 24.5 1.2E+02 0.0027 20.2 3.5 28 259-286 3-30 (36)
17 PF09030 Creb_binding: Creb bi 22.3 62 0.0013 28.1 2.0 32 259-291 55-86 (104)
18 PF14483 Cut8_M: Cut8 dimerisa 21.6 1.6E+02 0.0034 21.0 3.6 14 303-316 21-34 (38)
19 PF13929 mRNA_stabil: mRNA sta 21.5 4.5E+02 0.0098 26.9 8.2 101 263-374 101-216 (292)
20 smart00544 MA3 Domain in DAP-5 21.0 1.2E+02 0.0026 25.3 3.5 22 381-402 51-72 (113)
No 1
>KOG4508 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.9e-94 Score=717.22 Aligned_cols=417 Identities=36% Similarity=0.532 Sum_probs=382.3
Q ss_pred CChHHHHHHHHhhccCCC-cHHHHHHHHHhhCCCCCchhhhhHHHHHhcCCccCC-chhHHHHHHHHHhhhcCCCCCCCC
Q 014596 2 LSQEESGRVFEMLKSQEK-PVEEIVSDLISTFPRHRHFVLCTTLSLLLQDKKALN-STERLVAFAILHHSYCSQKPSANP 79 (422)
Q Consensus 2 l~~~e~~~Ll~llse~~~-tLEsi~~~f~~~F~~~~~f~v~~~L~~LL~d~~ll~-~~qRlia~~iLy~~y~~e~~~~NP 79 (422)
++++|...++++++++.. +||.+++.|++.|.+.|||++|+.|+|+||++||+. -++|+.|+|++|++|+++..++||
T Consensus 63 ~~~~e~t~vls~~~~~~~~~fe~l~t~F~~~fe~ad~~r~~nil~m~lq~pdl~p~~~~rl~al~~vy~~Y~t~~~aanp 142 (522)
T KOG4508|consen 63 FNSLENTFVLSFTNRCSLAIFEALATCFEIHFEEADVIRRLNILYMVLQLPDLEPELPKRLKALSDVYSHYATFLFAANP 142 (522)
T ss_pred eccchhHHHHHHHHHhhhhhHHHHHHHHHHhhhhhhHHhhhhhHHHhhhCcccccccccchhHHHHHHHHHhccccccCh
Confidence 468899999999999985 999999999999999999999999999999999995 499999999999999999999999
Q ss_pred hHHHHHhhh----ccccccHHHHHHHHHHhcCCC--CCCcHHHHHhcHHHHHhhcCC---CCCCC------CCHHHHHHH
Q 014596 80 FISLIINSA----CDDEVEKFERAFLLQLLSSSS--SNSNKEFLKQSAADYIKAFDP---SSHAF------PQREQLQQQ 144 (422)
Q Consensus 80 F~~v~i~~~----~~~~~~~~Ek~fl~~LL~~~~--~~~~ke~~kkt~~~i~~~~~~---~~~~~------~~~~~l~~~ 144 (422)
|.+-|-+.+ ++.+..++||.++.++|.... .+..+.+++..+.+++..+.+ +.+.+ ++.++++.+
T Consensus 143 f~~~~~~ml~~a~~s~~~~q~er~~l~~flq~~a~~~~~v~~il~l~~vd~~~~~tp~~~~~hD~p~~g~~~~~~~lq~e 222 (522)
T KOG4508|consen 143 FEHRIEAMLARAIVSNNINQVERLTLPDFLQKAAAGTVVVEGILRLGFVDWCEANTPHWPEVHDLPKAGRELGCERLQYE 222 (522)
T ss_pred HHHHHHHHhccccccccccccccccchhhcccccccchhhhhhHhccchHHHHhcCCCchhhcchhHHhhhccchhhhhh
Confidence 999665443 777888999999999998754 445688999999998887766 33333 356669999
Q ss_pred hhhhcCCCCCCcccccCCccccccCCCCCCCCCCCCCCCCCCCCccccCCCCChHHHHHhhhccCCCCCCCCCCccCCCC
Q 014596 145 YCDKVHPEPFNSAYINASTKNAFPDPDLPHGCDPNSPEFDFQPGAKTKLGAGSKDETVTGLLTHLSLKGLDPRWIRPLPP 224 (422)
Q Consensus 145 ~~e~~~~~p~~~~~~~~~i~~ii~dpD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~f~p~f~Rp~Pp 224 (422)
|.++-+.-|.. ..+++++++++.|||++..|++++|||++..+.....+++.+++++..........+|+|+||||.||
T Consensus 223 ~g~~~~~~P~~-h~a~~slp~~l~DPdip~~~d~~~pefdvat~V~~~m~SGd~~e~~s~F~~~~t~~~~~p~~IrP~pp 301 (522)
T KOG4508|consen 223 SGMAEAFYPIM-HNAPTSLPPRLEDPDIPEWRDKVDPEFDVATPVIYSMCSGDQEELMSAFDELETIAEYQPDLIRPEPP 301 (522)
T ss_pred hhcccccCccc-ccCcccCCccccCCCCcccccCCCCccccccccchhhcCCCchHHHHHHhhhhhhhhcCccccCCCCc
Confidence 98844333322 23788999999999999999999999999988888899999999998777766678999999999999
Q ss_pred CCCCCCCcceeccCC-CCCccccccCCCCCCCchHHHHHHHHHHHcCCCCHHHHHHHHHHHhcCcccccccCCCCCChHH
Q 014596 225 RFPVLDRELEWLIPD-NNHELLWDHGMCADTSRGAAVRDLIAKALKGPLLPAQYEQVVVELANDPKLVYHCGLTPRKLPE 303 (422)
