Query psy7075
Match_columns 135
No_of_seqs 123 out of 709
Neff 8.0
Searched_HMMs 46136
Date Fri Aug 16 17:27:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7075.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7075hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00325 RhoGEF Guanine nucl 99.9 1.3E-27 2.7E-32 171.7 11.0 132 2-135 15-151 (180)
2 KOG3520|consensus 99.9 4.5E-27 9.8E-32 202.9 11.1 132 2-134 408-549 (1167)
3 KOG4305|consensus 99.9 4.6E-27 1E-31 201.9 8.7 132 2-135 353-492 (1029)
4 cd00160 RhoGEF Guanine nucleot 99.9 5.7E-26 1.2E-30 163.2 11.7 131 2-135 18-153 (181)
5 KOG4424|consensus 99.9 2E-25 4.3E-30 181.5 10.0 123 2-134 84-211 (623)
6 KOG3523|consensus 99.9 1.6E-24 3.5E-29 177.0 10.6 130 3-134 276-410 (695)
7 PF00621 RhoGEF: RhoGEF domain 99.9 4.7E-24 1E-28 152.1 10.7 131 2-134 15-150 (180)
8 KOG2996|consensus 99.9 6.4E-24 1.4E-28 173.2 10.7 128 3-135 216-347 (865)
9 KOG2070|consensus 99.7 5.2E-18 1.1E-22 136.7 7.0 127 3-134 120-250 (661)
10 KOG3518|consensus 99.7 2.1E-17 4.5E-22 128.6 10.1 126 2-134 139-271 (521)
11 KOG3519|consensus 99.6 7.7E-16 1.7E-20 132.2 8.3 133 2-135 354-492 (756)
12 KOG3521|consensus 99.6 4.2E-15 9.2E-20 123.3 9.5 133 2-134 195-339 (846)
13 COG5422 ROM1 RhoGEF, Guanine n 99.5 5.5E-15 1.2E-19 125.5 5.3 132 2-135 502-641 (1175)
14 KOG3522|consensus 99.5 3E-14 6.5E-19 120.7 6.1 98 3-104 19-120 (925)
15 KOG3524|consensus 99.3 4.8E-12 1E-16 105.8 5.6 120 3-134 403-532 (850)
16 KOG4240|consensus 99.1 5E-11 1.1E-15 103.6 5.2 104 18-134 672-780 (1025)
17 KOG0689|consensus 98.8 9.4E-10 2E-14 89.4 0.6 120 3-134 81-209 (448)
18 KOG3531|consensus 98.8 4.9E-09 1.1E-13 89.5 4.2 131 2-133 551-691 (1036)
19 KOG4269|consensus 94.7 0.0049 1.1E-07 54.1 -1.4 86 18-105 370-457 (1112)
20 KOG3524|consensus 80.9 1.8 3.9E-05 37.8 3.3 110 8-128 418-534 (850)
21 PF12210 Hrs_helical: Hepatocy 76.5 1.9 4.2E-05 28.2 1.7 43 3-48 7-54 (96)
22 PF10454 DUF2458: Protein of u 51.2 32 0.00069 24.3 4.1 32 77-108 3-34 (150)
23 cd08819 CARD_MDA5_2 Caspase ac 49.5 27 0.00059 22.5 3.2 31 78-108 48-78 (88)
24 cd08325 CARD_CASP1-like Caspas 49.3 44 0.00094 21.0 4.1 58 7-72 18-75 (83)
25 cd02641 R3H_Smubp-2_like R3H d 48.4 42 0.00092 19.7 3.8 36 98-133 3-40 (60)
26 cd08806 CARD_CARD14_CARMA2 Cas 39.7 50 0.0011 21.2 3.3 36 14-49 25-62 (86)
27 cd08789 CARD_IPS-1_RIG-I Caspa 35.1 64 0.0014 20.3 3.3 32 78-109 44-75 (84)
28 cd08812 CARD_RIG-I_like Caspas 32.7 1.3E+02 0.0028 19.0 5.9 31 79-109 47-79 (88)
29 PF03671 Ufm1: Ubiquitin fold 31.8 26 0.00056 21.8 1.0 16 58-73 59-74 (76)
30 PF14053 DUF4248: Domain of un 31.7 77 0.0017 19.3 3.1 41 81-126 20-60 (69)
31 PF06757 Ins_allergen_rp: Inse 31.1 85 0.0018 22.4 3.8 28 82-109 116-143 (179)
32 PF13174 TPR_6: Tetratricopept 30.9 42 0.0009 15.9 1.6 18 80-97 14-31 (33)
33 PF14853 Fis1_TPR_C: Fis1 C-te 29.3 76 0.0016 18.2 2.7 25 79-103 14-38 (53)
34 PF07862 Nif11: Nitrogen fixat 28.6 1.1E+02 0.0024 16.8 3.3 24 83-107 4-27 (49)
35 PRK06462 asparagine synthetase 26.3 88 0.0019 24.8 3.4 89 36-131 87-189 (335)
36 COG3512 CRISPR-associated prot 26.0 51 0.0011 21.9 1.7 28 71-98 42-69 (116)
37 TIGR00995 3a0901s06TIC22 chlor 25.5 46 0.00099 25.9 1.6 27 73-99 104-130 (270)
38 cd06571 Bac_DnaA_C C-terminal 25.5 1.2E+02 0.0027 18.9 3.4 26 83-108 63-88 (90)
39 COG4359 Uncharacterized conser 25.2 1E+02 0.0023 23.0 3.3 34 76-109 55-88 (220)
40 PF00636 Ribonuclease_3: Ribon 25.1 67 0.0014 20.6 2.2 46 60-105 5-50 (114)
41 PF00515 TPR_1: Tetratricopept 24.6 84 0.0018 15.2 2.1 19 80-98 15-33 (34)
42 PF08385 DHC_N1: Dynein heavy 24.3 4.1E+02 0.009 22.1 7.3 67 58-132 63-129 (579)
43 cd01671 CARD Caspase activatio 23.7 1.6E+02 0.0034 17.5 3.6 29 81-109 42-71 (80)
44 cd02642 R3H_encore_like R3H do 22.8 1.7E+02 0.0037 17.1 3.7 32 97-132 10-42 (63)
45 TIGR03798 ocin_TIGR03798 bacte 22.5 1.4E+02 0.0031 17.4 3.1 24 84-108 3-26 (64)
46 PF06135 DUF965: Bacterial pro 22.4 74 0.0016 20.1 1.8 61 34-105 16-76 (79)
47 PF13120 DUF3974: Domain of un 22.3 1E+02 0.0022 20.4 2.5 27 73-99 31-57 (126)
48 PF11014 DUF2852: Protein of u 21.3 98 0.0021 21.0 2.4 23 86-108 77-99 (115)
49 cd08810 CARD_BCL10 Caspase act 21.1 2E+02 0.0044 18.2 3.7 30 80-109 44-73 (84)
50 PF15602 Imm43: Immunity prote 20.1 3.4E+02 0.0074 19.7 5.1 57 29-92 20-77 (171)
No 1
>smart00325 RhoGEF Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases. Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains. Improved coverage.
