Query 040625
Match_columns 395
No_of_seqs 192 out of 241
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 10:12:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040625.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040625hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2560 RNA splicing factor - 100.0 2E-130 3E-135 987.0 15.4 371 1-394 118-529 (529)
2 PF11708 Slu7: Pre-mRNA splici 100.0 8.7E-78 1.9E-82 572.6 15.9 211 37-280 1-239 (239)
3 PF09736 Bud13: Pre-mRNA-splic 87.1 0.67 1.4E-05 42.0 3.6 27 368-394 65-91 (145)
4 KOG2654 Uncharacterized conser 63.4 7.3 0.00016 41.2 3.5 24 371-394 368-391 (461)
5 PF00098 zf-CCHC: Zinc knuckle 61.5 5.6 0.00012 24.1 1.4 13 1-13 6-18 (18)
6 COG2947 Uncharacterized conser 51.5 7.3 0.00016 35.9 1.1 12 153-164 77-88 (156)
7 PF10429 Mtr2: Nuclear pore RN 48.5 8.2 0.00018 36.2 0.9 12 271-282 116-127 (166)
8 smart00107 BTK Bruton's tyrosi 39.8 14 0.00031 26.3 0.9 25 272-302 7-32 (36)
9 PF09524 Phg_2220_C: Conserved 37.0 13 0.00029 30.4 0.4 18 44-61 25-43 (74)
10 TIGR02220 phg_TIGR02220 phage 35.4 15 0.00032 30.3 0.4 17 44-60 28-45 (77)
11 PF00779 BTK: BTK motif; Inte 35.3 19 0.0004 25.1 0.8 20 281-302 7-27 (32)
12 COG5082 AIR1 Arginine methyltr 22.7 50 0.0011 31.7 1.6 20 1-22 103-122 (190)
13 PRK14127 cell division protein 20.2 2E+02 0.0043 25.3 4.7 26 47-72 20-49 (109)
No 1
>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]
Probab=100.00 E-value=1.6e-130 Score=987.03 Aligned_cols=371 Identities=57% Similarity=0.946 Sum_probs=327.9
Q ss_pred CCCCCCCcccccccccccccccccCccCCCceeec-cccccccccCcCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040625 1 CGAMTHNAKSCMERPRKIGAKWTNMHIAPDEKIES-FELDYDGKRDRWNGFDPATYALVIERYEARDEARRKYLKEQQLK 79 (395)
Q Consensus 1 CGAmTHk~KDClERPRK~GAk~Tg~dI~~De~iq~-~~ldyDaKRDRWnGYD~~ey~~Vveeye~~e~~r~~~~~~~~~~ 79 (395)
||||||+.|||||||||+||+|||.+|++||+||+ +++|||+||||||||||++|++||++|+++++++.+-.++++++
T Consensus 118 CGAmtHk~KDCmERPRK~gAk~t~~Nia~De~iq~~~~~dyD~KRDRWnGYdps~y~~vIe~yEk~eeak~K~l~~~q~~ 197 (529)
T KOG2560|consen 118 CGAMTHKVKDCMERPRKVGAKYTDLNIAPDEKIQSVLELDYDGKRDRWNGYDPSEYKEVIERYEKLEEAKIKGLKEQQKN 197 (529)
T ss_pred hhhhhcchHHHhhcchhhcccCCCcccCcccccccccccccccccccccCCChHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 99999999999999999999999999999999999 89999999999999999999999999999999995543333321
Q ss_pred HHHhhhhccCCCCCCCCCCCchhhhhhhhhhhhhhhcchhhhhhhhhcccCCCCCCcccccccccchHHHhhcCCCCCCc
