Query psy11553
Match_columns 146
No_of_seqs 134 out of 1034
Neff 8.2
Searched_HMMs 46136
Date Fri Aug 16 21:27:57 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11553.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11553hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00147 RasGEF Guanine nucl 100.0 3.1E-42 6.7E-47 262.2 13.5 145 1-145 24-170 (242)
2 cd00155 RasGEF Guanine nucleot 100.0 5E-42 1.1E-46 260.1 13.1 145 1-145 24-171 (237)
3 PF00617 RasGEF: RasGEF domain 100.0 1.2E-41 2.7E-46 249.1 8.7 145 1-145 23-169 (188)
4 KOG3542|consensus 100.0 8.4E-30 1.8E-34 211.5 9.9 144 1-145 887-1032(1283)
5 KOG2378|consensus 100.0 1.1E-28 2.3E-33 197.0 9.7 145 1-145 356-501 (573)
6 KOG3629|consensus 99.9 2.1E-27 4.5E-32 192.7 8.0 144 2-145 235-403 (728)
7 KOG3541|consensus 99.9 1.3E-22 2.8E-27 160.6 8.4 123 20-145 260-393 (477)
8 KOG3417|consensus 99.8 2.4E-21 5.2E-26 169.2 8.0 144 1-144 235-380 (840)
9 KOG3417|consensus 99.4 2.7E-13 6E-18 118.9 6.5 137 4-146 627-766 (840)
10 PF03745 DUF309: Domain of unk 77.2 8.4 0.00018 23.1 4.6 55 22-76 2-61 (62)
11 KOG3541|consensus 72.0 3.1 6.7E-05 34.4 2.2 75 22-98 385-462 (477)
12 PRK13130 H/ACA RNA-protein com 51.4 12 0.00026 22.1 1.6 17 110-126 35-51 (56)
13 PF15120 DUF4561: Domain of un 50.1 91 0.002 22.7 6.3 60 45-123 58-117 (171)
14 COG2260 Predicted Zn-ribbon RN 49.8 14 0.00031 22.0 1.8 16 110-125 35-50 (59)
15 PF13877 RPAP3_C: Potential Mo 44.3 45 0.00098 21.2 3.8 47 51-99 46-92 (94)
16 PF07014 Hs1pro-1_C: Hs1pro-1 41.9 1E+02 0.0022 23.6 5.7 60 51-124 56-122 (261)
17 PF04135 Nop10p: Nucleolar RNA 35.0 17 0.00038 21.2 0.6 16 110-125 35-50 (53)
18 PF08945 Bclx_interact: Bcl-x 34.9 20 0.00043 19.4 0.7 21 54-74 14-35 (40)
19 COG3068 Uncharacterized protei 32.9 1.7E+02 0.0036 21.3 5.3 72 47-119 6-88 (194)
20 PF04994 TfoX_C: TfoX C-termin 32.7 1.3E+02 0.0028 18.9 5.4 48 48-103 30-77 (81)
21 cd00736 bacteriophage_lambda_l 31.5 1.7E+02 0.0036 20.9 5.2 43 46-97 87-129 (151)
22 PF11407 RestrictionMunI: Type 31.3 21 0.00045 26.3 0.6 39 103-142 119-157 (202)
23 cd01390 HMGB-UBF_HMG-box HMGB- 30.2 84 0.0018 18.0 3.1 29 80-108 26-55 (66)
24 KOG2758|consensus 28.9 96 0.0021 25.4 3.9 65 53-118 128-204 (432)
25 PF15070 GOLGA2L5: Putative go 25.8 28 0.0006 30.5 0.5 8 128-135 597-604 (617)
26 PF00505 HMG_box: HMG (high mo 25.6 52 0.0011 19.1 1.6 28 81-108 27-55 (69)
27 KOG4470|consensus 23.6 94 0.002 23.7 2.9 27 20-46 115-141 (246)
28 cd01389 MATA_HMG-box MATA_HMG- 23.5 83 0.0018 19.1 2.3 28 81-108 28-56 (77)
29 PF09093 Lyase_catalyt: Lyase, 23.4 2.3E+02 0.0049 23.4 5.3 42 24-65 204-245 (373)
30 cd01388 SOX-TCF_HMG-box SOX-TC 21.6 91 0.002 18.6 2.1 29 80-108 27-56 (72)
31 COG4289 Uncharacterized protei 21.0 3.5E+02 0.0077 22.5 5.8 46 32-77 128-174 (458)
32 PF05218 DUF713: Protein of un 20.9 3.4E+02 0.0074 19.8 8.5 39 98-136 123-161 (182)
33 PRK04974 glycerol-3-phosphate 20.6 2.1E+02 0.0046 26.1 5.0 79 34-113 713-800 (818)
34 KOG1663|consensus 20.5 57 0.0012 25.1 1.2 63 48-110 59-142 (237)
No 1
>smart00147 RasGEF Guanine nucleotide exchange factor for Ras-like small GTPases.
Probab=100.00 E-value=3.1e-42 Score=262.21 Aligned_cols=145 Identities=41% Similarity=0.711 Sum_probs=141.3
Q ss_pred CCccchhhccccCCCCCCCCc-hHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHh
Q psy11553 1 MSSYELVYHTVGRHRFQQITA-NLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMG 79 (146)
Q Consensus 1 ~~p~El~~~~w~~~~~~~~~p-ni~~~~~~~n~ls~wv~~~IL~~~~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~a 79 (146)
|+|.||++..|++.+....+| ||.+++++||.++.||+.+||.++++++|++++++||+||.+|.++|||||++||++|
T Consensus 24 I~~~El~~~~~~~~~~~~~~p~~i~~~~~~~n~is~wv~~~Il~~~~~~~R~~~i~~fI~ia~~l~~l~Nfns~~aI~~~ 103 (242)
T smart00147 24 IDPSELLGSVWGKRSKKSPSPLNLERFIERFNEVSNWVATEILKQTTPKDRAELLSKFIQVAKHCRELNNFNSLMAIVSA 103 (242)
T ss_pred CCHHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence 789999999999998888888 9999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhhhchHHhhccCCcchHHHHHHHHcccCCCchHHHHHHHHhcCC-CCcccccchhhhhhhhhc
Q psy11553 80 LSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQ-SPVIPFMPLLLKGKTWSR 145 (146)
Q Consensus 80 L~~~~I~RLk~tw~~l~~~~~~~~~~l~~l~~~~~n~~~yR~~l~~~~-~p~IP~lg~~l~dl~~i~ 145 (146)
|++++|.||+.||+.++++.++.|++|++++++++||++||+.++++. +|||||+|++|+|+++++
T Consensus 104 L~~~~I~RL~~tw~~l~~~~~~~~~~L~~l~s~~~n~~~yR~~l~~~~~~p~IP~lg~~l~dl~~~~ 170 (242)
T smart00147 104 LSSSPISRLKKTWEKLPSKYKKLFEELEELLSPERNFKNYREALSSCNLPPCVPFLGVLLKDLTFID 170 (242)
T ss_pred hCChHHhhhHHHHHHCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhcCCCCCccchHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999988 999999999999999874
No 2
>cd00155 RasGEF Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking. Guanine-nucleotide-exchange factors (GEFs) positively regulate these GTP-binding proteins in response to a variety of signals. GEFs catalyze the dissociation of GDP from the inactive GTP-binding proteins. GTP can then bind and induce structural changes that allow interaction with effectors.