Probab=99.95 E-value=1.3e-27 Score=171.68 Aligned_cols=132 Identities=29% Similarity=0.403 Sum_probs=121.8
Q ss_pred chHhHHHHHHHHHHhCC-CCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCcchHHHhhh
Q psy7075 2 KTILCRQVFEKPLKESK-ILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVRFCS 80 (135)
Q Consensus 2 ~L~~l~~~F~~pl~~~~-il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~~Y~~Yc~ 80 (135)
+|+.+.+.|..|+...+ ++++++++.||+|+++|+.+|+.|+.+|+++...| +.....+|++|.++.+.+++|..||.
T Consensus 15 ~L~~l~~~y~~~l~~~~~~~~~~~~~~iF~~i~~i~~~h~~~l~~l~~~~~~~-~~~~~~i~~~f~~~~~~~~~Y~~Y~~ 93 (180)
T smart00325 15 DLKLLVEVFLKPLKKELKLLSPNELETLFGNIEEIYEFHRDFLDELEERIEEW-DDSPERIGDVFLKLEEFFKIYSEYCS 93 (180)
T ss_pred HHHHHHHHHHHHHHHhhCCCCHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhcc-cccccHHHHHHHHhhHHHHHHHHHHH
Confidence 58899999999999987 99999999999999999999999999999986554 23478999999999888899999999
Q ss_pred cHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCC--ccchHHH--HHHHHhhhC
Q psy7075 81 CQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETET--ISPLLKL--ISPLLKEIV 135 (135)
Q Consensus 81 n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~--~~p~~~~--~~~~~~~~~ 135 (135)
|++.|.+.+++ +++|+.|+.|++.|+..+.|+++++.+ +.|+||+ |++||++|.
T Consensus 94 ~~~~~~~~l~~-~~~~~~f~~~~~~~~~~~~~~~~~l~~~L~~PvqRl~rY~lll~~l~ 151 (180)
T smart00325 94 NHPDALELLKK-LKKNPRFQKFLKEIESSPQCRRLTLESLLLKPVQRLTKYPLLLKELL 151 (180)
T ss_pred hHHHHHHHHHH-hhcChhHHHHHHHHhCChhhccCCHHHHHhHHHHHhccHHHHHHHHH
Confidence 99999999999 569999999999999999999999999 5999999 999999873
No 2
>KOG3520|consensus
Probab=99.94 E-value=4.5e-27 Score=202.90 Aligned_cols=132 Identities=27% Similarity=0.367 Sum_probs=124.1
Q ss_pred chHhHHHHHHHHHHhCCCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCC-----c-chH
Q psy7075 2 KTILCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPR-----M-TAY 75 (135)
Q Consensus 2 ~L~~l~~~F~~pl~~~~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~-----~-~~Y 75 (135)
.|+++..+|++||.++++++++.+..||.|+++|+++|..|+.+|++|++++. ..+..|||+++.+|++ | ++|
T Consensus 408 TLKIl~~vF~q~m~~e~~~~~~~l~~LFP~LdeL~eiH~~f~~~lk~rr~e~~-~vI~~IGDlLl~~FsGe~ae~L~~~~ 486 (1167)
T KOG3520|consen 408 TLKILDRVFYQPMMEELLFPQEELNKLFPCLDELIEIHSSFLQRLKERRKESL-VVIKRIGDLLLDQFSGENAERLKKTY 486 (1167)
T ss_pred HHHHHHHHHHHHHHHhccCCHHHHHHhcccHHHHHHHHHHHHHHHHHHHHhcc-chHHHHHHHHHHHcCchHHHHHHHHH
Confidence 38999999999999999999999999999999999999999999999987762 2499999999999997 4 999
Q ss_pred HHhhhcHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCCccc--hHHH--HHHHHhhh
Q psy7075 76 VRFCSCQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETETISP--LLKL--ISPLLKEI 134 (135)
Q Consensus 76 ~~Yc~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~~~p--~~~~--~~~~~~~~ 134 (135)
++||+||..|++.++.+.+++++|++|+++++++|.||+|+|.+++| +||| ||+||.-|
T Consensus 487 a~FCs~q~~ALe~~K~k~~KD~rFq~fvkkaeS~p~cRRL~lkd~I~~v~QRLTKYPLLle~I 549 (1167)
T KOG3520|consen 487 AQFCSRQSIALEQLKTKQAKDKRFQAFVKKAESNPVCRRLGLKDCILLVTQRLTKYPLLLERI 549 (1167)
T ss_pred HHHhhccHHHHHHHHHHHhccHHHHHHHHHhhcchHHHhhcchHHHHHHHHHHhhchHHHHHH
Confidence 99999999999999999999999999999999999999999999766 6999 99999866
No 3
>KOG4305|consensus
Probab=99.94 E-value=4.6e-27 Score=201.93 Aligned_cols=132 Identities=36% Similarity=0.565 Sum_probs=126.9
Q ss_pred chHhHHHHHHHHHHhCCCCCHHh----HhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCcchHHH
Q psy7075 2 KTILCRQVFEKPLKESKILTREE----HGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVR 77 (135)
Q Consensus 2 ~L~~l~~~F~~pl~~~~il~~~~----~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~~Y~~ 77 (135)
+|+++++.|++||.+++++++++ +..+|+|+++|+.+|..||.+|..|++.. +.+++|||||+.|.|.|++|..