Q 040625 80 KLEEKNSKQNGEGGVSEEDDDEDALKVDEAKVDESKQMDFAKVEKRVRTTGGGSTGTVRNLRIREDTAKYLLNLDVNSAY 159 (395)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~d~~~~d~de~Ky~e~~dm~~~k~D~k~r~~~~~~~~tvRnLRIREDtAKYL~NLD~nSA~ 159 (395)
++.. ..+.+++.++.|++.|+|.++|.+. +|..+++++.|||||||||||||||+|||+||||
T Consensus 198 ----------~d~~--~~d~eE~~~~~dee~y~D~a~~~k~-----v~~~d~~s~iTvrnLRiRED~AkYL~nld~Nsa~ 260 (529)
T KOG2560|consen 198 ----------GDEA--LWDTEEGIEDLDEELYADFADMLKT-----VRDTDDGSRITVRNLRIREDTAKYLRNLDVNSAY 260 (529)
T ss_pred ----------Cccc--ccccccccchhhHHhhhhhhccccc-----ccccCCCceeeeecceechhHHHHHHhcCCcccc
Confidence 1111 1122333445588999999988765 3445667777999999999999999999999999
Q ss_pred cCCCCcccccCCCCCCCCCCCccCCCCccccchhhHHHHHHh---------------------------hHHHHHHHHHH
Q 040625 160 YDPKTRSMREDPLPDADPNEKFYGGDNQNRLSGQALEFKQLN---------------------------NYNVIKEKLKS 212 (395)
Q Consensus 160 YDPKTRsMRdnp~~~~~~~~~~faGdnf~R~SGda~e~~~lQ---------------------------~f~~kke~~k~ 212 (395)
|||||||||++|+|+.++....|.|+||||+||++.+|.+|| .|+.+++.|+.
T Consensus 261 YDPKSRsMReep~~~~~~~e~~~~gdnfvr~SGe~~~~~qlq~FAweA~~kG~~~H~~A~Ptk~Ell~k~~k~kke~lK~ 340 (529)
T KOG2560|consen 261 YDPKSRSMREEPLPGKDPNEDEYSGDNFVRNSGEALEFNQLQMFAWEAFDKGVDVHMQADPTKLELLYKENKVKKETLKK 340 (529)
T ss_pred cCccccccccCCCCCCChhhhhhcccceeeccchhhhHHHHHHHHHHHhcccceeeeecCcHHHHHHHHHhHHHHHHHHH
Confidence 999999999999999999999999999999999999999999 88899999999
Q ss_pred HHHHHHHHHhCCCCCCCcchhhhhhcccchheeeccccccccCcccccccccchhhhccCCCceeeeccccCCccccccc
Q 040625 213 RLKDIIAEKYGNAASEEEIPRELLLGQSERQVEYDRAGRIIQGVESFLPRSKYEEDVYINNHTSVWGSWWKDHQWGYKCC 292 (395)
Q Consensus 213 ~~k~~ileKYGg~e~~~~~p~elll~qtE~yvEY~~~G~~ikg~~k~~~kSkY~EDv~~nnHTsVWGSy~~~~~WGY~CC 292 (395)
+++++||+||||.+|++.+|++|||+|||.||+|++.|.||||+++.+++|+|+||||+|||||||||||..|+|||+||
T Consensus 341 q~kq~il~kYG~~~~~d~~p~elll~qte~~iey~rkg~v~KG~e~~~~~S~yeedV~~~nht~vwgs~w~~~rwgykcc 420 (529)
T KOG2560|consen 341 QTKQEILDKYGGGEHKDLPPKELLLAQTEEYIEYSRKGKVIKGQEKIVPKSKYEEDVYINNHTSVWGSFWKEGRWGYKCC 420 (529)
T ss_pred HHHHHHHhhcCCccccccChHhhhccccHHHHHHhhccceecccccccccccchhheeccccchhhhhhhhccchhHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccccccchhhhhhhhcc-------------ccchHhhhhhccCCCCCCCcccchHHHHHHHHHHHHHhhhhhhhh
Q 040625 293 KQTIKNNLMKANVARKAASEDM-------------RAPAEEKNLATWGTDVPDNLNLDQKQLAEALRKEDERKKEEKDER 359 (395)
Q Consensus 293 ~s~~knsyCtg~~~g~~a~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~kl~~a~~~e~~~~~~~~d~r 359 (395)
||||+||||||.+ |++|+... ++.++++.+..|+...+.+.+++++.+..++..++ ..|+|