Probab=100.00 E-value=5e-42 Score=260.13 Aligned_cols=145 Identities=38% Similarity=0.707 Sum_probs=140.3
Q ss_pred CCccchhhccccCCCCC-CCCchHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHh
Q psy11553 1 MSSYELVYHTVGRHRFQ-QITANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMG 79 (146)
Q Consensus 1 ~~p~El~~~~w~~~~~~-~~~pni~~~~~~~n~ls~wv~~~IL~~~~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~a 79 (146)
|+|.||++..|+++... +.+|||.+++++||.++.||+.+||+++++++|++++++||+||.+|.++||||+++||++|
T Consensus 24 I~~~El~~~~~~~~~~~~~~~p~i~~~~~~~n~ls~wv~~~Il~~~~~~~R~~~i~~~I~ia~~l~~l~Nfns~~aI~~~ 103 (237)
T cd00155 24 IEPFELLGSLWSKKDKNIHLSPNLERFIERFNNLSNWVASEILLCTNPKKRARLLSKFIQVAKHCRELNNFNSLMAIVSA 103 (237)
T ss_pred CCHHHHHHHHHCCCCCCCCCCcCHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence 78999999999988766 48999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhhhchHHhhccCCcchHHHHHHHHcccCCCchHHHHHHHHhcC--CCCcccccchhhhhhhhhc
Q psy11553 80 LSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKL--QSPVIPFMPLLLKGKTWSR 145 (146)
Q Consensus 80 L~~~~I~RLk~tw~~l~~~~~~~~~~l~~l~~~~~n~~~yR~~l~~~--~~p~IP~lg~~l~dl~~i~ 145 (146)
|++++|.||++||+.++++.++.|++|..++++++||++||+.++++ ++|||||+|++++||++++
T Consensus 104 L~~~~I~RL~~tw~~l~~~~~~~~~~l~~l~~~~~n~~~yr~~l~~~~~~~p~IP~lg~~l~dl~~~~ 171 (237)
T cd00155 104 LSSSPISRLKKTWEVLSSKLKKLFEELEELVDPSRNFKNYRKLLKSVGPNPPCVPFLGVYLKDLTFLH 171 (237)
T ss_pred hCCccchhHHHHHHHCCHHHHHHHHHHHHHhCcHhhHHHHHHHHHhcCCCCCCeeehhHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999998 8999999999999999874
No 3
>PF00617 RasGEF: RasGEF domain; InterPro: IPR001895 Ras proteins are membrane-associated molecular switches that bind GTP and GDP and slowly hydrolyze GTP to GDP []. The balance between the GTP bound (active) and GDP bound (inactive) states is regulated by the opposite action of proteins activating the GTPase activity and that of proteins which promote the loss of bound GDP and the uptake of fresh GTP [, ]. The latter proteins are known as guanine-nucleotide dissociation stimulators (GDSs) (or also as guanine-nucleotide releasing (or exchange) factors (GRFs)). Proteins that act as GDS can be classified into at least two families, on the basis of sequence similarities, the CDC24 family (see IPR001331 from INTERPRO) and the CDC25 family. The size of the proteins of the CDC25 family range from 309 residues (LTE1) to 1596 residues (sos). The sequence similarity shared by all these proteins is limited to a region of about 250 amino acids generally located in their C-terminal section (currently the only exceptions are sos and ralGDS where this domain makes up the central part of the protein). This domain has been shown, in CDC25 an SCD25, to be essential for the activity of these proteins.; GO: 0005085 guanyl-nucleotide exchange factor activity, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IJE_S 3T6G_A 1NVW_S 1BKD_S 1XDV_A 2II0_A 1NVU_S 1NVX_S 1NVV_S 1XD4_B ....
Probab=100.00 E-value=1.2e-41 Score=249.10 Aligned_cols=145 Identities=36% Similarity=0.638 Sum_probs=135.5
Q ss_pred CCccchhhccccCCCCCC-CCchHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHh
Q psy11553 1 MSSYELVYHTVGRHRFQQ-ITANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMG 79 (146)
Q Consensus 1 ~~p~El~~~~w~~~~~~~-~~pni~~~~~~~n~ls~wv~~~IL~~~~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~a 79 (146)
|+|.|+++..|++++... .+|||.+++++||.++.||+.+||+++++++|++++++||+||.+|.++|||+|++||++|
T Consensus 23 I~~~e~~~~~~~~~~~~~~~~~~i~~~~~~~n~ls~wv~~~Il~~~~~~~R~~~i~~~I~va~~l~~l~Nf~s~~aI~~~ 102 (188)
T PF00617_consen 23 IKPSELLYSVWSKSDKKENQSPNINKLIDRFNKLSNWVISEILSQPDPEERAKIIEKFIQVAKKLYELGNFNSLMAILSA 102 (188)
T ss_dssp SSHHHHHGGGGGSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHHHTTBHHHHHHHHHH
T ss_pred CCHHHHHHHHhcCCCCCCccChhHHHHHHHhhhHHHHHHHHhhccccHHHHHHHHHHHHhHHHHHHHhcCchHHHHHHHH
Confidence 689999999999865444 5899999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhhhchHHhhccCCcchHHHHHHHHcccCCCchHHHHHHHHhcCCC-Ccccccchhhhhhhhhc
Q psy11553 80 LSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQS-PVIPFMPLLLKGKTWSR 145 (146)
Q Consensus 80 L~~~~I~RLk~tw~~l~~~~~~~~~~l~~l~~~~~n~~~yR~~l~~~~~-p~IP~lg~~l~dl~~i~ 145 (146)
|++++|.||++||+.++++.++.|++|+.++++++||+.||+++++.++ |||||+|++++|+++++
T Consensus 103 L~s~~i~rL~~tw~~l~~~~~~~~~~l~~l~~~~~~~~~yr~~~~~~~~~~~IP~lg~~l~dl~~~~ 169 (188)
T PF00617_consen 103 LNSSSIQRLKKTWKSLSKKSKKTFEELESLFSPSNNYKNYREALKKCNPQPCIPFLGIFLKDLIFIE 169 (188)
T ss_dssp HTSHHHHT-HHHHHTSHHHHHHHHHHHHHHTHHHHHHHHHHHHHHTSTSSSSB--HHHHHHHHHHHH
T ss_pred hccccccchhhhhhhhHHHHHHHHHHHHhhcccchhhHHHHHhhcccccCceecccHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999998887 99999999999999874
No 4
>KOG3542|consensus
Probab=99.96 E-value=8.4e-30 Score=211.47 Aligned_cols=144 Identities=35% Similarity=0.642 Sum_probs=136.8
Q ss_pred CCccchhhccccCCCCCCCCchHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHhc
Q psy11553 1 MSSYELVYHTVGRHRFQQITANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMGL 80 (146)
Q Consensus 1 ~~p~El~~~~w~~~~~~~~~pni~~~~~~~n~ls~wv~~~IL~~~~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~aL 80 (146)