T Consensus 353 dLel~re~y~kpl~~S~iipE~~~~~Fi~~vF~n~~~ii~ln~~LL~aL~~r~k~~--G~V~~IGdIll~~lp~~~~yi~ 430 (1029)
T KOG4305|consen 353 DLELAREIYRKPLLESSIIPEQERAEFIAHVFGNIEEIIQLNEKLLKALRVRQKLS--GVVEGIGDILLAWLPKAEPYIS 430 (1029)
T ss_pred HHHHHHHHHhChHhhhccCccchhHHHHHHHHhhHHHHHHHHHHHHHHHHHhhccC--CccchHHHHHHHHhhhhhHHHH
Confidence 68999999999999999999999 99999999999999999999999987665 5899999999999999999999
Q ss_pred hhhcHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCCc--cchHHH--HHHHHhhhC
Q psy7075 78 FCSCQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETETI--SPLLKL--ISPLLKEIV 135 (135)
Q Consensus 78 Yc~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~~--~p~~~~--~~~~~~~~~ 135 (135)
||+||..|..+++..++.||+|++|+++|+++|+|++|+|.+| .|++|| |+.||++|.
T Consensus 431 Y~a~q~~ak~lie~k~k~n~~Fa~fl~~~~~sp~~rkl~L~~FL~kp~sRl~RYpLllr~IL 492 (1029)
T KOG4305|consen 431 YGANQAYAKALIEQKKKQNPRFARFLKECESSPESRKLDLVSFLTKPTSRLQRYPLLLREIL 492 (1029)
T ss_pred HHhhhHHHHHHHHHHhccCchHHHHHHHHHhChhhhccchhhhhccccchhheeeHHHHHHH
Confidence 9999999999999999999999999999999999999999996 999999 999999984
No 4
>cd00160 RhoGEF Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.
Probab=99.94 E-value=5.7e-26 Score=163.17 Aligned_cols=131 Identities=30% Similarity=0.415 Sum_probs=120.8
Q ss_pred chHhHHHHHHHHHHhCCC-CCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCcchHHHhhh
Q psy7075 2 KTILCRQVFEKPLKESKI-LTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVRFCS 80 (135)
Q Consensus 2 ~L~~l~~~F~~pl~~~~i-l~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~~Y~~Yc~ 80 (135)
.|+.+.+.|..|+...+. +++++++.||+|+++|+++|+.|+.+|+.+...|+ .....||++|.++.+.+++|..||.
T Consensus 18 ~L~~l~~~y~~~l~~~~~~~~~~~~~~iF~~i~~i~~~h~~~l~~l~~~~~~~~-~~~~~i~~~f~~~~~~~~~Y~~Y~~ 96 (181)
T cd00160 18 DLKLLVEVFLKPLDKELLPLSPEEVELLFGNIEEIYEFHRIFLKSLEERVEEWD-KSGPRIGDVFLKLAPFFKIYSEYCS 96 (181)
T ss_pred HHHHHHHHHHHHHHhccCCCCHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhccC-cccchHHHHHHHhhhHHHHHHHHHh
Confidence 588999999999999888 99999999999999999999999999999865552 2467899999999998899999999
Q ss_pred cHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCC--ccchHHH--HHHHHhhhC
Q psy7075 81 CQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETET--ISPLLKL--ISPLLKEIV 135 (135)
Q Consensus 81 n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~--~~p~~~~--~~~~~~~~~ 135 (135)
|++.|.+.++++++.++.|++|.+.++. .++++++.+ +.|+||+ |++||++|.
T Consensus 97 ~~~~~~~~l~~~~~~~~~f~~~~~~~~~--~~~~~~l~~~L~~PvQRl~rY~lLL~~l~ 153 (181)
T cd00160 97 NHPDALELLKKLKKFNKFFQEFLEKAES--ECGRLKLESLLLKPVQRLTKYPLLLKELL 153 (181)
T ss_pred ChHHHHHHHHHHHHccHHHHHHHHHHHH--hcccCCHHHHhhhhHHHhchHHHHHHHHH
Confidence 9999999999999899999999999988 789999998 5999999 999999973
No 5
>KOG4424|consensus
Probab=99.92 E-value=2e-25 Score=181.55 Aligned_cols=123 Identities=24% Similarity=0.319 Sum_probs=115.4
Q ss_pred chHhHHHHHHHHHHhCCCCCHHhHhcccCChHHHHHHHHH-HHHHHHHHHhhcCCCCccchHHHHHhhCCCcchHHHhhh
Q psy7075 2 KTILCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHM-FLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVRFCS 80 (135)
Q Consensus 2 ~L~~l~~~F~~pl~~~~il~~~~~~~iF~NieeI~~~~~~-fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~~Y~~Yc~ 80 (135)
+|+++.++|+.+|.....++++.+..|||||..|+.+|.. |+..|+.| .|||||.+.+|+||+|++|..
T Consensus 84 ~L~lLd~~F~~~L~~~~~~~~~~v~~lf~nIssi~~fh~qfllp~l~~r----------~Iadv~qKlAPFLKmYseY~k 153 (623)
T KOG4424|consen 84 RLHLLDQVFCRRLLEEASIPADVITGLFGNISSIHNFHGQFLLPELEKR----------IIADVFQKLAPFLKMYSEYAK 153 (623)
T ss_pred HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHhhhHHHhh----------HHHHHHHHhhhHHHHHHHHHh
Confidence 5899999999999999999999999999999999999954 55777654 299999999999999999999
Q ss_pred cHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCC--ccchHHH--HHHHHhhh
Q psy7075 81 CQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETET--ISPLLKL--ISPLLKEI 134 (135)
Q Consensus 81 n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~--~~p~~~~--~~~~~~~~ 134 (135)
||++|+++++.+.+++|.|+.+++++++.|.|++|.|++ |.||||+ |..||||.