Q Consensus 225 llp~~~~El~wl~p~-~~~~~lwD~~m~~~s~~~~~~r~L~~kA~~~~Lt~~eqq~Ll~~L~~D~~lv~~~glt~~~Lp~ 303 (422)
.++.|++|+.|++|. ..|++.||.+||++++.|.++|+++.||++++|+..+|.+++-++.+||++|+|+|+||.+||+
T Consensus 302 ~~~~c~del~w~~ps~p~hev~wD~~mc~d~s~Gv~lkd~~ikglk~tlstt~qsdmm~el~~dPklv~h~gvtp~klp~ 381 (522)
T KOG4508|consen 302 ELNDCDDELSWSSPSAPPHEVSWDLEMCLDISDGVDLKDEVIKGLKGTLSTTSQSDMMIELVTDPKLVLHAGVTPEKLPS 381 (522)
T ss_pred ccCchHhHhhccCCCCCccccccchhhcccccCcccHHHHHHHHccCCCCCccHHHHHHHHhcCcceeEecccChhhhHH
Confidence 999999999999995 5899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhCHHHHHHHHHHhcCCCChhHHHHHHhhCCCChhHHHHHHHHHhccCCcHHHHHHHHHhhhhhccccchhhhccccc
Q 014596 304 LVENNPLIAVDVLTKLINSPEISEYYTVLVNMDMSLHSMEVVNRLTTAVELPKEFVRMYITNCISSCQNIKDKYMQNRLV 383 (422)
Q Consensus 304 LVEnNP~IA~e~L~kL~~s~~~~~yld~Lv~m~~Sl~smEvVnrL~t~~~lP~eFi~~YI~ncI~~Ce~ikDk~~q~R~V 383 (422)
||||||.+|+|+|+|+++|.++++|+.+|++|+||+|||||||||+|+|.+|.+|+|+||+|||++||++||||||||+|
T Consensus 382 lVe~Np~~A~e~L~kl~~S~qi~~Y~~~l~nmdmslHSmEvVnrLttav~lp~~fi~~yi~ncis~ce~~kdkymqnRlV 461 (522)
T KOG4508|consen 382 LVETNPKFAGEFLVKLALSEQIKRYMRLLENMDMSLHSMEVVNRLTTAVILPDKFIQEYIENCISFCEHTKDKYMQNRLV 461 (522)
T ss_pred HHHcChHHHHHHHHHHhhHHHHHHHHHHHhcccchhHHHHHHHHHhhhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHhcccccccceEEeecceeee-eeccCC
Q 014596 384 RLVCVFLQSLIRNRIIDGENVRLFFFPCYTCL-YDHVRG 421 (422)
Q Consensus 384 RLVCvFlqsLIrnkii~v~dl~~ev~~~~fcl-~~~~~~ 421 (422)
||||||+|||||||||||+|+|||||+ ||+ |++||-
T Consensus 462 RLVcvflqsLiRnkIiNV~DlfieVqa--Fciefsr~RE 498 (522)
T KOG4508|consen 462 RLVCVFLQSLIRNKIINVEDLFIEVQA--FCIEFSRNRE 498 (522)
T ss_pred HHHHHHHHHHHHHhcccHHHHHHHHHh--hhhhhhhhHH
Confidence 999999999999999999999999999 999 999983
No 2
>PF10155 DUF2363: Uncharacterized conserved protein (DUF2363); InterPro: IPR019312 This entry represents a region of 120 amino acids in proteins conserved from plants to humans. Their function is not known.
Probab=100.00 E-value=2.6e-44 Score=316.09 Aligned_cols=115 Identities=66% Similarity=1.076 Sum_probs=113.4
Q ss_pred HHhCHHHHHHHHHHhcCCCChhHHHHHHhhCCCChhHHHHHHHHHhccCCcHHHHHHHHHhhhhhccccchhhhccccch
Q 014596 305 VENNPLIAVDVLTKLINSPEISEYYTVLVNMDMSLHSMEVVNRLTTAVELPKEFVRMYITNCISSCQNIKDKYMQNRLVR 384 (422)
Q Consensus 305 VEnNP~IA~e~L~kL~~s~~~~~yld~Lv~m~~Sl~smEvVnrL~t~~~lP~eFi~~YI~ncI~~Ce~ikDk~~q~R~VR 384 (422)
|||||.||+++|+++++++++++|||+|++||+|+|||||||||++++++|+||+|+||+|||++||++|||++|+|+||
T Consensus 1 ienNp~IA~~~l~~l~~s~~~~~yld~lv~~~~sl~s~EvVn~L~~~~~~p~efl~~yI~~cI~~ce~~kd~~~q~R~VR 80 (126)
T PF10155_consen 1 IENNPNIAIEILVKLINSPNFKEYLDVLVSMDMSLHSMEVVNRLTTSFSLPQEFLHMYISNCIKSCESIKDKYMQNRLVR 80 (126)
T ss_pred CCCcHHHHHHHHHHHcCCchHHHHHHHHHcCCCchhHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHhhcccccccchhh
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHhcccccccceEEeecceeee-eeccCC
Q 014596 385 LVCVFLQSLIRNRIIDGENVRLFFFPCYTCL-YDHVRG 421 (422)
Q Consensus 385 LVCvFlqsLIrnkii~v~dl~~ev~~~~fcl-~~~~~~ 421 (422)
|||||+|+|||+|+++++|+++|||+ ||+ |+++|.