T Consensus 421 ~~f~~~syctg~~-g~e~~~~~~~~~~~~~~~~~~~~~~e~k~~~~~~~~~~~~~~~~~~~~~ss~~~~e-----~~d~r 494 (529)
T KOG2560|consen 421 HQFIKNSYCTGSA-GIEAVAEELSKASRKEASKEPPKKVEEKEMERWGERKPEDLDSNEESLPSSLSKEE-----EKDER 494 (529)
T ss_pred HHHHhhhcccCcc-chhHHhHHHhhhhhhhccCCChhhhHHhhhhcccccchhhhccccccccccccchh-----hhhhh
Confidence 9999999999999 99887521 12244556778887666666666666666666655 36999
Q ss_pred ccchhhcccCCCCHHHHHHHHhhhcCCCCchhhcc
Q 040625 360 KRKYNVRWNDEVTAEEMEAYRMKKIHHDDPMKDFL 394 (395)
Q Consensus 360 kR~yn~~~~~~vteeemEaYr~kr~~~dDPMa~~l 394 (395)
||+||+||...||+||||||||+|+|++|||++||
T Consensus 495 kr~yn~~y~~~~t~~emeayr~kr~~~~dpm~~f~ 529 (529)
T KOG2560|consen 495 KRKYNSMYSNAPTEEEMEAYRMKRVHHEDPMAAFM 529 (529)
T ss_pred cccccccccCCCCHHHHHHHHhcCCCccCchhhcC
Confidence 99999999779999999999999999999999997
No 2
>PF11708 Slu7: Pre-mRNA splicing Prp18-interacting factor; InterPro: IPR021715 The spliceosome, an assembly of snRNAs (U1, U2, U4/U6, and U5) and proteins, catalyses the excision of introns from pre-mRNAs in two successive trans-esterification reactions. Step 2 depends upon integral spliceosome constituents such as U5 snRNA and Prp8 and non-spliceosomal proteins Prp16, Slu7, Prp18, and Prp22. ATP hydrolysis by the DEAH-box enzyme Prp16 promotes a conformational change in the spliceosome that leads to protection of the 3'ss from targeted RNase H cleavage. This change, which probably reflects binding of the 3'ss PyAG in the catalytic centre of the spliceosome, requires the ordered recruitment of Slu7, Prp18, and Prp22 to the spliceosome. There is a close functional relationship between Prp8, Prp18, and Slu7, and Prp18 interacts with Slu7, so that together they recruit Prp22 to the spliceosome. Most members of the family carry a zinc-finger of the CCHC-type upstream of this domain.
Probab=100.00 E-value=8.7e-78 Score=572.58 Aligned_cols=211 Identities=56% Similarity=0.895 Sum_probs=189.8
Q ss_pred ccccccccCcCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCCCCCchhhhhhhhhhhhhhhc
Q 040625 37 ELDYDGKRDRWNGFDPATYALVIERYEARDEARRKYLKEQQLKKLEEKNSKQNGEGGVSEEDDDEDALKVDEAKVDESKQ 116 (395)
Q Consensus 37 ~ldyDaKRDRWnGYD~~ey~~Vveeye~~e~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~d~de~Ky~e~~d 116 (395)
+|+|||||||||||||++|++||++|+++++++++++.+++ .+...+++++++++++|.+..+
T Consensus 1 ~l~yDaKRDRWnGYd~~ey~~vve~~e~~e~~r~~~~~~~~-----------------~~~~~d~d~~~e~~~~~~~~~d 63 (239)
T PF11708_consen 1 ELDYDAKRDRWNGYDPEEYKEVVEEYEKIEEARKKLKAEKL-----------------EDDSDDEDEEDEDEELYLDEAD 63 (239)