|+|.|+++..+ |-+.+..+|++.++-+-||+-..||+++||.+.+..+|+++|++||+||.+|++++|||+++||++||
T Consensus 887 IEPTEyiDdLF-KL~SKtg~~~LkrFE~l~NqEtfWVAsEIltE~nqlKRmKiIKhFIKiAlhCReckNFNSMFAIiSGL 965 (1283)
T KOG3542|consen 887 IEPTEYIDDLF-KLDSKTGSPKLKRFEQLFNQETFWVASEILTERNQLKRMKIIKHFIKIALHCRECKNFNSMFAIISGL 965 (1283)
T ss_pred CChHHHHHHHH-hhccccCCccHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHhcC
Confidence 78999999776 44556689999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhchHHhhccCCcchHHHHHHHHcccCCCchHHHHHHHHhcC--CCCcccccchhhhhhhhhc
Q psy11553 81 SNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKL--QSPVIPFMPLLLKGKTWSR 145 (146)
Q Consensus 81 ~~~~I~RLk~tw~~l~~~~~~~~~~l~~l~~~~~n~~~yR~~l~~~--~~p~IP~lg~~l~dl~~i~ 145 (146)
+.++|.||..||+.+|.++.+.++.|+++++|++|..+||+.+... ++|.||.+.++=+||||+|
T Consensus 966 nla~VaRLr~tWEklpsKYek~lqdlqdlfDPSRNMaKYRn~L~sq~~qPPiiPlfPViKKDlTFlH 1032 (1283)
T KOG3542|consen 966 NLAAVARLRSTWEKLPSKYEKMLQDLQDLFDPSRNMAKYRNHLASQAQQPPIIPLFPVIKKDLTFLH 1032 (1283)
T ss_pred chHHHHHHhhhHhhccHHHHHHHHHHHHhhCchhhHHHHHHHHHhhccCCCccccchheeccceeee
Confidence 9999999999999999999999999999999999999999999764 6999999999999999987
No 5
>KOG2378|consensus
Probab=99.95 E-value=1.1e-28 Score=197.03 Aligned_cols=145 Identities=57% Similarity=0.900 Sum_probs=140.3
Q ss_pred CCccchhhcccc-CCCCCCCCchHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHh
Q psy11553 1 MSSYELVYHTVG-RHRFQQITANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMG 79 (146)
Q Consensus 1 ~~p~El~~~~w~-~~~~~~~~pni~~~~~~~n~ls~wv~~~IL~~~~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~a 79 (146)
||.-||+++..+ ...++..+.|+..+..+||.+..|++.+|+.++.+.+|++++++||++|.+|++..|.++++||++|
T Consensus 356 ih~~ElI~y~i~~q~~~~~~tanleLl~~R~neVq~wv~tei~lc~ql~kr~qllkkfiKiaal~ke~~~l~sffAV~~G 435 (573)
T KOG2378|consen 356 IHENELIHYVIGGQIPCDRNTANLELLLRRFNEVQHWVATEILLCQQLGKRCQLLKKFIKIAALCKEGENLNSFFAVVMG 435 (573)
T ss_pred hhHhHhhHhhhcccCCCCccchhHHHHHHHHhhchhhhhchhhhhcchhHHHHHHHHHHHHHHHHHhhccccchHHHhhc
Confidence 688899999998 5566778899999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhhhchHHhhccCCcchHHHHHHHHcccCCCchHHHHHHHHhcCCCCcccccchhhhhhhhhc
Q psy11553 80 LSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQSPVIPFMPLLLKGKTWSR 145 (146)
Q Consensus 80 L~~~~I~RLk~tw~~l~~~~~~~~~~l~~l~~~~~n~~~yR~~l~~~~~p~IP~lg~~l~dl~~i~ 145 (146)
|+..+|+||..||+.+|.+.++.|.++..+++|..|++.||.+..+..+|.|||+...++|++|+|
T Consensus 436 L~~~avSrl~~tweklP~k~kk~~s~~enl~dP~~nhr~yR~l~~km~pp~ipf~PlllkD~tf~h 501 (573)
T KOG2378|consen 436 LSNRAVSRLDLTWEKLPYKFKKLFSELENLLDPCRNHRTYRLLSSKMSPPYIPFMPLLLKDLTFIH 501 (573)
T ss_pred chhHHHHhhhcccccCchHHHhHHHHHHhcCCchhhhHHHHHHHHhcCCCCCCccchhhhhceeec
Confidence 999999999999999999999999999999999999999999999999999999999999999987
No 6
>KOG3629|consensus
Probab=99.94 E-value=2.1e-27 Score=192.71 Aligned_cols=144 Identities=19% Similarity=0.348 Sum_probs=133.1
Q ss_pred CccchhhccccCCCC-CCCCchHHHHHHHHHHHHHHHHHHhcCCC-ChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHh
Q psy11553 2 SSYELVYHTVGRHRF-QQITANLDVFLRRFNEIQYWVITEILLVT-SLNKRVQILRKMIKLAAYCKEYRNINALFAVLMG 79 (146)
Q Consensus 2 ~p~El~~~~w~~~~~-~~~~pni~~~~~~~n~ls~wv~~~IL~~~-~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~a 79 (146)
=|+.|+++.|++.+. ++.+|.|.+-|..||.++.-|+++||..+ .+++||++|+|||+||.+|+-+.||.++.|++++
T Consensus 235 ~phqClGcvWs~Rd~~ghl~ptvrATi~QFN~vs~~Vvssilg~~lrp~qRAkiieKWI~iA~E~rllknfssl~avvsa 314 (728)
T KOG3629|consen 235 LPHQCLGCVWSKRDTAGHLVPTVRATIEQFNSVSQRVVSSILGPDLRPEQRAKIIEKWIDIARECRLLKNFSSLKAVVSA 314 (728)
T ss_pred hhHhcccceeccCCCcccccchHHHHHHHHHHHHHHHHHHhhCCCCCcHHHHHHHHHHHHHHHHHHHHhhhccceeeecc
Confidence 378899999998765 58999999999999999999999999976 7899999999999999999999999999999999
Q ss_pred cchhhhhchHHhhccCCcchHHHHHHHHcccCCCchHHHHHHHHhcC-----------------------CCCcccccch
Q psy11553 80 LSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKL-----------------------QSPVIPFMPL 136 (146)
Q Consensus 80 L~~~~I~RLk~tw~~l~~~~~~~~~~l~~l~~~~~n~~~yR~~l~~~-----------------------~~p~IP~lg~ 136 (146)
|++.+|+||+.+|..++.+....|++|.++++.++|+.+-|+.|-+. ....|||+|.
T Consensus 315 lqs~pihrlk~aw~~v~rdsls~f~els~ifse~~n~~~sReLL~qeGtsksspLe~s~k~a~~r~qr~~~qGtVPyLGt 394 (728)
T KOG3629|consen 315 LQSEPIHRLKSAWNSVPRDSISQFRELSSIFSEDGNQGNSRELLIQEGTSKSSPLEASPKRAHARWQRQDKQGTVPYLGT 394 (728)
T ss_pred ccccHHHHHHhhhccCchhHHHHHHHHHhhcccccCCcchhHHHHHhcccccCCCCcchhhhhhhhhhccCCcccchHHH
Confidence 99999999999999999999999999999999999999888877431 1458999999
Q ss_pred hhhhhhhhc
Q psy11553 137 LLKGKTWSR 145 (146)
Q Consensus 137 ~l~dl~~i~ 145 (146)
||+||+++|
T Consensus 395 FLtDLvMlD 403 (728)
T KOG3629|consen 395 FLTDLVMLD 403 (728)
T ss_pred HHHHHHHHh
Confidence 999999987
No 7
>KOG3541|consensus
Probab=99.88 E-value=1.3e-22 Score=160.58 Aligned_cols=123 Identities=31% Similarity=0.460 Sum_probs=113.8
Q ss_pred CchHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHhcchhhhhchHHhhccCCcch
Q psy11553 20 TANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSKS 99 (146)
Q Consensus 20 ~pni~~~~~~~n~ls~wv~~~IL~~~~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~aL~~~~I~RLk~tw~~l~~~~ 99 (146)
.-.+.+++++||+|+..++.++|.....+.|+.++++||++|.+|.++||||++|||+.|++-++|.|||+||..|.