T Consensus 81 lvcvfl~sLir~~i~~~~~l~~evq~--FClefs~i~E 116 (126)
T PF10155_consen 81 LVCVFLQSLIRNKIIDVEDLFIEVQA--FCLEFSRIKE 116 (126)
T ss_pred hHHHHHHHHHHcCCCchHHHHhhHHH--HHHHHccHHH
Confidence 99999999999999999999999999 999 999985
No 3
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=59.93 E-value=44 Score=26.03 Aligned_cols=69 Identities=14% Similarity=0.187 Sum_probs=57.8
Q ss_pred HHHHHHhhCCCChhHHHHHHHHHhccCCcHHHHHHHHHhhhhhccccchhhhccccchhhHHHHHHHHHhcccccccc
Q 014596 327 EYYTVLVNMDMSLHSMEVVNRLTTAVELPKEFVRMYITNCISSCQNIKDKYMQNRLVRLVCVFLQSLIRNRIIDGENV 404 (422)
Q Consensus 327 ~yld~Lv~m~~Sl~smEvVnrL~t~~~lP~eFi~~YI~ncI~~Ce~ikDk~~q~R~VRLVCvFlqsLIrnkii~v~dl 404 (422)
+|++....-++|..-+|.+..+.....+|.+.|..=|..|+.. ..+-+++|-..+.+--++||-+++|+
T Consensus 3 ~~~e~~~gr~ls~~e~~~i~~~~~~~~~~~evI~~ai~~a~~~---------~~~~~~Yi~~Il~~W~~~gi~T~e~~ 71 (73)
T TIGR01446 3 DFFEENFGRMLSPFEMEDLKYWLDEFGNSPELIKEALKEAVSN---------NKANYKYIDAILNNWKNNGIKTVEDV 71 (73)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc---------CCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence 5667777778999999999999999999999999988888763 13557899999999999999988764
No 4
>PF09808 SNAPc_SNAP43: Small nuclear RNA activating complex (SNAPc), subunit SNAP43; InterPro: IPR019188 Members of this family are part of the SNAPc complex required for the transcription of both RNA polymerase II and III small-nuclear RNA genes. They bind to the proximal sequence element (PSE), a non-TATA-box basal promoter element common to these 2 types of genes. Furthermore, they also recruit TBP and BRF2 to the U6 snRNA TATA box. SNAPc consists of at least four stably associated subunits, SNAP43, SNAP45, SNAP50, and SNAP190. None of the three small subunits can bind to the PSE on their own [].
Probab=58.89 E-value=25 Score=33.08 Aligned_cols=76 Identities=20% Similarity=0.294 Sum_probs=47.6
Q ss_pred HHHHHHHHhhc-cCCCcHHHHHHHHHh-hC-----CCCC---c--h---hhhhHHHHHhcCCccCCchhHHHHHHHHHhh
Q 014596 5 EESGRVFEMLK-SQEKPVEEIVSDLIS-TF-----PRHR---H--F---VLCTTLSLLLQDKKALNSTERLVAFAILHHS 69 (422)
Q Consensus 5 ~e~~~Ll~lls-e~~~tLEsi~~~f~~-~F-----~~~~---~--f---~v~~~L~~LL~d~~ll~~~qRlia~~iLy~~ 69 (422)
+|+..|+.--. .+..+|++....+.. +| .+.+ . | -...++..++.. .+..+|+.|+|+||-+
T Consensus 4 ~D~~~Ll~~F~~~~~~~F~~F~~~W~~~~f~~if~g~~~~~e~~~f~~~~l~~~~~y~~~~---~s~~~Rvg~lYlLY~L 80 (194)
T PF09808_consen 4 EDIDELLQRFQQAESVRFEDFKRLWREMKFSYIFYGRPNQSELIEFMEELLQIALKYFLPP---RSLQERVGGLYLLYAL 80 (194)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHHHHCCcHHHHccCCChHHHHHHHHHHHHHHHHHHccC---ccHHHHHHHHHHHHHH
Confidence 67888886554 446899988887766 11 2222 1 2 112233333333 2678999999999999
Q ss_pred hcCCCCCCCChHHHHH
Q 014596 70 YCSQKPSANPFISLII 85 (422)
Q Consensus 70 y~~e~~~~NPF~~v~i 85 (422)
|..++ ..|...+-+
T Consensus 81 Y~tQp--~~~~~kIri 94 (194)
T PF09808_consen 81 YNTQP--CKPKVKIRI 94 (194)
T ss_pred HhcCC--CCCccceEE
Confidence 99995 356554433
No 5
>PF05819 NolX: NolX protein; InterPro: IPR008718 This family consists of Rhizobium NolX and Xanthomonas HrpF proteins. The interaction between the plant pathogen Xanthomonas campestris pv. vesicatoria (strain 85-10) and its host plants is controlled by hrp genes (hypersensitive reaction and pathogenicity), which encode a type III protein secretion system. Among type III-secreted proteins are avirulence proteins, effectors involved in the induction of plant defence reactions. HrpF is dispensable for protein secretion but required for AvrBs3 recognition in planta, is thought to function as a translocator of effector proteins into the host cell []. NolX, a Glycine max (Soybean) cultivar specificity protein, is secreted by a type III secretion system (TTSS) and shows homology to HrpF. It is not known whether NolX functions at the bacterium-plant interface or acts inside the host cell. NolX is expressed in planta only during the early stages of nodule development [].; GO: 0009877 nodulation
Probab=51.70 E-value=39 Score=36.85 Aligned_cols=118 Identities=16% Similarity=0.219 Sum_probs=71.5
Q ss_pred CCChHHHHHhhhccCCCCCCCCCCccCCCCCCCCCCCcceeccCCCC-CccccccCCCCCCCchHHHHHHHHHHHcCCCC