T ss_pred CCCccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHhhhc-----------------ccccccchhhhhhhhcccchhh
Confidence 48999999999999999999999999999999998754332 1222344555666788999888
Q ss_pred chhhhhhhhhcccCCCCCCcccccccccchHHHhhcCCCCCCccCCCCcccccCCCCCCCCCCCccCCCCccccchhhHH
Q 040625 117 MDFAKVEKRVRTTGGGSTGTVRNLRIREDTAKYLLNLDVNSAYYDPKTRSMREDPLPDADPNEKFYGGDNQNRLSGQALE 196 (395)
Q Consensus 117 m~~~k~D~k~r~~~~~~~~tvRnLRIREDtAKYL~NLD~nSA~YDPKTRsMRdnp~~~~~~~~~~faGdnf~R~SGda~e 196 (395)
|+ +.++ ++++|+|||||||||||||+|||+|||||||||||||++|+ .++...+|+|+||||+|||+.+
T Consensus 64 ~~--~~~~-------k~~~t~rnLRiREDtAkYL~NLd~nsa~YDPKSRsmrd~p~--~~~~~~~~~gdnFvR~sGea~e 132 (239)
T PF11708_consen 64 MG--KKDS-------KTRITVRNLRIREDTAKYLLNLDSNSAYYDPKSRSMRDNPA--KDPGDVLFAGDNFVRLSGEAQE 132 (239)
T ss_pred cc--cccc-------ccccccccccccccHHHHHHhCCCCCccCCCCccccccCCC--CChhhccccccCceeccccHHH
Confidence 87 3443 44559999999999999999999999999999999999997 7788899999999999999999
Q ss_pred HHHHh----------------------------hHHHHHHHHHHHHHHHHHHHhCCCCCCCcchhhhhhcccchheeecc
Q 040625 197 FKQLN----------------------------NYNVIKEKLKSRLKDIIAEKYGNAASEEEIPRELLLGQSERQVEYDR 248 (395)
Q Consensus 197 ~~~lQ----------------------------~f~~kke~~k~~~k~~ileKYGg~e~~~~~p~elll~qtE~yvEY~~ 248 (395)
|++|| +|+++|++++.+.+++||+||||++|+..+|++++|+|||.||||++
T Consensus 133 ~~~lq~FAWea~~kg~~~~hl~AnPT~~E~l~k~~~~kk~~~~~~~k~~ll~kYGg~e~~~~~~~e~~~~qtE~yvey~~ 212 (239)
T PF11708_consen 133 FEKLQRFAWEAAKKGGLDVHLQANPTKAELLRKEFKEKKEELKEEKKQSLLEKYGGEEHLDKPPKELLLAQTERYVEYDR 212 (239)
T ss_pred HHHHHHHHHHHHhccCCceeeeeCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccCcchhhhcccccccccccc
Confidence 99999 88899999999999999999999999999999999999999999999
Q ss_pred ccccccCcccccccccchhhhccCCCceeeec
Q 040625 249 AGRIIQGVESFLPRSKYEEDVYINNHTSVWGS 280 (395)
Q Consensus 249 ~G~~ikg~~k~~~kSkY~EDv~~nnHTsVWGS 280 (395)
+ |.++++++|||+||||||||||||||
T Consensus 213 ~-----g~~~~~~kSkY~EDv~~~NHtsVWGS 239 (239)
T PF11708_consen 213 S-----GAEKAKAKSKYEEDVYINNHTSVWGS 239 (239)
T ss_pred c-----ccccccccccchhhhccCCCCeecCC
Confidence 9 78999999999999999999999998
No 3
>PF09736 Bud13: Pre-mRNA-splicing factor of RES complex; InterPro: IPR018609 Bud site selection protein 13, also known as pre-mRNA-splicing factor CWC26, belongs to the pre-mRNA retention and splicing (RES) complex. May also be involved in positioning the proximal bud pole signal [, , ]. The presence of RES subunit homologues in numerous eukaryotes suggests that its function is evolutionarily conserved [].