T Consensus 260 ~ysie~y~~wfn~Lsa~~Atevlk~~kk~~rsamlef~iD~arec~nignfnSmmai~~~lnL~avarlkktw~kv~--- 336 (477)
T KOG3541|consen 260 DYSIERYMSWFNHLSALCATEVLKAAKKQTRSAMLEFLIDLARECFNIGNFNSMMAIGPGLNLNAVARLKKTWIKVR--- 336 (477)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccchhhhhhccCCCCchHHHHHHHHHHHH---
Confidence 34799999999999999999999998999999999999999999999999999999999999999999999999984
Q ss_pred HHHHHHHHcccCCCchHHHHHHHHhcC-----------CCCcccccchhhhhhhhhc
Q psy11553 100 KKTYTELEALIDPSKNHRAYRQAVSKL-----------QSPVIPFMPLLLKGKTWSR 145 (146)
Q Consensus 100 ~~~~~~l~~l~~~~~n~~~yR~~l~~~-----------~~p~IP~lg~~l~dl~~i~ 145 (146)
...|+-|+.-++|..||.+||.+++.+ ....|||+..+|+|+.+|+
T Consensus 337 taK~e~lehqmdps~nflsyr~t~Kaa~wrs~sang~~ekaviPff~l~Lkdl~~i~ 393 (477)
T KOG3541|consen 337 TAKFEALEHQMDPSSNFLSYRLTDKAAKWRSPSANGAPEKAVIPFFTLFLKDLLDIS 393 (477)
T ss_pred HHHHHHHHhcCCchhhhHHHHHHHHHHhhcCccccCCCccccccchhhhHHHHHHHH
Confidence 467888999999999999999998753 2458999999999999875
No 8
>KOG3417|consensus
Probab=99.84 E-value=2.4e-21 Score=169.23 Aligned_cols=144 Identities=27% Similarity=0.394 Sum_probs=135.5
Q ss_pred CCccchhhccccCCCCCCCCchHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHhc
Q psy11553 1 MSSYELVYHTVGRHRFQQITANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMGL 80 (146)
Q Consensus 1 ~~p~El~~~~w~~~~~~~~~pni~~~~~~~n~ls~wv~~~IL~~~~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~aL 80 (146)
|.|.|+++++|.+.++...+||+.+++.++|.++.||..+|+..+..+.|+.++.+++++|.++.+++|||+++++++|+
T Consensus 235 iq~~e~~~~~~~~~~~~~~~P~~~~~~~~~~~~s~wv~~~il~~e~l~~r~~~~~~~L~~a~~~~el~n~~~~~~~v~~~ 314 (840)
T KOG3417|consen 235 IQPFELLSQSWLKKDKKINSPNIESSTSRFNHLSSWVEQEILNAEQLEERAEVILHFLEVAAKLSELNNLNSLMEVVSGL 314 (840)
T ss_pred cCHHHHHHhhhhhcccccCCCchhhhhhcccchHHHHHHHHhccccHHHHHHhhHHHHHHhhhhhhccccccHHHHHhcc
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhchHHhhccCCcchHHHHHHHHcccCCCchHHHHHHHHhcCCC-Ccccccchhhhh-hhhh
Q psy11553 81 SNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQS-PVIPFMPLLLKG-KTWS 144 (146)
Q Consensus 81 ~~~~I~RLk~tw~~l~~~~~~~~~~l~~l~~~~~n~~~yR~~l~~~~~-p~IP~lg~~l~d-l~~i 144 (146)
++.++.||+.+|+.++.+.++.+..+..+....++|+.||..+..++. ||||++|+++.| +..+
T Consensus 315 ~~s~i~~L~~t~~~l~~~~~~~~~~~~~~~~~~~~~~~yr~~l~~~~~~~~ip~~~~~l~d~~~~l 380 (840)
T KOG3417|consen 315 QSSPISRLKKTGSYLSSEIKKKLILLTELTSLLDNVQNYRRYLQSCNISPCIPILGVYLLDSLVKL 380 (840)
T ss_pred ccchhhhhhhhhccccccchhhhhhHHHHhhcchHHHHHHHHhhhcccCccccccccccHHHHHhh
Confidence 999999999999999987777777777777777799999999999988 999999999999 6554
No 9
>KOG3417|consensus
Probab=99.41 E-value=2.7e-13 Score=118.94 Aligned_cols=137 Identities=20% Similarity=0.385 Sum_probs=117.5
Q ss_pred cchhhcccc--CCCCCCCCchHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHhcc
Q psy11553 4 YELVYHTVG--RHRFQQITANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMGLS 81 (146)
Q Consensus 4 ~El~~~~w~--~~~~~~~~pni~~~~~~~n~ls~wv~~~IL~~~~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~aL~ 81 (146)
.++....|+ +.+.+.+.++-.++...++..+.|+...|..+.....| ++.++++|..+.||.+++++.++|.
T Consensus 627 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~s------~~~~~~~~~~~~~~~~l~~~~s~l~ 700 (840)
T KOG3417|consen 627 EICIPRSLLWAKVQNEEKSKKDLAFTETFNLVSFWSSTIILTQQPAKRS------FIHVAKFCKIMKNFRTLMNINSALA 700 (840)
T ss_pred chhhhhHHHHhhhhhcccccchHHHHHHHhhhhhhhHHhhhccccccch------hHHHHhhhhhhCchhhhhHHHHHhc
Confidence 344444443 45667788999999999999999999888887776666 9999999999999999999999999
Q ss_pred hhhhhchHHhhccCCcchHHHHHHHHcccCCCchHHHHHHHHh-cCCCCcccccchhhhhhhhhcC
Q psy11553 82 NVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVS-KLQSPVIPFMPLLLKGKTWSRV 146 (146)
Q Consensus 82 ~~~I~RLk~tw~~l~~~~~~~~~~l~~l~~~~~n~~~yR~~l~-~~~~p~IP~lg~~l~dl~~i~~ 146 (146)
+.++.|+..+|....++....+..+..+.....|+..||+.+. ...+||+||+|++|+||||+++
T Consensus 701 s~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~cvP~~~~~l~dltf~~~ 766 (840)
T KOG3417|consen 701 SSPIHRSTPLWRLEWPKDIREFSALSPLVIDKSNSSTYRRALLSVPEPPCVPFLGVILQDLTFVHT 766 (840)
T ss_pred cchhhhcchhhcccchhhHHHhhccccchhcccccHHHHHHHhcCCCCCCcCceeEEeecceeecC
Confidence 9999999999999999998888888888877777776666655 5679999999999999999874
No 10
>PF03745 DUF309: Domain of unknown function (DUF309); InterPro: IPR005500 This family consists of eubacterial and archaebacterial proteins of unknown function. The proteins contain a motif HXXXEXX(W/Y) where X can be any amino acid. This motif is likely to be functionally important and may be involved in metal binding.; PDB: 2CXD_B 2CWY_A 2IJQ_B.
Probab=77.16 E-value=8.4 Score=23.06 Aligned_cols=55 Identities=18% Similarity=0.175 Sum_probs=41.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhcCC---CChhHHHHHHHHHHHHHHHhh--hcCChHHHHHH
Q psy11553 22 NLDVFLRRFNEIQYWVITEILLV---TSLNKRVQILRKMIKLAAYCK--EYRNINALFAV 76 (146)
Q Consensus 22 ni~~~~~~~n~ls~wv~~~IL~~---~~~~~Ra~~i~~~I~va~~~~--~l~Nf~s~~aI 76 (146)
.+...++.||.=-.|-++++|.. ....++...+.-+|++|-.+. +.||..++.-+
T Consensus 2 ~~~~~~~l~n~g~f~EaHEvlE~~W~~~~~~~~~~lqglIq~A~a~~h~~~gn~~gA~~l 61 (62)
T PF03745_consen 2 ALEEGIELFNAGDFFEAHEVLEELWKAAPGPERDFLQGLIQLAVALYHLRRGNPRGARRL 61 (62)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHCCCT-CCHHHHHHHHHHHHHHHHHHHCTSHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHhHHHHHHHHHHCCcchHHHHHHHHHHHHHHHHHHhCCHHHHHHh
Confidence 46778888999999999999864 233349999999999998875 68888876543
No 11
>KOG3541|consensus
Probab=71.97 E-value=3.1 Score=34.39 Aligned_cols=75 Identities=16% Similarity=0.206 Sum_probs=59.4
Q ss_pred hHHHHHHHHHHHHHHHHH---HhcCCCChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHhcchhhhhchHHhhccCCcc
Q psy11553 22 NLDVFLRRFNEIQYWVIT---EILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSK 98 (146)
Q Consensus 22 ni~~~~~~~n~ls~wv~~---~IL~~~~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~aL~~~~I~RLk~tw~~l~~~ 98 (146)
++..+..........+.. .++.+-..+.|.+-++.|-.|+.-|.+.+|+++..+|...+..+.+.|++ ++.-+++
T Consensus 385 ~Lkdl~~i~~~h~~~l~Nghinf~k~~~i~~qlr~v~~W~~v~c~fek~p~v~sylliaevlse~alm~~s--fe~epPe 462 (477)
T KOG3541|consen 385 FLKDLLDISARHRLFLPNGHINFLKFVGIEGQLRTVELWSGVACPFEKVPNVNSYLLIAEVLSEPALMRAS--FESEPPE 462 (477)
T ss_pred hHHHHHHHHhhhcccCCCchhHHHHHHhHHhhhhhhhhhhcccchHhhCchHHhHHhhhhhcccchhhhhe--ecccCCc
Confidence 666666666666666655 55555567899999999999999999999999999999999999998874 4444443
No 12
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=51.45 E-value=12 Score=22.11 Aligned_cols=17 Identities=29% Similarity=0.516 Sum_probs=14.9
Q ss_pred cCCCchHHHHHHHHhcC
Q psy11553 110 IDPSKNHRAYRQAVSKL 126 (146)
Q Consensus 110 ~~~~~n~~~yR~~l~~~ 126 (146)
+||++-|..||..+++.