Q 014596 195 AGSKDETVTGLLTHLSLKGLDPRWIRPLPPRFPVLDRELEWLIPDNN-HELLWDHGMCADTSRGAAVRDLIAKALKGPLL 273 (422)
Q Consensus 195 ~~~~~~~l~~l~~~~~~~~f~p~f~Rp~Ppllp~~~~El~wl~p~~~-~~~lwD~~m~~~s~~~~~~r~L~~kA~~~~Lt 273 (422)
++...++|.++.+.+-. .|.+.=.|..|+ |+....+.|---..+ .++..=..+.-..+....-++=|.+-...|=|
T Consensus 211 pp~mraai~al~~~p~~-~~a~~~~~~~~~--p~~~s~itw~gg~lt~~eleiVavL~RHkDk~pl~w~~l~~k~nDPsT 287 (624)
T PF05819_consen 211 PPDMRAAIEALDQDPQP-FFAMASQRVAPA--PVDSSRITWNGGTLTQNELEIVAVLNRHKDKCPLDWKSLDDKINDPST 287 (624)
T ss_pred CHHHHHHHHHhhcCCcc-ccccCCccCCCC--CCCCCcceecCCcccccchhhhhhhhhccccCCcchhhHHhhccCCCC
Confidence 34677888887776542 222222232222 134455778644332 22211000000001111233445666788999
Q ss_pred HHHHHHHHHHHhcCcccccccC----------CCCCChHHHHHhCHHHHHHH
Q 014596 274 PAQYEQVVVELANDPKLVYHCG----------LTPRKLPELVENNPLIAVDV 315 (422)
Q Consensus 274 ~~eqq~Ll~~L~~D~~lv~~~g----------lt~~~Lp~LVEnNP~IA~e~ 315 (422)
+.+.+.-++.|.+||.+++-+| |+...|..+.+|+|+||..-
T Consensus 288 PpDLk~Al~~L~~DP~lf~AigsqgdGkcgGKI~AkDls~fs~~H~qva~y~ 339 (624)
T PF05819_consen 288 PPDLKAALQALQQDPALFYAIGSQGDGKCGGKIKAKDLSKFSSHHPQVAEYA 339 (624)
T ss_pred ChhHHHHHHHHhhChHHHHHhccCCCCCcCCeechhhHHHHHhcChHHHHHH
Confidence 9999999999999999998763 78899999999999998754
No 6
>PF07261 DnaB_2: Replication initiation and membrane attachment; InterPro: IPR006343 This entry represents a domain found in several bacterial replication initiation and membrane attachment proteins, DnaB and DnaD. The DnaD protein is a component of the PriA primosome. The PriA primosome functions to recruit the replication fork helicase onto the DNA []. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria []. The DnaB protein is essential for both replication initiation and membrane attachment of the origin region of the chromosome and Plasmid pUB110 in Bacillus subtilis. It is known that there are two different classes (DnaBI and DnaBII) in the DnaB mutants; DnaBI is essential for both chromosome and pUB110 replication, whereas DnaBII is necessary only for chromosome replication []. This domain tends to be found towards the C terminus of DnaB and DnaD proteins and is alpha helical in nature.; PDB: 2I5U_A 2ZC2_A.
Probab=42.81 E-value=39 Score=26.27 Aligned_cols=69 Identities=16% Similarity=0.185 Sum_probs=51.9
Q ss_pred HHHHHhhCCCChhHHHHHHHHHhccCCcHHHHHHHHHhhhhhccccchhhhccccchhhHHHHHHHHHhcccccccce
Q 014596 328 YYTVLVNMDMSLHSMEVVNRLTTAVELPKEFVRMYITNCISSCQNIKDKYMQNRLVRLVCVFLQSLIRNRIIDGENVR 405 (422)
Q Consensus 328 yld~Lv~m~~Sl~smEvVnrL~t~~~lP~eFi~~YI~ncI~~Ce~ikDk~~q~R~VRLVCvFlqsLIrnkii~v~dl~ 405 (422)
++.......+|..-++.++.+.....++.+.|..=|..|... + .+-++++-..+.+-.++||-+++|+.
T Consensus 4 ~~e~~~~~~~s~~e~~~l~~~~~~~~~~~~~v~~ai~~~~~~--~-------~~~~~Yi~~Il~~W~~~gi~t~e~~~ 72 (77)
T PF07261_consen 4 FYEKNFGRPPSPSEIEKLEKWIDDYGFSPEVVNEAIEYALEN--N-------KRSFNYIEKILNNWKQKGIKTVEDAE 72 (77)
T ss_dssp HHHCCCTSS--HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHC--T---------SHHHHHHHHHHHHHCT--SCCCCT
T ss_pred HHHHHcCCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc--C-------CCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence 344445678899999999999999999999999888888733 1 23389999999999999999998763
No 7
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. The complex includes TATA binding protein (TBP) and various TBP-associated factors (TAFS). TFIID a bona fide RNA polymerase II-specific TATA-binding protein-associated factor (TAF) and is essential for viability []. TFIID acts to nucleate the transcription complex, recruiting the rest of the factors through a direct interaction with TFIIB. The TBP subunit of TFIID is sufficient for TATA-element binding and TFIIB interaction, and can support basal transcription. The protein belongs to the TAF2H family.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus
Probab=42.12 E-value=32 Score=26.18 Aligned_cols=37 Identities=27% Similarity=0.427 Sum_probs=28.7
Q ss_pred CCcHHHHHHHHHhhhhhccccchhhhccccchhhHHHHHHHHHh
Q 014596 353 ELPKEFVRMYITNCISSCQNIKDKYMQNRLVRLVCVFLQSLIRN 396 (422)
Q Consensus 353 ~lP~eFi~~YI~ncI~~Ce~ikDk~~q~R~VRLVCvFlqsLIrn 396 (422)
.+|.+.+..|.+.+=-.| .| .|.+|||.+.-|+.|-.