Probab=87.08 E-value=0.67 Score=42.04 Aligned_cols=27 Identities=26% Similarity=0.391 Sum_probs=24.2
Q ss_pred cCCCCHHHHHHHHhhhcCCCCchhhcc
Q 040625 368 NDEVTAEEMEAYRMKKIHHDDPMKDFL 394 (395)
Q Consensus 368 ~~~vteeemEaYr~kr~~~dDPMa~~l 394 (395)
....+.++|++-.+.+.+.+|||+.|+
T Consensus 65 aR~~dD~~~~~~lk~~~r~~DPm~~f~ 91 (145)
T PF09736_consen 65 ARYADDEDLNEELKEQERWDDPMAAFL 91 (145)
T ss_pred cchhhhHHHHHHHHhcccccCcHHHHh
Confidence 345789999999999999999999997
No 4
>KOG2654 consensus Uncharacterized conserved protein [Function unknown]
Probab=63.37 E-value=7.3 Score=41.24 Aligned_cols=24 Identities=21% Similarity=0.520 Sum_probs=19.7
Q ss_pred CCHHHHHHHHhhhcCCCCchhhcc
Q 040625 371 VTAEEMEAYRMKKIHHDDPMKDFL 394 (395)
Q Consensus 371 vteeemEaYr~kr~~~dDPMa~~l 394 (395)
...++|..--.-|.++.||||+||
T Consensus 368 ~dD~elnq~lkE~~r~~DPma~fi 391 (461)
T KOG2654|consen 368 ADDPELNQMLKERLRAGDPMANFI 391 (461)
T ss_pred cCCHHHHHHHHHhhhccChHHHHH
Confidence 445777777777899999999997
No 5
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=61.45 E-value=5.6 Score=24.07 Aligned_cols=13 Identities=38% Similarity=0.863 Sum_probs=11.7
Q ss_pred CCCCCCCcccccc
Q 040625 1 CGAMTHNAKSCME 13 (395)
Q Consensus 1 CGAmTHk~KDClE 13 (395)
||.++|..++|.+
T Consensus 6 C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 6 CGEPGHIARDCPK 18 (18)
T ss_dssp TSCSSSCGCTSSS
T ss_pred CCCcCcccccCcc
Confidence 9999999999963
No 6
>COG2947 Uncharacterized conserved protein [Function unknown]
Probab=51.50 E-value=7.3 Score=35.95 Aligned_cols=12 Identities=58% Similarity=1.077 Sum_probs=11.0
Q ss_pred CCCCCCccCCCC
Q 040625 153 LDVNSAYYDPKT 164 (395)
Q Consensus 153 LD~nSA~YDPKT 164 (395)
.||+|-|||||+
T Consensus 77 ~d~~spYyDPka 88 (156)
T COG2947 77 FDPASPYYDPKA 88 (156)
T ss_pred cCCCCcccCccc
Confidence 799999999996
No 7
>PF10429 Mtr2: Nuclear pore RNA shuttling protein Mtr2; InterPro: IPR019488 Mtr2 is a monomeric, dual-action, RNA-shuttle protein found in yeasts. Transport across the nuclear-cytoplasmic membrane is via the macro-molecular membrane-spanning nuclear pore complex, NPC. The pore is lined by a subset of NPC members called nucleoporins that present FG (Phe-Gly) receptors, characteristically GLFG and FXFG motifs, for shuttling RNAs and proteins. RNA cargo is bound to soluble transport proteins (nuclear export factors) such as Mex67 in yeasts, and TAP in metazoa, which pass along the pore by binding to successive FG receptors. Mtr2 when bound to Mex67 maximises this FG-binding. Mtr2 also acts independently of Mex67 in transporting the large ribosomal RNA subunit through the pore []. ; PDB: 1Q40_A 1Q42_A 1OF5_B.
Probab=48.52 E-value=8.2 Score=36.17 Aligned_cols=12 Identities=33% Similarity=0.969 Sum_probs=1.9
Q ss_pred cCCCceeeeccc
Q 040625 271 INNHTSVWGSWW 282 (395)
Q Consensus 271 ~nnHTsVWGSy~ 282 (395)
..++-.||||||
T Consensus 116 ~~~~Rp~wgs~f 127 (166)
T PF10429_consen 116 STNTRPLWGSYF 127 (166)
T ss_dssp -------B---E
T ss_pred CCCCCCCccccc
Confidence 356778999999
No 8
>smart00107 BTK Bruton's tyrosine kinase Cys-rich motif. Zinc-binding motif containing conserved cysteines and a histidine. Always found C-terminal to PH domains (but not all PH domains are followed by BTK motifs). The crystal structure shows this motif packs against the PH domain. The PH+Btk module pair has been called the Tec homology (TH) region.