T Consensus 35 fSp~D~y~~yR~~~kk~ 51 (56)
T PRK13130 35 FSPEDKYGKYRRALKKR 51 (56)
T ss_pred CCCCCccHHHHHHHHHH
Confidence 69999999999999863
No 13
>PF15120 DUF4561: Domain of unknown function (DUF4561)
Probab=50.09 E-value=91 Score=22.72 Aligned_cols=60 Identities=13% Similarity=0.244 Sum_probs=39.0
Q ss_pred CChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHhcchhhhhchHHhhccCCcchHHHHHHHHcccCCCchHHHHHHHH
Q psy11553 45 TSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAV 123 (146)
Q Consensus 45 ~~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~aL~~~~I~RLk~tw~~l~~~~~~~~~~l~~l~~~~~n~~~yR~~l 123 (146)
.+.-+| +++.-|+++...+..+.+ .+.+.. .-.+...+.++....++++++++..+|...
T Consensus 58 ~nstDr-ril~~FL~iv~dL~~l~~--~~~~~~----------------~~~~~~~~~Le~ck~LL~~~nD~S~lra~y 117 (171)
T PF15120_consen 58 NNSTDR-RILEMFLDIVRDLSRLCQ--QLESLI----------------SGNETTNALLEKCKTLLNPSNDFSSLRAKY 117 (171)
T ss_pred cccccH-HHHHHHHHHHHHHHHHHH--HHHHHc----------------cCChhHHHHHHHHHHHcCCccchHHHhhcC
Confidence 334445 788888888777655432 111111 222345567888899999999999999864
No 14
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=49.84 E-value=14 Score=21.97 Aligned_cols=16 Identities=25% Similarity=0.544 Sum_probs=14.5
Q ss_pred cCCCchHHHHHHHHhc
Q psy11553 110 IDPSKNHRAYRQAVSK 125 (146)
Q Consensus 110 ~~~~~n~~~yR~~l~~ 125 (146)
+||++-|..||..+++
T Consensus 35 FSPeD~y~kYR~~lkk 50 (59)
T COG2260 35 FSPEDKYGKYRRELKK 50 (59)
T ss_pred CCccchHHHHHHHHHH
Confidence 6999999999999876
No 15
>PF13877 RPAP3_C: Potential Monad-binding region of RPAP3
Probab=44.34 E-value=45 Score=21.16 Aligned_cols=47 Identities=21% Similarity=0.217 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHhhhcCChHHHHHHHHhcchhhhhchHHhhccCCcch
Q psy11553 51 VQILRKMIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSKS 99 (146)
Q Consensus 51 a~~i~~~I~va~~~~~l~Nf~s~~aI~~aL~~~~I~RLk~tw~~l~~~~ 99 (146)
+.++..++++......-++-..++.++.+|...+ |..-+..-++++.
T Consensus 46 ~~~L~~il~~l~~~~~~~~~~~i~~~L~~L~~~~--RF~l~~~fl~~~e 92 (94)
T PF13877_consen 46 PEFLSEILEALNEHFIPEDPEFIFEILEALSKVK--RFDLAVMFLSSSE 92 (94)
T ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcCCC--CHHHHHHhcCHhh
Confidence 4678888888888777666678888888887543 5555555555443
No 16
>PF07014 Hs1pro-1_C: Hs1pro-1 protein C-terminus; InterPro: IPR009743 This entry represents the C terminus (approximately 270 residues) of a number of plant Hs1pro-1 proteins, which are believed to confer nematode resistance [].
Probab=41.93 E-value=1e+02 Score=23.61 Aligned_cols=60 Identities=22% Similarity=0.327 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHhhh-------cCChHHHHHHHHhcchhhhhchHHhhccCCcchHHHHHHHHcccCCCchHHHHHHHH
Q psy11553 51 VQILRKMIKLAAYCKE-------YRNINALFAVLMGLSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAV 123 (146)
Q Consensus 51 a~~i~~~I~va~~~~~-------l~Nf~s~~aI~~aL~~~~I~RLk~tw~~l~~~~~~~~~~l~~l~~~~~n~~~yR~~l 123 (146)
-++++.||.+|..+.+ -++|..+ +...+-+.+.|+.+- ..+.|.-+++|+ .|-.+...+
T Consensus 56 hQIlEsWi~~a~~LL~ri~~~i~~~~~ekA--------a~dc~~vERiWKLL~-----eieDlhllMDPd-DFlrLK~qL 121 (261)
T PF07014_consen 56 HQILESWIHVARKLLERIEERIEARDFEKA--------ASDCWIVERIWKLLA-----EIEDLHLLMDPD-DFLRLKKQL 121 (261)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcccHHHH--------HhHHHHHHHHHHHHH-----HHHHHHHhcCHH-HHHHHHHHh
Confidence 4668889999988752 3444432 123334556787653 344566677774 466666655
Q ss_pred h
Q psy11553 124 S 124 (146)
Q Consensus 124 ~ 124 (146)
.
T Consensus 122 ~ 122 (261)
T PF07014_consen 122 A 122 (261)
T ss_pred c
Confidence 3
No 17
>PF04135 Nop10p: Nucleolar RNA-binding protein, Nop10p family; InterPro: IPR007264 H/ACA ribonucleoprotein particles (RNPs) are a family of RNA pseudouridine synthases that specify modification sites through guide RNAs. More than 100 mammalian H/ACA RNAs form an equal number of ribonucleoproteins (RNPs) by associating with the same four core proteins: Cbf5, Gar1, Nhp2 and Nop10. The function of these H/ACA RNPs is essential for biogenesis of the ribosome, splicing of precursor mRNAs (pre-mRNAs), maintenance of telomeres and probably for additional cellular processes []. Recent crystal structures of archaeal H/ACA protein complexes show how the same four proteins accommodate >100 distinct but related H/ACA RNAs []. The complex contains a stable core composed of Cbf5 and Nop10, to which Gar1 and Nhp2 subsequently bind, the complex interacts with snoRNAs []. In eukaryotes Nop10 is a nucleolar protein that is specifically associated with H/ACA snoRNAs. It is essential for normal 18S rRNA production and rRNA pseudouridylation by the ribonucleoprotein particles containing H/ACA snoRNAs (H/ACA snoRNPs). Nop10 is probably necessary for the stability of these RNPs [].; PDB: 2RFK_B 3LWR_B 2HVY_C 3HAX_C 3MQK_B 3LWO_B 3LWV_B 3HAY_C 3HJY_B 2EY4_E ....