T Consensus 2 ~IPD~v~~~yL~~~G~~~---~D----~rv~RLvSLaaQKFisd 38 (51)
T PF03540_consen 2 TIPDEVTDYYLERSGFQT---SD----PRVKRLVSLAAQKFISD 38 (51)
T ss_pred CCCHHHHHHHHHHCCCCC---CC----HhHHHHHHHHHHHHHHH
Confidence 479999999998764444 34 49999999999888754
No 8
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=33.94 E-value=54 Score=27.34 Aligned_cols=57 Identities=18% Similarity=0.226 Sum_probs=35.9
Q ss_pred hHHHHHHHHHhccCCcHHHHHHHHHhhhhhccccchhhhccccchhhHHHHHHHHHhccccccc
Q 014596 340 HSMEVVNRLTTAVELPKEFVRMYITNCISSCQNIKDKYMQNRLVRLVCVFLQSLIRNRIIDGEN 403 (422)
Q Consensus 340 ~smEvVnrL~t~~~lP~eFi~~YI~ncI~~Ce~ikDk~~q~R~VRLVCvFlqsLIrnkii~v~d 403 (422)
..-|++..+. +..+| .+.+..+...|..|=+-++ .-.++++.+++.|++.|.++.++
T Consensus 17 d~~ea~~~l~-el~~~-~~~~~vv~~~l~~~le~~~-----~~r~~~~~Ll~~L~~~~~~~~~~ 73 (113)
T PF02847_consen 17 DVDEAVECLK-ELKLP-SQHHEVVKVILECALEEKK-----SYREYYSKLLSHLCKRKLISKEQ 73 (113)
T ss_dssp -HHHHHHHHH-HTT-G-GGHHHHHHHHHHHHHTSSH-----HHHHHHHHHHHHHHHTTSS-HHH
T ss_pred CHHHHHHHHH-HhCCC-ccHHHHHHHHHHHHhhccH-----HHHHHHHHHHHHHHhcCCCCHHH
Confidence 3455665543 34556 5666666666666555554 33578999999999999988754
No 9
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.87 E-value=97 Score=32.63 Aligned_cols=91 Identities=19% Similarity=0.367 Sum_probs=54.7
Q ss_pred CHHHHHHHHHHHhcCcccccccCCCCCChHHHHHhCHHHHHHH------HHHhcCCC--C---hhHHHH-----------
Q 014596 273 LPAQYEQVVVELANDPKLVYHCGLTPRKLPELVENNPLIAVDV------LTKLINSP--E---ISEYYT----------- 330 (422)
Q Consensus 273 t~~eqq~Ll~~L~~D~~lv~~~glt~~~Lp~LVEnNP~IA~e~------L~kL~~s~--~---~~~yld----------- 330 (422)
+..+-++|.+.+..+|.++ +.-|..|-+.||.++.-+ ++.+++.+ . -.+..+
T Consensus 253 ~~pqf~~lR~~vq~NP~~L------~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~~~~~~~~~~~~~~~~~~~~~~~~~ 326 (378)
T TIGR00601 253 NQPQFQQLRQVVQQNPQLL------PPLLQQIGQENPQLLQQISQHPEQFLQMLNEPVGELAGESDMEGGVGAIAEAGLP 326 (378)
T ss_pred cCHHHHHHHHHHHHCHHHH------HHHHHHHHhhCHHHHHHHHHCHHHHHHHhcCcccccccccccccccccccccCcc
Confidence 4577777888888888766 334555555555555422 22333322 1 001110
Q ss_pred HHhhCCCChhHHHHHHHHHhccCCcHHHHHHHHHhhhhhccccc
Q 014596 331 VLVNMDMSLHSMEVVNRLTTAVELPKEFVRMYITNCISSCQNIK 374 (422)
Q Consensus 331 ~Lv~m~~Sl~smEvVnrL~t~~~lP~eFi~~YI~ncI~~Ce~ik 374 (422)
....+.+|..-+|.|.||..-.--....|+.|+- |+...
T Consensus 327 ~~~~i~lT~eE~~AIeRL~~LGF~r~~viqaY~A-----CdKNE 365 (378)
T TIGR00601 327 QMNQIQVTPEEKEAIERLCALGFDRGLVIQAYFA-----CDKNE 365 (378)
T ss_pred cccccccCHHHHHHHHHHHHcCCCHHHHHHHHHh-----cCCcH
Confidence 0124789999999999988765555668899985 66543
No 10
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=31.64 E-value=1.6e+02 Score=24.41 Aligned_cols=79 Identities=18% Similarity=0.294 Sum_probs=54.1
Q ss_pred hCHHHHHHHHHHhcCC-CChhHHHHHHhhCCCChhHHHHHHHHHhccCCcHHHHHHHHHhhhhhccccc-hhhhccccch
Q 014596 307 NNPLIAVDVLTKLINS-PEISEYYTVLVNMDMSLHSMEVVNRLTTAVELPKEFVRMYITNCISSCQNIK-DKYMQNRLVR 384 (422)
Q Consensus 307 nNP~IA~e~L~kL~~s-~~~~~yld~Lv~m~~Sl~smEvVnrL~t~~~lP~eFi~~YI~ncI~~Ce~ik-Dk~~q~R~VR 384 (422)
..+.++..++...+.. +...+|+. .++.+|.+.-.++++-+..=...=+.+++++. |.. +..+
T Consensus 33 ~~~~vv~~~l~~~le~~~~~r~~~~------------~Ll~~L~~~~~~~~~~~~~gf~~~l~~l~Dl~~D~P---~~~~ 97 (113)
T PF02847_consen 33 QHHEVVKVILECALEEKKSYREYYS------------KLLSHLCKRKLISKEQFQEGFEDLLESLEDLELDIP---KAPE 97 (113)
T ss_dssp GHHHHHHHHHHHHHTSSHHHHHHHH------------HHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHST---THHH
T ss_pred cHHHHHHHHHHHHhhccHHHHHHHH------------HHHHHHHhcCCCCHHHHHHHHHHHHhHhhhccccch---HHHH
Confidence 3455666666665554 33444433 56778887777777766666667888888876 533 6789
Q ss_pred hhHHHHHHHHHhcccc
Q 014596 385 LVCVFLQSLIRNRIID 400 (422)
Q Consensus 385 LVCvFlqsLIrnkii~ 400 (422)
.++.|+..+|..|++.