Probab=39.79 E-value=14 Score=26.28 Aligned_cols=25 Identities=40% Similarity=0.862 Sum_probs=17.8
Q ss_pred CCCceeeeccccCCcccccccccccccc-ccc
Q 040625 272 NNHTSVWGSWWKDHQWGYKCCKQTIKNN-LMK 302 (395)
Q Consensus 272 nnHTsVWGSy~~~~~WGY~CC~s~~kns-yCt 302 (395)
.-|.++| .+|+| -||+++.++. =|+
T Consensus 7 ~yHP~~~----~~G~W--~CC~q~~k~a~GC~ 32 (36)
T smart00107 7 KYHPSFW----VDGKW--LCCQQSEKNAPGCT 32 (36)
T ss_pred ccCCCce----eCCeE--ccCCCcCcCCCCCc
Confidence 3466555 67776 6999999987 354
No 9
>PF09524 Phg_2220_C: Conserved phage C-terminus (Phg_2220_C); InterPro: IPR011741 This entry is represented by the C-terminal domain of Bacteriophage r1t, Orf11. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents the conserved C-terminal domain of a family of proteins found exclusively in bacteriophage and in bacterial prophage regions. The functions of this domain and the proteins containing it are unknown.
Probab=37.03 E-value=13 Score=30.36 Aligned_cols=18 Identities=28% Similarity=0.604 Sum_probs=15.9
Q ss_pred cCcCC-CCChhhHHHHHHH
Q 040625 44 RDRWN-GFDPATYALVIER 61 (395)
Q Consensus 44 RDRWn-GYD~~ey~~Vvee 61 (395)
|.||+ ||.+++.+.||+.
T Consensus 25 ~aRl~eG~t~edf~~VID~ 43 (74)
T PF09524_consen 25 KARLNEGYTLEDFKKVIDN 43 (74)
T ss_pred HHHHHCCCCHHHHHHHHHH
Confidence 57999 9999999999874
No 10
>TIGR02220 phg_TIGR02220 phage conserved hypothetical protein, C-terminal domain. This model represents the conserved C-terminal domain of a family of proteins found exclusively in bacteriophage and in bacterial prophage regions. The functions of this domain and the proteins containing it are unknown.
Probab=35.44 E-value=15 Score=30.33 Aligned_cols=17 Identities=35% Similarity=0.925 Sum_probs=15.6
Q ss_pred cCcCC-CCChhhHHHHHH
Q 040625 44 RDRWN-GFDPATYALVIE 60 (395)
Q Consensus 44 RDRWn-GYD~~ey~~Vve 60 (395)
|.||+ ||..++++.||+
T Consensus 28 ~aR~~eg~~~~dfk~VId 45 (77)
T TIGR02220 28 KARWNEGYTLEDFKKVID 45 (77)
T ss_pred HHHHHcCCCHHHHHHHHH
Confidence 78999 999999999995
No 11
>PF00779 BTK: BTK motif; InterPro: IPR001562 The Btk-type zinc finger or Btk motif (BM) is a conserved zinc-binding motif containing conserved cysteines and a histidine that is present in certain eukaryotic signalling proteins. The motif is named after Bruton's tyrosine kinase (Btk), an enzyme which is essential for B cell maturation in humans and mice [, ]. Btk is a member of the Tec family of protein tyrosine kinases (PTK). These kinases contain a conserved Tec homology (TH) domain between the N-terminal pleckstrin homology (PH) domain (IPR001849 from INTERPRO) and the Src homology 3 (SH3) domain (IPR001452 from INTERPRO). The N-terminal of the TH domain is highly conserved and known as the Btf motif, while the C-terminal region of the TH domain contains a proline-rich region (PRR). The Btk motif contains a conserved His and three Cys residues that form a zinc finger (although these differ from known zinc finger topologies), while PRRs are commonly involved in protein-protein interactions, including