Probab=34.99 E-value=17 Score=21.17 Aligned_cols=16 Identities=31% Similarity=0.546 Sum_probs=13.2
Q ss_pred cCCCchHHHHHHHHhc
Q psy11553 110 IDPSKNHRAYRQAVSK 125 (146)
Q Consensus 110 ~~~~~n~~~yR~~l~~ 125 (146)
+||++-|..||..+++
T Consensus 35 FSPdDky~~yRi~lKk 50 (53)
T PF04135_consen 35 FSPDDKYSKYRIALKK 50 (53)
T ss_dssp S-TTTTTCHHHHHHHH
T ss_pred CCCCCccHHHHHHHHh
Confidence 6899999999998875
No 18
>PF08945 Bclx_interact: Bcl-x interacting, BH3 domain; InterPro: IPR015040 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. Bcl-2 proteins are central regulators of caspase activation, and play a key role in cell death by regulating the integrity of the mitochondrial and endoplasmic reticulum (ER) membranes []. At least 20 Bcl-2 proteins have been reported in mammals, and several others have been identified in viruses. Bcl-2 family proteins fall roughly into three subtypes, which either promote cell survival (anti-apoptotic) or trigger cell death (pro-apoptotic). All members contain at least one of four conserved motifs, termed Bcl-2 Homology (BH) domains. Bcl-2 subfamily proteins, which contain at least BH1 and BH2, promote cell survival by inhibiting the adapters needed for the activation of caspases. Pro-apoptotic members potentially exert their effects by displacing the adapters from the pro-survival proteins; these proteins belong either to the Bax subfamily, which contain BH1-BH3, or to the BH3 subfamily, which mostly only feature BH3 []. Thus, the balance between antagonistic family members is believed to play a role in determining cell fate. Members of the wider Bcl-2 family, which also includes Bcl-x, Bcl-w and Mcl-1, are described by their similarity to Bcl-2 protein, a member of the pro-survival Bcl-2 subfamily []. Full-length Bcl-2 proteins feature all four BH domains, seven alpha-helices, and a C-terminal hydrophobic motif that targets the protein to the outer mitochondrial membrane, ER and nuclear envelope. Members of this entry induce apoptosis. The isoform BimL is more potent than the isoform BimEL. They form heterodimers with a number of antiapoptotic Bcl-2 proteins including Mcl-1, Bcl-2, Bcl-X(L), BFL-1, and BHRF1, but do not heterodimerise with proapoptotic proteins such as BAD, BOK, BAX or BAK. They are peripheral membrane proteins, associated with intracytoplasmic membranes. The BH3 motif is required for Bcl-2 binding and cytotoxicity. After antigen-driven expansion, the majority of T cells involved in an immune response die rapidly by apoptosis dependent on the Bcl-2 related proteins; Bim and Bax or Bak []. Bcl-xL regulates Bax and Bim is an important regulator of bcl-x deficiency induced cell death during hematopoiesis and testicular development in mice []. Bim(L) displaces Bcl-x(L) in the mitochondria and promotes Bax translocation during TNFalpha-induced apoptosis []. A potent inhibitor of antiapoptotic Bcl-2 family members, including Bcl-X(L), is AT-101 []. The immunophilin protein FKBP8 and its splice variant are Bcl-XL-interacting proteins and regulate the apoptotic signalling pathways in the RPE []. This protein is a long alpha helix, required for interaction with Bcl-x. It is found in BAM, Bim and Bcl2-like protein 11 []. ; PDB: 2NL9_B 2V6Q_B 3KJ0_B 3KJ1_B 3FDL_B 3D7V_B 3IO8_D 2K7W_B 2VM6_B 3IO9_B ....
Probab=34.92 E-value=20 Score=19.43 Aligned_cols=21 Identities=24% Similarity=0.319 Sum_probs=14.1
Q ss_pred HHHHHHHHHHhhhcCC-hHHHH
Q psy11553 54 LRKMIKLAAYCKEYRN-INALF 74 (146)
Q Consensus 54 i~~~I~va~~~~~l~N-f~s~~ 74 (146)
+.==|.||++|+.+|+ ||+.+
T Consensus 14 ~~PE~wiAqELRRIgDEFnasy 35 (40)
T PF08945_consen 14 MRPEIWIAQELRRIGDEFNASY 35 (40)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHhcccc
Confidence 3344668899988887 66654
No 19
>COG3068 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.93 E-value=1.7e+02 Score=21.28 Aligned_cols=72 Identities=22% Similarity=0.437 Sum_probs=49.0
Q ss_pred hhHHHHHHHHHHHH---HHHhh-hcCChHHHHHHHHhcchhhhhc--hHHhhccCCcch-----HHHHHHHHcccCCCch
Q psy11553 47 LNKRVQILRKMIKL---AAYCK-EYRNINALFAVLMGLSNVAVSR--LSLTWDKLPSKS-----KKTYTELEALIDPSKN 115 (146)
Q Consensus 47 ~~~Ra~~i~~~I~v---a~~~~-~l~Nf~s~~aI~~aL~~~~I~R--Lk~tw~~l~~~~-----~~~~~~l~~l~~~~~n 115 (146)
...|...++-|-++ |--|. -.-||..++. ..++..+.|+| |.-.|+.+.-+. -.++++|+.++...+.
T Consensus 6 ih~RLE~lEsWQhiTFmAcLCERM~PNy~~FCq-~~e~~~~~~Yr~ILdlvWE~ltVK~aKvNFe~QLEKLE~~IP~~dd 84 (194)
T COG3068 6 IHLRLERLESWQHVTFMACLCERMYPNYAMFCQ-QTEFGDGQIYRRILDLVWETLTVKDAKVNFESQLEKLEEAIPSADD 84 (194)
T ss_pred HHHHHHhcchHHHHHHHHHHHHHhCccHHHHHH-HhcccccHHHHHHHHHHHHHhhhcccccchHHHHHHHHHhCCCcch
Confidence 35666666666665 44453 4678776554 55788889987 777898876432 2467788888877777
Q ss_pred HHHH
Q psy11553 116 HRAY 119 (146)
Q Consensus 116 ~~~y 119 (146)
|..|
T Consensus 85 ~~~y 88 (194)
T COG3068 85 FDLY 88 (194)
T ss_pred hhhh
Confidence 7655
No 20
>PF04994 TfoX_C: TfoX C-terminal domain; InterPro: IPR007077 This domain is found in a number of bacterial proteins including the TfoX gene product of Haemophilus influenzae. TfoX may play a key role in the development of genetic competence by regulating the expression of late competence-specific genes []. This family corresponds to the C-terminal presumed domain of TfoX. The domain is found in association with the N-terminal domain in some, but not all members of this group, suggesting this is an autonomous and functionally unrelated domain. For example it is found associated with Q9JZR1 from SWISSPROT in IPR002125 from INTERPRO.; PDB: 3BQT_A 3MAB_A.
Probab=32.73 E-value=1.3e+02 Score=18.87 Aligned_cols=48 Identities=19% Similarity=0.387 Sum_probs=32.5
Q ss_pred hHHHHHHHHHHHHHHHhhhcCChHHHHHHHHhcchhhhhchHHhhccCCcchHHHH
Q psy11553 48 NKRVQILRKMIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSKSKKTY 103 (146)
Q Consensus 48 ~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~aL~~~~I~RLk~tw~~l~~~~~~~~ 103 (146)
-......+-|+++-.. -.--+++.++++.+|++.. .|..+|++.++.+
T Consensus 30 L~~~Ga~~a~~~Lk~~-~~~~~~~~L~aL~gAi~g~-------~~~~L~~~~K~~L 77 (81)
T PF04994_consen 30 LRELGAVEAYLRLKAS-GPSVCLNLLYALEGAIQGI-------HWADLPDEEKQEL 77 (81)
T ss_dssp HHHHHHHHHHHHHHHH--TT--HHHHHHHHHHHCTS--------GGGS-HHHHHHH
T ss_pred HHHhCHHHHHHHHHHH-CCCCCHHHHHHHHHHHcCC-------CHHHCCHHHHHHH
Confidence 3566777888887766 5666789999999999966 4677777766554
No 21
>cd00736 bacteriophage_lambda_lysozyme The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing end upon cleavage of the peptidoglycan but rather uses the 6-OH of the same MurNAc residue to produce a 1,6-anhydromuramic acid terminal residue and is therefore a lytic transglycosylase. An identical 1,6-anhydro bond is formed in bacterial peptidoglycans by the action of the lytic transglycosylases of E. coli. However, they differ structurally.
Probab=31.52 E-value=1.7e+02 Score=20.90 Aligned_cols=43 Identities=28% Similarity=0.425 Sum_probs=25.1
Q ss_pred ChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHhcchhhhhchHHhhccCCc
Q psy11553 46 SLNKRVQILRKMIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPS 97 (146)
Q Consensus 46 ~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~aL~~~~I~RLk~tw~~l~~ 97 (146)
+++..-++--.+|+-.. .+-.|..|--...+.+|..+|..+|.
T Consensus 87 ~P~~QD~~A~~Li~~~g---------al~~i~~G~~~~a~~~La~~WASLPg 129 (151)
T cd00736 87 SPESQDLVAYQLIRERG---------ALPDILAGRIEQAIAKLSNIWASLPG 129 (151)
T ss_pred CHHHHHHHHHHHHHHcC---------cHHHHHcCCHHHHHHHHHhhccCCCC
Confidence 55555555555555332 23333334444566788889999974
No 22
>PF11407 RestrictionMunI: Type II restriction enzyme MunI; InterPro: IPR022725 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. Type II restriction enzyme MunI recognises the palindromic sequence C/AATTG. It makes contact with the DNA via the major groove []. ; PDB: 1D02_B.