T Consensus 154 nydrA~~L~~~lt~rsp~F~~vl~~Iek~~~cg~l~LqhhMiePVQRIPRYeLLLk~y 211 (623)
T KOG4424|consen 154 NYDRALKLFQTLTSRSPQFRKVVEEIEKQPECGGLKLQHHMIEPVQRVPRYELLLQDY 211 (623)
T ss_pred cchhHHHHHHHHHhhChHHHHHHHHHhhchhcCCccchhheechhhhhhHHHHHHHHH
Confidence 999999999999999999999999999999999999998 7999999 99999985
No 6
>KOG3523|consensus
Probab=99.91 E-value=1.6e-24 Score=177.04 Aligned_cols=130 Identities=22% Similarity=0.356 Sum_probs=121.0
Q ss_pred hHhHHHHHHHHHHhCCCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCC-cchHHHhhhc
Q psy7075 3 TILCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPR-MTAYVRFCSC 81 (135)
Q Consensus 3 L~~l~~~F~~pl~~~~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~-~~~Y~~Yc~n 81 (135)
|+++++.|+.--....++++.|.+.+|+||.++.++++.|+.+|+.|... +..+..|+||..+|++. |.+|..||+|
T Consensus 276 Lnllv~hF~~s~~l~~~Ls~~d~~~LFSni~~V~~~Serfl~dLE~r~e~--ni~i~dicDiv~~ha~~~f~vYv~Y~tN 353 (695)
T KOG3523|consen 276 LNLLVDHFMNSKELRSTLSASDRHHLFSNIQDVREVSERFLCDLEARLEE--NIFIDDICDIVEDHAAKHFSVYVKYCTN 353 (695)
T ss_pred HHHHHHHHhhhHHHHHhcChHHHHHHHhhhHHHHHHHHHHHHHHHHHHHh--CchhhHHHHHHHHhcccccceeehhccc
Confidence 78999999999777799999999999999999999999999999998432 35589999999999986 6999999999
Q ss_pred HHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCCc--cchHHH--HHHHHhhh
Q psy7075 82 QLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETETI--SPLLKL--ISPLLKEI 134 (135)
Q Consensus 82 ~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~~--~p~~~~--~~~~~~~~ 134 (135)
|.....++++++.+|++|++.|++.+++|.|++|+|.|| +|+||+ ++.|++-|
T Consensus 354 Q~YQeRT~qrL~~~n~~F~e~l~rLE~~p~C~~Lpl~SFLiLPmQRITRL~LLl~nI 410 (695)
T KOG3523|consen 354 QVYQERTLQRLLTENPAFREVLERLESSPKCQGLPLRSFLILPMQRITRLPLLLDNI 410 (695)
T ss_pred hHHHHHHHHHHHhcChHHHHHHHHHhcCccccCCCchhhhhchHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999995 999999 88888876
No 7
>PF00621 RhoGEF: RhoGEF domain; InterPro: IPR000219 The Rho family GTPases Rho, Rac and CDC42 regulate a diverse array of cellular processes. Like all members of the Ras superfamily, the Rho proteins cycle between active GTP-bound and inactive GDP-bound conformational states. Activation of Rho proteins through release of bound GDP and subsequent binding of GTP, is catalysed by guanine nucleotide exchange factors (GEFs) in the Dbl family. The proteins encoded by members of the Dbl family share a common domain, presented in this entry, of about 200 residues (designated the Dbl homology or DH domain) that has been shown to encode a GEF activity specific for a number of Rho family members. In addition, all family members possess a second, shared domain designated the pleckstrin homology (PH) domain (IPR001849 from INTERPRO). Trio and its homologue UNC-73 are unique within the Dbl family insomuch as they encode two distinct DH/PH domain modules. The PH domain is invariably located immediately C-terminal to the DH domain and this invariant topography suggests a functional interdependence between these two structural modules. Biochemical data have established the role of the conserved DH domain in Rho GTPase interaction and activation, and the role of the tandem PH domain in intracellular targeting and/or regulation of DH domain function. The DH domain of Dbl has been shown to mediate oligomerisation that is mostly homophilic in nature. In addition to the tandem DH/PH domains Dbl family GEFs contain diverse structural motifs like serine/threonine kinase, RBD, PDZ, RGS, IQ, REM, Cdc25, RasGEF, CH, SH2, SH3, EF, spectrin or Ig. The DH domain is composed of three structurally conserved regions separated by more variable regions. It does not share significant sequence homology with other subtypes of small G-protein GEF motifs such as the Cdc25 domain and the Sec7 domain, which specifically interact with Ras and ARF family small GTPases, respectively, nor with other Rho protein interactive motifs, indicating that the Dbl family proteins are evolutionarily unique. The DH domain is composed of 11 alpha helices that are folded into a flattened, elongated alpha-helix bundle in which two of the three conserved regions, conserved region 1 (CR1) and conserved region 3 (CR3), are exposed near the centre of one surface. CR1 and CR3, together with a part of alpha-6 and the DH/PH junction site, constitute the Rho GTPase interacting pocket.; GO: 0005089 Rho guanyl-nucleotide exchange factor activity, 0035023 regulation of Rho protein signal transduction, 0005622 intracellular; PDB: 3MPX_A 2RGN_E 2Z0Q_A 3T06_A 3KZ1_A 1XCG_E 2KR9_A 1BY1_A 1RJ2_J 1KZG_C ....