T Consensus 98 ~la~~~~~~i~~~~lp 113 (113)
T PF02847_consen 98 YLAKFLARLIADGILP 113 (113)
T ss_dssp HHHHHHHHHHHTTSS-
T ss_pred HHHHHHHHHHHcCCcC
Confidence 9999999999999873
No 11
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=28.42 E-value=47 Score=27.30 Aligned_cols=48 Identities=15% Similarity=0.187 Sum_probs=41.2
Q ss_pred CCCCHHHHHHHHHHHhcCc-ccccccCCCCCChHHHHHhCHHHHHHHHH
Q 014596 270 GPLLPAQYEQVVVELANDP-KLVYHCGLTPRKLPELVENNPLIAVDVLT 317 (422)
Q Consensus 270 ~~Lt~~eqq~Ll~~L~~D~-~lv~~~glt~~~Lp~LVEnNP~IA~e~L~ 317 (422)
.++|..|.+.+-..+-.|. +|.++.|++...+..+-..|+.+...+..
T Consensus 3 ~~~t~~~l~~ia~~iG~~Wk~Lar~LGls~~dI~~i~~~~~~~~eq~~~ 51 (86)
T cd08318 3 KPVTGEQITVFANKLGEDWKTLAPHLEMKDKEIRAIESDSEDIKMQAKQ 51 (86)
T ss_pred CCCCHHHHHHHHHHHhhhHHHHHHHcCCCHHHHHHHHhcCCCHHHHHHH
Confidence 5899999999999999998 69999999999999988888887555543
No 12
>TIGR00207 fliG flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family.
Probab=27.65 E-value=2.7e+02 Score=28.67 Aligned_cols=123 Identities=16% Similarity=0.257 Sum_probs=79.6
Q ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHhcCc----ccccccCCCCCChHHHHHh-CHHHHHHHHHHhcCCCChhHHHHHHh
Q 014596 259 AVRDLIAKALKGPLLPAQYEQVVVELANDP----KLVYHCGLTPRKLPELVEN-NPLIAVDVLTKLINSPEISEYYTVLV 333 (422)
Q Consensus 259 ~~r~L~~kA~~~~Lt~~eqq~Ll~~L~~D~----~lv~~~glt~~~Lp~LVEn-NP~IA~e~L~kL~~s~~~~~yld~Lv 333 (422)
.+++++.+|+ .+.+.+.+++.+..+. .+-+--++.|+.|-.++.+ .|+++.-+|..| .+....+.+ .
T Consensus 81 ~~~~~L~~al----g~~~a~~il~~i~~~~~~~~~~~~L~~~~~~~la~~l~~EhPQ~iAliLs~L-~p~~AA~VL---~ 152 (338)
T TIGR00207 81 YAREVLEKAL----GEEKAASILNDLTSSLQTAPGFEFLRKAEPQQIADFIQQEHPQTIALILSHL-DPAQAADIL---S 152 (338)
T ss_pred HHHHHHHHhc----CHHHHHHHHHHHhcccccCchhHHHHCCCHHHHHHHHHccCHHHHHHHHHcC-CHHHHHHHH---H
Confidence 4577766654 5777778888876652 1333347888888888776 788888887664 444444433 3
Q ss_pred hCCCChhHHHHHHHHHhccCCcHHHHHH---HHHhhhhhccccchhhhccccchhhHHHHHHH
Q 014596 334 NMDMSLHSMEVVNRLTTAVELPKEFVRM---YITNCISSCQNIKDKYMQNRLVRLVCVFLQSL 393 (422)
Q Consensus 334 ~m~~Sl~smEvVnrL~t~~~lP~eFi~~---YI~ncI~~Ce~ikDk~~q~R~VRLVCvFlqsL 393 (422)
.+|- -.--||+.|+.+--.++++.+.. .+..|+..+.+ + +.....++.+.-.+..+
T Consensus 153 ~Lp~-~~~~ei~~ria~l~~vs~~~i~~ie~~L~~~~~~~~~-~--~~~~gG~~~~a~ILN~~ 211 (338)
T TIGR00207 153 LFPE-EVQAEVARRIATMGRTSPEVVAEVERVLEGKLDSLNS-D--YTKMGGVRAVAEIINLM 211 (338)
T ss_pred hCCH-HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhhcc-c--cccCChHHHHHHHHHhC
Confidence 3443 24568999999988898887777 78888877654 1 22234555555554443
No 13
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=26.17 E-value=56 Score=27.00 Aligned_cols=36 Identities=22% Similarity=0.456 Sum_probs=31.3
Q ss_pred HHHHHhh--ccCCCcHHHHHHHHHhhCCCCCchhhhhH
Q 014596 8 GRVFEML--KSQEKPVEEIVSDLISTFPRHRHFVLCTT 43 (422)
Q Consensus 8 ~~Ll~ll--se~~~tLEsi~~~f~~~F~~~~~f~v~~~ 43 (422)
-.+|.++ ++..-|-+++.++...+|+.+-+|.-|++
T Consensus 7 HeVL~mmi~~~~~~t~~~L~~ai~~~FG~~arFhTCSa 44 (78)
T PF10678_consen 7 HEVLNMMIESGNPYTKEELKAAIIEKFGEDARFHTCSA 44 (78)
T ss_pred HHHHHHHHHcCCCcCHHHHHHHHHHHhCCCceEEecCC
Confidence 3577888 77789999999999999999999988764
No 14
>PF07637 PSD5: Protein of unknown function (DUF1595); InterPro: IPR013043 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013042 from INTERPRO.