Probab=31.27 E-value=21 Score=26.26 Aligned_cols=39 Identities=21% Similarity=0.253 Sum_probs=26.3
Q ss_pred HHHHHcccCCCchHHHHHHHHhcCCCCcccccchhhhhhh
Q psy11553 103 YTELEALIDPSKNHRAYRQAVSKLQSPVIPFMPLLLKGKT 142 (146)
Q Consensus 103 ~~~l~~l~~~~~n~~~yR~~l~~~~~p~IP~lg~~l~dl~ 142 (146)
-++.++++.| +-.+.||+.-+-...+.+||--+|..|+|
T Consensus 119 HERsck~ftp-gl~~~~r~~~~i~~~~~LPFWiV~~GdIT 157 (202)
T PF11407_consen 119 HERSCKFFTP-GLLKAYRQISNINDEEILPFWIVFEGDIT 157 (202)
T ss_dssp GGGGGGGGSH-HHHHHHHHHH----TTS-SEEEEEESGGG
T ss_pred hhhhhhccCc-HHHHHHHHhcCCCCCCccceEEEEecccc
Confidence 4567777777 45677887654446899999999999987
No 23
>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.
Probab=30.21 E-value=84 Score=17.95 Aligned_cols=29 Identities=31% Similarity=0.468 Sum_probs=20.6
Q ss_pred cchhhhh-chHHhhccCCcchHHHHHHHHc
Q psy11553 80 LSNVAVS-RLSLTWDKLPSKSKKTYTELEA 108 (146)
Q Consensus 80 L~~~~I~-RLk~tw~~l~~~~~~~~~~l~~ 108 (146)
+....|. .|...|..++.+.++.|.....
T Consensus 26 ~~~~~i~~~~~~~W~~ls~~eK~~y~~~a~ 55 (66)
T cd01390 26 ASVTEVTKILGEKWKELSEEEKKKYEEKAE 55 (66)
T ss_pred CCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 4444443 4778999999999888876543
No 24
>KOG2758|consensus
Probab=28.90 E-value=96 Score=25.37 Aligned_cols=65 Identities=25% Similarity=0.284 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHhhhcCChHHHHHH---HHhcchhhhh-chHHhhccCCcc--------hHHHHHHHHcccCCCchHHH
Q psy11553 53 ILRKMIKLAAYCKEYRNINALFAV---LMGLSNVAVS-RLSLTWDKLPSK--------SKKTYTELEALIDPSKNHRA 118 (146)
Q Consensus 53 ~i~~~I~va~~~~~l~Nf~s~~aI---~~aL~~~~I~-RLk~tw~~l~~~--------~~~~~~~l~~l~~~~~n~~~ 118 (146)
.++-.-+-|+..++.|||.+.... .-+|.+.+=. -|..+|.++-.+ ..+.+.+|.+.++. ++|..
T Consensus 128 ~i~~lykyakfqyeCGNY~gAs~yLY~~r~l~~~~d~n~lsalwGKlASEIL~qnWd~A~edL~rLre~IDs-~~f~~ 204 (432)
T KOG2758|consen 128 RIETLYKYAKFQYECGNYSGASDYLYFYRALVSDPDRNYLSALWGKLASEILTQNWDGALEDLTRLREYIDS-KSFST 204 (432)
T ss_pred HHHHHHHHHHHHHhccCcccHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHcc-ccccc
Confidence 344455668888999999986654 3455554443 477788887654 22345566666654 44443
No 25
>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5
Probab=25.77 E-value=28 Score=30.50 Aligned_cols=8 Identities=50% Similarity=1.065 Sum_probs=6.7
Q ss_pred CCcccccc
Q psy11553 128 SPVIPFMP 135 (146)
Q Consensus 128 ~p~IP~lg 135 (146)
.||||||.
T Consensus 597 ~pcipffy 604 (617)
T PF15070_consen 597 NPCIPFFY 604 (617)
T ss_pred CCccccee
Confidence 69999983
No 26
>PF00505 HMG_box: HMG (high mobility group) box; InterPro: IPR000910 High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin. HMG1 (also called HMG-T in fish) and HMG2 are two highly related proteins that bind single-stranded DNA preferentially and unwind double-stranded DNA. Although they have no sequence specificity, they have a high affinity for bent or distorted DNA, and bend linear DNA. HMG1 and HMG2 contain two DNA-binding HMG-box domains (A and B) that show structural and functional differences, and have a long acidic C-terminal domain rich in aspartic and glutamic acid residues. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair []. The profile in this entry describing the HMG-domains is much more general than the signature. In addition to the HMG1 and HMG2 proteins, HMG-domains occur in single or multiple copies in the following protein classes; the SOX family of transcription factors; SRY sex determining region Y protein and related proteins []; LEF1 lymphoid enhancer binding factor 1 []; SSRP recombination signal recognition protein; MTF1 mitochondrial transcription factor 1; UBF1/2 nucleolar transcription factors; Abf2 yeast ARS-binding factor []; and Saccharomyces cerevisiae transcription factors Ixr1, Rox1, Nhp6a, Nhp6b and Spp41.; GO: 0003677 DNA binding; PDB: 1I11_A 1J3C_A 1J3D_A 1WZ6_A 1WGF_A 2D7L_A 1GT0_D 3U2B_C 2CRJ_A 2CS1_A ....
Probab=25.62 E-value=52 Score=19.13 Aligned_cols=28 Identities=32% Similarity=0.515 Sum_probs=19.9
Q ss_pred chhhhh-chHHhhccCCcchHHHHHHHHc
Q psy11553 81 SNVAVS-RLSLTWDKLPSKSKKTYTELEA 108 (146)
Q Consensus 81 ~~~~I~-RLk~tw~~l~~~~~~~~~~l~~ 108 (146)
....|. .+...|..++.+.++.|...-.
T Consensus 27 ~~~~i~~~~~~~W~~l~~~eK~~y~~~a~ 55 (69)
T PF00505_consen 27 SNKEISKILAQMWKNLSEEEKAPYKEEAE 55 (69)
T ss_dssp THHHHHHHHHHHHHCSHHHHHHHHHHHHH
T ss_pred ccccchhhHHHHHhcCCHHHHHHHHHHHH
Confidence 334443 4777999999999888876544
No 27
>KOG4470|consensus
Probab=23.62 E-value=94 Score=23.73 Aligned_cols=27 Identities=11% Similarity=0.326 Sum_probs=22.4
Q ss_pred CchHHHHHHHHHHHHHHHHHHhcCCCC
Q psy11553 20 TANLDVFLRRFNEIQYWVITEILLVTS 46 (146)
Q Consensus 20 ~pni~~~~~~~n~ls~wv~~~IL~~~~ 46 (146)
.|-+..+++.+|.+..|++..|=.-++
T Consensus 115 kP~i~~lvEk~nlv~tWIq~lIPkIED 141 (246)
T KOG4470|consen 115 KPEIRKLVEKCNLVKTWIQLLIPKIED 141 (246)
T ss_pred CHHHHHHHHHHHHHHHHHHHhcccccc
Confidence 478889999999999999999855433
No 28
>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include the fungal mating type gene products MC, MATA1 and Ste11.
Probab=23.48 E-value=83 Score=19.05 Aligned_cols=28 Identities=29% Similarity=0.502 Sum_probs=20.5
Q ss_pred chhhhhc-hHHhhccCCcchHHHHHHHHc
Q psy11553 81 SNVAVSR-LSLTWDKLPSKSKKTYTELEA 108 (146)
Q Consensus 81 ~~~~I~R-Lk~tw~~l~~~~~~~~~~l~~ 108 (146)
....|.+ +-..|..++++.++.|.++..
T Consensus 28 ~~~eisk~~g~~Wk~ls~eeK~~y~~~A~ 56 (77)
T cd01389 28 TNNEISRIIGRMWRSESPEVKAYYKELAE 56 (77)
T ss_pred CHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Confidence 4444543 567899999999998887654
No 29
>PF09093 Lyase_catalyt: Lyase, catalytic; InterPro: IPR015177 This domain is predominantly found in chondroitin ABC lyase I, adopting a helical structure, with fifteen alpha-helices which are at least two turns long and several short helical turns. The bulk of the domain is formed by ten alpha-helices forming five hairpin-like pairs and arranged into an incomplete toroid, the (alpha/alpha)5 fold. Additionally, two long and two short alpha-helices at the N terminus of the domain wrap around the toroid. At the C-terminal end of the toroid there is one additional short alpha-helix. This domain is required for degradation of polysaccharides containing 1,4-beta-D-hexosaminyl and 1,3-beta-D-glucoronosyl or 1,3-alpha-L-iduronosyl linkages to disaccharides containing 4-deoxy-beta-D-gluc-4-enuronosyl groups []. ; PDB: 2Q1F_A 1HN0_A.