Probab=99.91 E-value=4.7e-24 Score=152.08 Aligned_cols=131 Identities=29% Similarity=0.457 Sum_probs=121.5
Q ss_pred chHhHHHHHHHHHHh-CCCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCcchHHHhhh
Q psy7075 2 KTILCRQVFEKPLKE-SKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVRFCS 80 (135)
Q Consensus 2 ~L~~l~~~F~~pl~~-~~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~~Y~~Yc~ 80 (135)
+|+.+.+.|+.|+.. .+.+++.+++.+|+|+++|+++|+.|+.+|+.+...+ .....||++|+...+.+.+|..||+
T Consensus 15 ~L~~l~~~~~~~l~~~~~~l~~~~~~~lf~~i~~l~~~h~~ll~~L~~~~~~~--~~~~~i~~if~~~~~~~~~Y~~Y~~ 92 (180)
T PF00621_consen 15 DLEILVEVFLKPLRKRSPLLSEDEIKSLFGNIEELIEIHQQLLESLEERMKEW--SNIQSIGDIFLKFEPFLKVYISYCS 92 (180)
T ss_dssp HHHHHHHHTHHHHHHHTTSSHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHTT--SSGGGHHHHHHHHTTGGHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhccccCCHHHHHHHhcchhhhhhHHHHHHHHHHHHHHhh--hccchhhhhhhhccccccceeccch
Confidence 588999999999999 8999999999999999999999999999999976443 5588999999997777799999999
Q ss_pred cHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCC--ccchHHH--HHHHHhhh
Q psy7075 81 CQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETET--ISPLLKL--ISPLLKEI 134 (135)
Q Consensus 81 n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~--~~p~~~~--~~~~~~~~ 134 (135)
|++.+..+++++.+.+..|..|++.++.+|.++++++.+ +.|+||+ |+.+|++|
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~l~~Piqrl~rY~lll~~l 150 (180)
T PF00621_consen 93 NYPDALSLLEELRKKNSEFKKFLEEIENSPESKRLSLSSLLIKPIQRLPRYPLLLKRL 150 (180)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTSHHCTTSTHHHHTTHHHHHHHHHHHHHHHH
T ss_pred heechhhhhhHHHhhccccccccccccccccccCCCHHHHHHHhhhHHHHHHHHHHHH
Confidence 999999999999988888999999999999999999998 5999999 99999987
No 8
>KOG2996|consensus
Probab=99.91 E-value=6.4e-24 Score=173.23 Aligned_cols=128 Identities=20% Similarity=0.305 Sum_probs=120.3
Q ss_pred hHhHHHHHHHHHHhCCCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCcchHHHhhhcH
Q psy7075 3 TILCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVRFCSCQ 82 (135)
Q Consensus 3 L~~l~~~F~~pl~~~~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~~Y~~Yc~n~ 82 (135)
|..|.+.|+.||+ ++|++.+..+||+|||||..+|+.|+.+++...+..+ .+++|+||+++.++|-+|+.||+|-
T Consensus 216 L~sI~k~f~~PLk--~~l~~ad~~ivFiNieel~klHt~ll~ei~~sv~v~~---~qtl~qVFikyker~liYG~YCS~~ 290 (865)
T KOG2996|consen 216 LESIEKTFMEPLK--RFLPPADYNIVFINIEELNKLHTALLAEIEYSVKVAG---GQTLYQVFIKYKERLLIYGKYCSNV 290 (865)
T ss_pred HHHHHHHHHHHHH--hcCChhhhheeEecHHHHHHHHHHHHHHhHHHhhCCC---cccHHHHHHHHHHHHhhhhhhhccc
Confidence 6789999999999 9999999999999999999999999999998765542 4799999999999999999999999
Q ss_pred HHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCCc--cchHHH--HHHHHhhhC
Q psy7075 83 LSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETETI--SPLLKL--ISPLLKEIV 135 (135)
Q Consensus 83 ~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~~--~p~~~~--~~~~~~~~~ 135 (135)
+.|.+++.++.+.+..++.-+++|.....-++..|.|+ .|+||+ ||+||||+|
T Consensus 291 e~a~k~ln~llktrEdv~~kleEct~r~nngkF~l~DLL~VPmQRvlKYhLLLkEL~ 347 (865)
T KOG2996|consen 291 ESARKLLNELLKTREDVSRKLEECTARANNGKFTLRDLLVVPMQRVLKYHLLLKELV 347 (865)
T ss_pred hHHHHHHHHHHHHhHHHHHHHHHHHhhhcCCceeeceeeeeeHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999888789999995 899999 999999986
No 9
>KOG2070|consensus
Probab=99.73 E-value=5.2e-18 Score=136.67 Aligned_cols=127 Identities=24% Similarity=0.383 Sum_probs=112.1
Q ss_pred hHhHHHHHHHHHHhCCCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCc-chHHHhhhc
Q psy7075 3 TILCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRM-TAYVRFCSC 81 (135)
Q Consensus 3 L~~l~~~F~~pl~~~~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~-~~Y~~Yc~n 81 (135)
|+.+.+.|+.||..+.+||..+...+.||+++|+.+++.++.+|+++.+.. ...+++|.+|+..+|.| .+|..||.|