Probab=26.10 E-value=94 Score=24.15 Aligned_cols=29 Identities=14% Similarity=0.321 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHhc
Q 014596 258 AAVRDLIAKALKGPLLPAQYEQVVVELAN 286 (422)
Q Consensus 258 ~~~r~L~~kA~~~~Lt~~eqq~Ll~~L~~ 286 (422)
.-++++..+|+++|++..|.+.++....+
T Consensus 5 ~~l~~Fa~rAfRRp~~~~e~~~~~~~~~~ 33 (64)
T PF07637_consen 5 EILRRFARRAFRRPLTDEEVDRYLALYDS 33 (64)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence 45788899999999999999998876543
No 15
>TIGR03882 cyclo_dehyd_2 bacteriocin biosynthesis cyclodehydratase domain. This model describes a ThiF-like domain of a fusion protein found in clusters associated with the production of TOMMs (thiazole/oxazole-modified microcins), small bacteriocins with characteristic heterocycle modifications. This domain is presumed to act as a cyclodehydratase, as do members of the SagC family modeled by TIGR03603.
Probab=25.48 E-value=91 Score=29.42 Aligned_cols=49 Identities=20% Similarity=0.282 Sum_probs=39.4
Q ss_pred CCChHHHHHHHHhhccCCCcHHHHHHHHHhhCCCCCchhhhhHHHHHhcCCcc
Q 014596 1 MLSQEESGRVFEMLKSQEKPVEEIVSDLISTFPRHRHFVLCTTLSLLLQDKKA 53 (422)
Q Consensus 1 ml~~~e~~~Ll~llse~~~tLEsi~~~f~~~F~~~~~f~v~~~L~~LL~d~~l 53 (422)
||+.+-...|+.+| +..+|+++|..++...|+..+ +..+|-.|.+.+.+
T Consensus 26 ~l~~~~~~~L~~lL-dG~rt~~eI~~~l~~~~p~~~---v~~~L~~L~~~G~l 74 (193)
T TIGR03882 26 ALSGALYCQLAPLL-DGRRTLDEIIAALAGRFPAEE---VLYALDRLERRGYL 74 (193)
T ss_pred EEcchhHHHHHHHH-cCCCCHHHHHHHhhccCCHHH---HHHHHHHHHHCCCE
Confidence 46677788999999 558999999999999887444 77888888888843
No 16
>PF13490 zf-HC2: Putative zinc-finger; PDB: 2Z2S_F 2Q1Z_B 3HUG_T.
Probab=24.49 E-value=1.2e+02 Score=20.25 Aligned_cols=28 Identities=32% Similarity=0.540 Sum_probs=21.9
Q ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHhc
Q 014596 259 AVRDLIAKALKGPLLPAQYEQVVVELAN 286 (422)
Q Consensus 259 ~~r~L~~kA~~~~Lt~~eqq~Ll~~L~~ 286 (422)
+++++|..-..+.|++.+..++-..|..
T Consensus 3 ~~~~~l~~y~dg~L~~~~~~~~~~HL~~ 30 (36)
T PF13490_consen 3 EVRELLSAYLDGELSPEERARLEAHLAS 30 (36)
T ss_dssp --HHHHHHHHCT-S-HHHHHHHHHHHCT
T ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHHc
Confidence 5889999999999999999999888754
No 17
>PF09030 Creb_binding: Creb binding; InterPro: IPR014744 This entry represents the interlocking domain of the eukaryotic nuclear receptor coactivators CREBP and p300. The interlocking domain forms a 3-helical non-globular array that forms interlocked heterodimers with its target. Nuclear receptors are ligand-activated transcription factors involved in the regulation of many processes, including development, reproduction and homeostasis. Nuclear receptor coactivators act to modulate the function of nuclear receptors. Coactivators associate with promoters and enhancers primarily through protein-protein contacts to facilitate the interaction between DNA-bound transcription factors and the transcription machinery. Many of these coactivators are structurally related, including CBP (CREB-binding protein) and p300 []. CBP and p300 both have histone acetyltransferase activity (2.3.1.48 from EC). CBP/p300 proteins function synergistically to activate transcription, acting to remodel chromatin and to recruit RNA polymerase II and the basal transcription machinery. CBP is required for proper cell cycle control, differentiation and apoptosis. The interaction of CBP/p300 with transcription factors involves several small domains. The IBiD domain in the C-terminal of CBP is responsible for CBP interaction with IRF-3, as well as with the adenoviral oncoprotein E1A, TIF-2 coactivator, and the IRF homologue KSHV IRF-1 []. ; GO: 0003713 transcription coactivator activity, 0004402 histone acetyltransferase activity, 0006355 regulation of transcription, DNA-dependent, 0016573 histone acetylation, 0000123 histone acetyltransferase complex, 0005634 nucleus; PDB: 2KKJ_A 2C52_A 1JJS_A 2L14_A 1KBH_B 1ZOQ_C.