Probab=23.40 E-value=2.3e+02 Score=23.39 Aligned_cols=42 Identities=21% Similarity=0.280 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHHHHHhh
Q psy11553 24 DVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCK 65 (146)
Q Consensus 24 ~~~~~~~n~ls~wv~~~IL~~~~~~~Ra~~i~~~I~va~~~~ 65 (146)
...++.+|.+..|-...||..++..+|++.++.|-+-.+...
T Consensus 204 ~~~~D~~nT~l~~~l~siLl~~d~~ekvr~Lk~fs~wl~~~l 245 (373)
T PF09093_consen 204 GENLDYFNTLLQGRLASILLMPDDPEKVRYLKSFSRWLDYSL 245 (373)
T ss_dssp TT-HHHHHHTHHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHH
T ss_pred CcchHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhCcc
Confidence 345788999999999999999999999999988888777643
No 30
>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and transcription factor-like proteins, TCF-1, -3, -4, and LEF-1. They appear to bind the minor groove of the A/T C A A A G/C-motif.
Probab=21.60 E-value=91 Score=18.63 Aligned_cols=29 Identities=31% Similarity=0.491 Sum_probs=20.8
Q ss_pred cchhhhhc-hHHhhccCCcchHHHHHHHHc
Q psy11553 80 LSNVAVSR-LSLTWDKLPSKSKKTYTELEA 108 (146)
Q Consensus 80 L~~~~I~R-Lk~tw~~l~~~~~~~~~~l~~ 108 (146)
+....|.+ +...|..++++.++.|.+...
T Consensus 27 ~~~~eisk~l~~~Wk~ls~~eK~~y~~~a~ 56 (72)
T cd01388 27 KENRAISKILGDRWKALSNEEKQPYYEEAK 56 (72)
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 44455544 677899999999888876543
No 31
>COG4289 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.00 E-value=3.5e+02 Score=22.46 Aligned_cols=46 Identities=11% Similarity=0.176 Sum_probs=30.9
Q ss_pred HHHHHHHHHhcCCC-ChhHHHHHHHHHHHHHHHhhhcCChHHHHHHH
Q psy11553 32 EIQYWVITEILLVT-SLNKRVQILRKMIKLAAYCKEYRNINALFAVL 77 (146)
Q Consensus 32 ~ls~wv~~~IL~~~-~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~ 77 (146)
.+.-|.+.+.|=++ ++.++.++...+.++-+.=..-||..-+-+.+
T Consensus 128 ~~Al~lape~lWe~l~~~ek~~l~r~l~a~rk~~~~dnNW~lF~~mV 174 (458)
T COG4289 128 GFALWLAPESLWEPLTPPEKQNLTRYLLAARKLQYADNNWKLFRVMV 174 (458)
T ss_pred HHHHHhChHhhcccCChHHHHHHHHHHHHhcccccccccchhhHHHH
Confidence 45667777777665 67777777777766655556788876655443
No 32
>PF05218 DUF713: Protein of unknown function (DUF713); InterPro: IPR007883 This family contains proteins of unknown function from Caenorhabditis species.
Probab=20.90 E-value=3.4e+02 Score=19.79 Aligned_cols=39 Identities=23% Similarity=0.270 Sum_probs=28.6
Q ss_pred chHHHHHHHHcccCCCchHHHHHHHHhcCCCCcccccch
Q psy11553 98 KSKKTYTELEALIDPSKNHRAYRQAVSKLQSPVIPFMPL 136 (146)
Q Consensus 98 ~~~~~~~~l~~l~~~~~n~~~yR~~l~~~~~p~IP~lg~ 136 (146)
+..+.++.+..+-.....|..+++.+.+..+--||--+-
T Consensus 123 ~L~~il~~l~~~~~~~~~~~~L~~~~s~l~~~~IptT~~ 161 (182)
T PF05218_consen 123 KLLEILESLDELENDKDWFQKLREAFSRLDPSDIPTTSQ 161 (182)
T ss_pred HHHHHHHHHHhhcCChHHHHHHHHHHHcCCcccCCCHHH
Confidence 344456666666666678999999999888888887653
No 33
>PRK04974 glycerol-3-phosphate acyltransferase; Validated
Probab=20.60 E-value=2.1e+02 Score=26.13 Aligned_cols=79 Identities=18% Similarity=0.151 Sum_probs=54.0
Q ss_pred HHHHHHHhcCCCChhHHHHHHHHHHHHHHHhhhcCChHHHHHHHHhcchhhhhchHHhhccCC---------cchHHHHH
Q psy11553 34 QYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLP---------SKSKKTYT 104 (146)
Q Consensus 34 s~wv~~~IL~~~~~~~Ra~~i~~~I~va~~~~~l~Nf~s~~aI~~aL~~~~I~RLk~tw~~l~---------~~~~~~~~ 104 (146)
+.||+..+|..+..-+|...++....+|+.+..++..++-=.+-.++-+..+.-|+ ....+. .+..+.++
T Consensus 713 rY~i~~~~L~~~~~~~~~~l~~~~~~~aqrl~~l~~i~~pE~~dk~lf~~~~~~l~-~~g~~~~~~~~~~~~~~~~~~~~ 791 (818)
T PRK04974 713 RYAITLSLLSGSPNISRSELEKESHLLAQRLSVLHGINAPEFFDKALFSSFIQTLR-EEGYIRDDDSGDLEFEETLEIYA 791 (818)
T ss_pred HHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHhcCCCchhhhhHHHHHHHHHHHH-HCCCCCcccCCcchhHHHHHHHH
Confidence 56777788866566799999999999999998888777766666666666665553 333333 23344555
Q ss_pred HHHcccCCC
Q psy11553 105 ELEALIDPS 113 (146)
Q Consensus 105 ~l~~l~~~~ 113 (146)
.+..+++++
T Consensus 792 ~~~~ll~~~ 800 (818)
T PRK04974 792 ILKRLLSPE 800 (818)
T ss_pred HHHHhcCHH
Confidence 666666654
No 34
>KOG1663|consensus
Probab=20.53 E-value=57 Score=25.06 Aligned_cols=63 Identities=19% Similarity=0.193 Sum_probs=43.9
Q ss_pred hHHHHHHHHHHHH--HHHhhhcCChHHHHHHHHhcchh-------------------hhhchHHhhccCCcchHHHHHHH
Q psy11553 48 NKRVQILRKMIKL--AAYCKEYRNINALFAVLMGLSNV-------------------AVSRLSLTWDKLPSKSKKTYTEL 106 (146)
Q Consensus 48 ~~Ra~~i~~~I~v--a~~~~~l~Nf~s~~aI~~aL~~~-------------------~I~RLk~tw~~l~~~~~~~~~~l 106 (146)
.+..+++.-+|+. |+.|.++|-|.+.-|+..||.-+ .+.++..+..+++-......+.|
T Consensus 59 ~d~g~fl~~li~~~~ak~~lelGvfTGySaL~~Alalp~dGrv~a~eid~~~~~~~~~~~k~agv~~KI~~i~g~a~esL 138 (237)
T KOG1663|consen 59 PDKGQFLQMLIRLLNAKRTLELGVFTGYSALAVALALPEDGRVVAIEIDADAYEIGLELVKLAGVDHKITFIEGPALESL 138 (237)
T ss_pred hHHHHHHHHHHHHhCCceEEEEecccCHHHHHHHHhcCCCceEEEEecChHHHHHhHHHHHhccccceeeeeecchhhhH
Confidence 4678888888888 77899999999999999988755 33444445555554444445555
Q ss_pred Hccc
Q psy11553 107 EALI 110 (146)
Q Consensus 107 ~~l~ 110 (146)
.++.
T Consensus 139 d~l~ 142 (237)
T KOG1663|consen 139 DELL 142 (237)
T ss_pred HHHH
Confidence 5444
Done!