T Consensus 120 Lq~lL~t~L~Plq~s~iLs~~ey~~LmgNfeeI~t~~qdL~~qlEec~~~~--~~q~RVGg~fln~ap~mkt~~~aYcan 197 (661)
T KOG2070|consen 120 LQTLLSTYLRPLQTSEILSSAEYSYLMGNFEEICTFQQDLVQQLEECTKLP--EAQQRVGGCFLNLAPQMKTLYLAYCAN 197 (661)
T ss_pred HHHHHHHHHhhhhhccccchHHHHHHhcchHHhHhHHHHHHHHHHHhhcCc--hhhhhhhhHHHhhhHHHHHHHHHHHhc
Confidence 677889999999999999999999999999999999999999999986554 33789999999999999 899999999
Q ss_pred HHHHHHHHHHHHhcCHhHHHHHHHH-hccccccCccCCCccchHHH--HHHHHhhh
Q psy7075 82 QLSAAALLQKLTDQSPEFKTISKKC-RWISRIFLLETETISPLLKL--ISPLLKEI 134 (135)
Q Consensus 82 ~~~A~~~L~~l~~~n~~F~~fl~~~-~~~p~c~~L~L~~~~p~~~~--~~~~~~~~ 134 (135)
|+.|+.+|.+.++ +...|++.. .+.|...-|.+.-.+|+.|| |++||+|+
T Consensus 198 HP~AV~VL~k~~d---ELek~me~Qgasspg~lvLttgLSkPfrrldkY~~lLQEL 250 (661)
T KOG2070|consen 198 HPSAVNVLTKHSD---ELEKFMETQGASSPGILVLTTGLSKPFRRLDKYPTLLQEL 250 (661)
T ss_pred CchhhhHHHHhHH---HHHHHHHhcCCCCCCeEEEecccchHHHHHHHHHHHHHHH
Confidence 9999999998874 455555443 34688888888889999999 99999996
No 10
>KOG3518|consensus
Probab=99.73 E-value=2.1e-17 Score=128.60 Aligned_cols=126 Identities=16% Similarity=0.198 Sum_probs=110.7
Q ss_pred chHhHHHHHHHHHHhC---CCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCcchHHHh
Q psy7075 2 KTILCRQVFEKPLKES---KILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVRF 78 (135)
Q Consensus 2 ~L~~l~~~F~~pl~~~---~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~~Y~~Y 78 (135)
||+.|++.|+.-+++. --+.-+.+..+||||++|+.+|.+++.+|+.. +..-..|+.+|.+-...|..|.+|
T Consensus 139 dl~aiie~yld~i~edqeklkl~ldaisalfg~ie~ifafnkel~n~ldaa-----dld~v~ia~cfve~s~efe~yiey 213 (521)
T KOG3518|consen 139 DLKAIIEDYLDCIREDQEKLKLGLDAISALFGCIEDIFAFNKELLNDLDAA-----DLDCVAIAECFVEKSEEFEDYIEY 213 (521)
T ss_pred HHHHHHHHHHHHHHhhHhhccCcHHHHHHHhhhHHHHHHHHHHHHHHHhhc-----ccchHHHHHHHHhcchhHHHHHHH
Confidence 6889999999999843 35778999999999999999999999999964 334557999999999999999999
Q ss_pred hhcHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCC--ccchHHH--HHHHHhhh
Q psy7075 79 CSCQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETET--ISPLLKL--ISPLLKEI 134 (135)
Q Consensus 79 c~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~--~~p~~~~--~~~~~~~~ 134 (135)
|.||...+.+|.+++ .||-.+.++++.+..- -..|+|++ ++||||+ |+++|.||
T Consensus 214 ctny~rmmatl~~~~-q~~ilaka~qerq~al-~hsl~l~ayllkpvqrilkyhlfle~i 271 (521)
T KOG3518|consen 214 CTNYHRMMATLTECM-QNKILAKAFQERQEAL-KHSLPLGAYLLKPVQRILKYHLFLEEI 271 (521)
T ss_pred HhhhHHHHHHHHHHH-HhHHHHHHHHHHHHHH-hcccchhHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999 8999999988776643 36888887 6999999 99999987
No 11
>KOG3519|consensus
Probab=99.63 E-value=7.7e-16 Score=132.20 Aligned_cols=133 Identities=19% Similarity=0.318 Sum_probs=115.2
Q ss_pred chHhHHHHHHHH-HHhCCCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhc-CCCCccchHHHHHhhCCCcchHHHhh
Q psy7075 2 KTILCRQVFEKP-LKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMS-SKGDIRMIGDILCEHLPRMTAYVRFC 79 (135)
Q Consensus 2 ~L~~l~~~F~~p-l~~~~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~-~~~~~~~IGdvfl~~~~~~~~Y~~Yc 79 (135)
+|..+.+.|..| .+....++.+.++.+|||+++++.++..|++.|++..... -......||.+|+.+.+.|.+|.+||
T Consensus 354 ~L~~~~~~yl~~~~k~~~~~~~~~~~~~f~ni~~i~~f~~~fl~~L~~~~~~~~~~~~~~~ig~~fL~~~~~f~~ys~yc 433 (756)
T KOG3519|consen 354 DLNALCEGYLPPQNKRARGLSVNQLDLLFGNIEDILRFQKEFLKTLEQQINPELIPPSLSEIGPVFLEQLDVFKIYSEYC 433 (756)
T ss_pred HHHHHHHHhhhHHhhhhccccHHHHHHHccCHHHHHHHHHHHHHHHHHhcchhhcchhHhHHHHHHHHhcccceeechhh
Confidence 477888999999 5666899999999999999999999999999999863211 02347899999999999999999999
Q ss_pred hcHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCC--ccchHHH--HHHHHhhhC
Q psy7075 80 SCQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETET--ISPLLKL--ISPLLKEIV 135 (135)
Q Consensus 80 ~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~--~~p~~~~--~~~~~~~~~ 135 (135)
++|+.|...+.+++ +++++++|+..|...-.-.+.+|++ ++|+||+ ||+||+|+.