Probab=22.31 E-value=62 Score=28.13 Aligned_cols=32 Identities=38% Similarity=0.607 Sum_probs=25.0
Q ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHhcCcccc
Q 014596 259 AVRDLIAKALKGPLLPAQYEQVVVELANDPKLV 291 (422)
Q Consensus 259 ~~r~L~~kA~~~~Lt~~eqq~Ll~~L~~D~~lv 291 (422)
+..+| -+.+|++=|+.+++++|..|+++|.|.
T Consensus 55 ALQ~L-LrTLkSPsSP~QQQQVLnILkSNPqLM 86 (104)
T PF09030_consen 55 ALQQL-LRTLKSPSSPQQQQQVLNILKSNPQLM 86 (104)
T ss_dssp HHHHH-HHCHCSSSSCHHHHHHHHHHHTSHHHH
T ss_pred HHHHH-HHHhcCCCCHHHHHHHHHHHhhCHHHH
Confidence 35555 467999999999999998887777554
No 18
>PF14483 Cut8_M: Cut8 dimerisation domain; PDB: 3Q5W_A 3Q5X_A.
Probab=21.58 E-value=1.6e+02 Score=20.96 Aligned_cols=14 Identities=29% Similarity=0.477 Sum_probs=12.6
Q ss_pred HHHHhCHHHHHHHH
Q 014596 303 ELVENNPLIAVDVL 316 (422)
Q Consensus 303 ~LVEnNP~IA~e~L 316 (422)
++|+.+|.|+.++.
T Consensus 21 ~l~~~HPei~~~i~ 34 (38)
T PF14483_consen 21 SLCERHPEIQQEIR 34 (38)
T ss_dssp HHHHHSTHHHHHHH
T ss_pred HHHHhChhHHHHHH
Confidence 78999999999986
No 19
>PF13929 mRNA_stabil: mRNA stabilisation
Probab=21.54 E-value=4.5e+02 Score=26.91 Aligned_cols=101 Identities=18% Similarity=0.243 Sum_probs=63.2
Q ss_pred HHHHHHcCCCCHHHHHHHHHHHhcCcccccccCCCCCChHHHHHhCHHHHHHHHHHhcC--CCC---------hhHHHHH
Q 014596 263 LIAKALKGPLLPAQYEQVVVELANDPKLVYHCGLTPRKLPELVENNPLIAVDVLTKLIN--SPE---------ISEYYTV 331 (422)
Q Consensus 263 L~~kA~~~~Lt~~eqq~Ll~~L~~D~~lv~~~glt~~~Lp~LVEnNP~IA~e~L~kL~~--s~~---------~~~yld~ 331 (422)
+++++.-++|+..|.-.+++.+......-. ..+.-+||+.|-.|...+ +|+. .++ +.-.+..
T Consensus 101 ~lK~s~g~~Lt~~Dli~FL~~~i~~~~~~k-----~~~Y~~LVk~N~~Vv~aL--~L~~~~~~~~~Ii~d~evislLL~s 173 (292)
T PF13929_consen 101 LLKKSMGCELTKEDLISFLKLVIINLSSNK-----SFNYWDLVKRNKIVVEAL--KLYDGLNPDESIIFDEEVISLLLKS 173 (292)
T ss_pred HHHHHcCCCCcHHHHHHHHHHHHhcccccc-----chHHHHHHHhhHHHHHHH--HHhhccCcccceeeChHHHHHHHHH
Confidence 578999999999999888887544432221 122679999998887655 6655 222 2334444
Q ss_pred Hhh-CCCChhHH-HHHHHHHhc--cCCcHHHHHHHHHhhhhhccccc
Q 014596 332 LVN-MDMSLHSM-EVVNRLTTA--VELPKEFVRMYITNCISSCQNIK 374 (422)
Q Consensus 332 Lv~-m~~Sl~sm-EvVnrL~t~--~~lP~eFi~~YI~ncI~~Ce~ik 374 (422)
++. -...+|++ |||+-|+.+ ..++...+ ..||...-+.+
T Consensus 174 Mv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi----~~Il~~L~~~~ 216 (292)
T PF13929_consen 174 MVIDENTKLNALYEVVDFLVSTFSKSLTRNVI----ISILEILAESR 216 (292)
T ss_pred HHhccccchhhHHHHHHHHHhccccCCChhHH----HHHHHHHHhcc
Confidence 544 33356654 999999987 55665433 33444444444
No 20
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=21.05 E-value=1.2e+02 Score=25.33 Aligned_cols=22 Identities=18% Similarity=0.327 Sum_probs=18.1
Q ss_pred ccchhhHHHHHHHHHhcccccc
Q 014596 381 RLVRLVCVFLQSLIRNRIIDGE 402 (422)
Q Consensus 381 R~VRLVCvFlqsLIrnkii~v~ 402 (422)
+...+++.+++.|.+.|.++..
T Consensus 51 ~~~~~~~~Ll~~L~~~~~~~~~ 72 (113)
T smart00544 51 TYREMYSVLLSRLCQANVISTK 72 (113)
T ss_pred cHHHHHHHHHHHHHHcCCcCHH
Confidence 4467899999999999988764
Done!