interactions with G proteins [, ]. The TH domain may be of functional importance in various signalling pathways in different species []. A complete TH domain, containing both the Btk and PRR regions, has not been found outside the Tec family; however, the Btk motif on its own does occur in other proteins, usually C-terminal to a PH domain (note that although a Btk motif always occurs C-terminal to a PH domain, not all PH domains are followed by a Btk motif). The crystal structures of Btk show that the Btk-type zinc finger has a globular core, formed by a long loop which is held together by a zinc ion, and that the Btk motif is packed against the PH domain []. The zinc-binding residues are a histidine and three cysteines, which are fully conserved in the Btk motif []. Proteins known to contain a Btk-type zinc finger include: Mammalian Bruton's tyrosine kinase (Btk), a protein tyrosine kinase involved in modulation of diverse cellular processes. Mutations affecting Btk are the cause of X-linked agammaglobulinemia (XLA) in humans and X-linked immunodeficiency in mice. Mammalian Tec, Bmx, and Itk proteins, which are tyrosine protein kinases of the Tec subfamily. Drosophila tyrosine-protein kinase Btk29A, which is required for the development of proper ring canals and of male genitalia and required for adult survival. Mammalian Ras GTPase-activating proteins (RasGAP), which regulate the activation of inactive GDP-bound Ras by converting GDP to GTP. ; GO: 0035556 intracellular signal transduction; PDB: 2E6I_A 2YS2_A 2Z0P_A 1B55_A 1BTK_B 1BWN_A.
Probab=35.32 E-value=19 Score=25.09 Aligned_cols=20 Identities=40% Similarity=0.886 Sum_probs=13.1
Q ss_pred cccCCcccccccccccccc-ccc
Q 040625 281 WWKDHQWGYKCCKQTIKNN-LMK 302 (395)
Q Consensus 281 y~~~~~WGY~CC~s~~kns-yCt 302 (395)
.|.+|+| -||+++.|++ =|+
T Consensus 7 ~~~~g~W--~CC~q~~k~a~GC~ 27 (32)
T PF00779_consen 7 AWRGGKW--LCCKQTDKSAPGCQ 27 (32)
T ss_dssp -EETTCE--SSSS-SSTTS--SE
T ss_pred cccCCcC--cCCCCcCcCCCCCc
Confidence 3457877 6999999986 354
No 12
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=22.67 E-value=50 Score=31.69 Aligned_cols=20 Identities=35% Similarity=0.642 Sum_probs=16.2
Q ss_pred CCCCCCCccccccccccccccc
Q 040625 1 CGAMTHNAKSCMERPRKIGAKW 22 (395)
Q Consensus 1 CGAmTHk~KDClERPRK~GAk~ 22 (395)
||..+|-..||. |++.+-+.
T Consensus 103 Cg~~GH~~~dC~--P~~~~~~~ 122 (190)
T COG5082 103 CGETGHLSRDCN--PSKDQQKS 122 (190)
T ss_pred ccccCccccccC--cccccCcc
Confidence 999999999999 66655443
No 13
>PRK14127 cell division protein GpsB; Provisional
Probab=20.21 E-value=2e+02 Score=25.25 Aligned_cols=26 Identities=27% Similarity=0.385 Sum_probs=18.3
Q ss_pred CCCCChhhH----HHHHHHHHHHHHHHHHH
Q 040625 47 WNGFDPATY----ALVIERYEARDEARRKY 72 (395)
Q Consensus 47 WnGYD~~ey----~~Vveeye~~e~~r~~~ 72 (395)
+-|||+++= ..|++.|+.+......+
T Consensus 20 ~RGYd~~EVD~FLd~V~~dye~l~~e~~~L 49 (109)
T PRK14127 20 MRGYDQDEVDKFLDDVIKDYEAFQKEIEEL 49 (109)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 359999864 47888898876554444
Done!