T Consensus 434 ~~h~~~~~~l~~~~-~~~~~~~~l~~~~~~~~~~~~~L~s~l~~pvqri~kYPLll~ell 492 (756)
T KOG3519|consen 434 NNHPKAQKKLSKLK-KKKKVKEFLEACNLLQQHSNSSLSSFLLKPVQRICKYPLLLNELL 492 (756)
T ss_pred hccchHHHHHHHHh-hhhhhhhhhhhhhhhhccccCCchhhhccHHHHhccCchhhhhhh
Confidence 99999999999999 9999999999998865544466766 6999999 999999874
No 12
>KOG3521|consensus
Probab=99.60 E-value=4.2e-15 Score=123.26 Aligned_cols=133 Identities=14% Similarity=0.184 Sum_probs=108.9
Q ss_pred chHhHHHHHHHHH---HhCCCCCHHhHhcccCChHHHHHHHHHHHHHHHH-----HHhhcCCCCccchHHHHHhhCCCcc
Q psy7075 2 KTILCRQVFEKPL---KESKILTREEHGQIFVNWKEIIVCNHMFLRALRV-----RRDMSSKGDIRMIGDILCEHLPRMT 73 (135)
Q Consensus 2 ~L~~l~~~F~~pl---~~~~il~~~~~~~iF~NieeI~~~~~~fl~~L~~-----r~~~~~~~~~~~IGdvfl~~~~~~~ 73 (135)
||.++.+.|..-| +++|+|-+-+...+|+|+..|.++|..|-...-. .+...+-......-.-|+.+..-|+
T Consensus 195 kL~~~tdlllacL~nlQe~GlL~dVeaerlFsNv~~l~~~n~slW~~~l~P~laksr~TgepLd~~~lq~GFl~f~s~f~ 274 (846)
T KOG3521|consen 195 KLLRYTDLLLACLLNLQECGLLKDVEAERLFSNVPTLFNVNRSLWLQVLEPILAKSRETGEPLDPNYLQNGFLDFGSWFR 274 (846)
T ss_pred HHHHHHHHHHHHHHHHHhcchhhhhHHHHHhhchHHHHHHHHHHHHHHHHHHHHHHHhhCCCCChHHHHHHHHHHHHhhh
Confidence 5777777776555 5679999999999999999999999887654432 1111110112233455888888899
Q ss_pred hHHHhhhcHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCC--ccchHHH--HHHHHhhh
Q psy7075 74 AYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETET--ISPLLKL--ISPLLKEI 134 (135)
Q Consensus 74 ~Y~~Yc~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~--~~p~~~~--~~~~~~~~ 134 (135)
+|..||-.+...+++.+++.++|+-|+.|+.+|+..+.|.++.|.| .+|+||| |++|||-+
T Consensus 275 pY~~ycle~s~cm~y~rel~~~n~lFrafvtW~Ekqk~c~RqkL~D~l~kPmQRLTKY~LLLkAV 339 (846)
T KOG3521|consen 275 PYTNYCLEHSDCMKYIRELLKENELFRAFVTWAEKQKNCDRQKLIDTLSKPMQRLTKYPLLLKAV 339 (846)
T ss_pred HHHHHHHHHhHHHHHHHHHhccchHHHHHHHHHHhhhhhhhHHHHHHhhhHHHHhhhhHHHHHHH
Confidence 9999999999999999999999999999999999999999999999 4999999 99999975
No 13
>COG5422 ROM1 RhoGEF, Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases [Signal transduction mechanisms]
Probab=99.54 E-value=5.5e-15 Score=125.48 Aligned_cols=132 Identities=23% Similarity=0.384 Sum_probs=120.0
Q ss_pred chHhHHHHHHHHHHhCCCCCHH----hHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCcchHHH
Q psy7075 2 KTILCRQVFEKPLKESKILTRE----EHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVR 77 (135)
Q Consensus 2 ~L~~l~~~F~~pl~~~~il~~~----~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~~Y~~ 77 (135)
+|+.+.+.|++||.+.++|++. .++.+|.|+-+|+.+|..|+.+|..|+.. .+.+.+|||||+++.|.|.++..
T Consensus 502 ~le~lRD~~~K~L~~sn~Ip~n~r~~Fik~vf~~i~~i~avn~k~~~AL~~rQ~l--sPiv~~I~DifL~~vP~Fepfik 579 (1175)
T COG5422 502 DLEYLRDTWIKPLEESNIIPENARRNFIKHVFANINEIYAVNSKLLKALTNRQCL--SPIVNGIADIFLDYVPKFEPFIK 579 (1175)
T ss_pred hhHHHHHHHHHHHHHcCcCchhhHHHHHHHHHHHHHHHHHhhHHHHHHHhhcccc--cccccchHHHHHhhhhhhhHHHH
Confidence 6899999999999999999874 78999999999999999999999998644 36699999999999999999999
Q ss_pred hhhcHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCCc--cchHHH--HHHHHhhhC
Q psy7075 78 FCSCQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETETI--SPLLKL--ISPLLKEIV 135 (135)
Q Consensus 78 Yc~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~~--~p~~~~--~~~~~~~~~ 135 (135)
|..+++.|.-.+++.+..||.|+.|....+.-...+++.+.++ .|+-|+ |++|++|+.
T Consensus 580 y~a~~~yaky~~erekS~np~fa~Fd~~v~rl~~s~k~~ld~yLtk~~tr~~Ry~lL~e~vl 641 (1175)
T COG5422 580 YGASQPYAKYEFEREKSVNPNFARFDHEVERLDESRKLELDGYLTKPTTRLARYPLLLEEVL 641 (1175)
T ss_pred hhcccchhheeeeeccccCcchhhhhHHHHhcchhhhhcccceecCCcccchhhHHHHhhhc
Confidence 9999999999999999999999999999996566677777775 899999 999999873
No 14
>KOG3522|consensus
Probab=99.50 E-value=3e-14 Score=120.65 Aligned_cols=98 Identities=19% Similarity=0.326 Sum_probs=89.6
Q ss_pred hHhHHHHHHHHHHhC-CCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCC---cchHHHh
Q psy7075 3 TILCRQVFEKPLKES-KILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPR---MTAYVRF 78 (135)
Q Consensus 3 L~~l~~~F~~pl~~~-~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~---~~~Y~~Y 78 (135)
|+.+++-|.+||.+. .++++.+++.||-||.||+++|+.|+++|+.|...| ...+.+|+.|..+++. +.+|+.|
T Consensus 19 L~t~vd~y~qpL~~~~~l~~~~~~~eif~~i~ell~~he~fl~~l~s~~~~w--~~qq~vga~~v~~fSk~~v~~~Y~~y 96 (925)
T KOG3522|consen 19 LHTGVDRYVQPLKERKVLIDPRDVDEIFQNIPELLEIHEDFLEQLCSRDQQW--DEQQKVGASFVYSFSKTAVLAAYSKY 96 (925)
T ss_pred HHHHHHHhhccccccccccCCchHHHHHHhhHHHHHHHHHHHHHHHhhhhhh--HHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 678999999999986 566779999999999999999999999999997666 4589999999999987 3999999
Q ss_pred hhcHHHHHHHHHHHHhcCHhHHHHHH
Q psy7075 79 CSCQLSAAALLQKLTDQSPEFKTISK 104 (135)
Q Consensus 79 c~n~~~A~~~L~~l~~~n~~F~~fl~ 104 (135)
|+|..+|..++...+ .|+|..|++
T Consensus 97 ~nn~~~A~~~l~~~~--rpaf~~Fl~ 120 (925)
T KOG3522|consen 97 VNNFKRAKCALRNKK--RPAFSKFLE 120 (925)
T ss_pred HhchhHHHHHHHHhc--chHHHHHHH
Confidence 999999999999886 899999998
No 15
>KOG3524|consensus
Probab=99.28 E-value=4.8e-12 Score=105.82 Aligned_cols=120 Identities=21% Similarity=0.185 Sum_probs=103.5
Q ss_pred hHhHHHHHHHHHHhC-----CCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCc-chHH
Q psy7075 3 TILCRQVFEKPLKES-----KILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRM-TAYV 76 (135)
Q Consensus 3 L~~l~~~F~~pl~~~-----~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~-~~Y~ 76 (135)
|+.+...|..++... +++.+.++.+||||.++|..+|+...+.+++-.+.|.+. . +.+ ++|-
T Consensus 403 l~Ti~~lf~~kleei~e~~~pil~~~eiktifgn~l~I~~vh~k~~D~l~~l~~nw~e~--k----------~el~kayp 470 (850)
T KOG3524|consen 403 LRTIVALFFGKLEEILELHEPILARLEIKTIFGNTLLIVVVHKKNDDKLLDLAQNWIEA--K----------EELKKAYP 470 (850)
T ss_pred HHHHHHHHhhhHHHHHHhCCcccCchhhcccccCchhhhhhhccchHHHHHHHHhhHHH--H----------HHHHHhcc
Confidence 456777888777643 799999999999999999999999999999876666332 1 333 6788
Q ss_pred HhhhcHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCC--ccchHHH--HHHHHhhh
Q psy7075 77 RFCSCQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETET--ISPLLKL--ISPLLKEI 134 (135)
Q Consensus 77 ~Yc~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~--~~p~~~~--~~~~~~~~ 134 (135)
.|.+-++..-.+++.+.+++|+|.+|++.=++.|+|+++.|.+ +.|+||| +.+||+++
T Consensus 471 pyvnffet~ke~~~~cdre~prfhaflKinq~kpecgRq~l~dlmirpvqrlpsvilllndl 532 (850)
T KOG3524|consen 471 PYVNFFETIKELFDKCDRENPRFHAFLKINQSKPECGRQKLTDLMIRPVQRLPSVILLLNDM 532 (850)
T ss_pred chhhHHHHhHHHHHHHhccchHHHHHHHccccchhhhhhcccchhccchhhhhHHHHHHHHH
Confidence 8888899999999999999999999999999999999999998 6999999 88999886
No 16
>KOG4240|consensus
Probab=99.14 E-value=5e-11 Score=103.60 Aligned_cols=104 Identities=20% Similarity=0.315 Sum_probs=80.4
Q ss_pred CCCCHHhHhcccCChHHHHHHHHH-HHHHHHHHHhhcCCCCccchHHHHHhhCCCcchHHHhhhcHHHHHHHHHHHHhcC
Q psy7075 18 KILTREEHGQIFVNWKEIIVCNHM-FLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQS 96 (135)
Q Consensus 18 ~il~~~~~~~iF~NieeI~~~~~~-fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~~Y~~Yc~n~~~A~~~L~~l~~~n 96 (135)
++|. -..+||||+++|+++|.. |+..|+.... ....+|++|++|.+.|.+|..||.|.+.+..+..... .-
T Consensus 672 ~~Ln--k~~~ifgnmeeiy~fhn~~~L~eLe~y~~-----~pE~Vg~~fle~~d~fqly~~Yc~nke~S~ql~~~~a-~~ 743 (1025)
T KOG4240|consen 672 PLLN--KKEIIFGNMEEIYEFHNDIFLSELEKYEQ-----LPEDVGHCFLERADDFQLYAKYCQNKELSNQLIRLHA-GC 743 (1025)
T ss_pred cccc--hHHHHHhhHHHHHHHHhhHHHHHhhhhcc-----CHHHHHHHHHHHHHHHHHHHHHHhCCcchHHHHHhcc-cc
Confidence 4555 788999999999999755 9999997533 3458999999999999999999999999998888776 44
Q ss_pred HhHHHHHHHHhcc--ccccCccCCCccchHHH--HHHHHhhh
Q psy7075 97 PEFKTISKKCRWI--SRIFLLETETISPLLKL--ISPLLKEI 134 (135)
Q Consensus 97 ~~F~~fl~~~~~~--p~c~~L~L~~~~p~~~~--~~~~~~~~ 134 (135)
+-|. .|++. ++. .++-.-|+||||+ |..||||+
T Consensus 744 ~ff~----e~qr~~~l~l-~~~S~l~kpvqritkYqlllkel 780 (1025)
T KOG4240|consen 744 SFFQ----EIQRRHGLEL-SISSYLIKPVQRITKYQLLLKEL 780 (1025)
T ss_pred cccH----HHHHHhhhhh-hhHHHHhHHHHHHHHHHHHHHHH
Confidence 4443 34332 222 2222338999999 99999986
No 17
>KOG0689|consensus
Probab=98.81 E-value=9.4e-10 Score=89.42 Aligned_cols=120 Identities=18% Similarity=0.203 Sum_probs=86.6
Q ss_pred hHhHHHHHHHHHHhCC---CCCHHhHhcccCChHHHHHHHHHH-HHHHHHHHhhcCCCCccchHHHHHhhCCCcc-hHHH
Q psy7075 3 TILCRQVFEKPLKESK---ILTREEHGQIFVNWKEIIVCNHMF-LRALRVRRDMSSKGDIRMIGDILCEHLPRMT-AYVR 77 (135)
Q Consensus 3 L~~l~~~F~~pl~~~~---il~~~~~~~iF~NieeI~~~~~~f-l~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~-~Y~~ 77 (135)
|..+.+.|+.++.+.+ -+. ..-+.||||+.+|+++|..+ +.+++...+. ....|.+|++|...+. .|..
T Consensus 81 l~~~~~~y~~~~~~~~lp~~lr-g~~~iifgni~~i~~~h~~~fl~e~e~~~r~-----~~~~~~~f~kh~~k~~~~y~~ 154 (448)
T KOG0689|consen 81 LKSVVENYIELLDAEDLPEDLR-GKDKIIFGNIKEIYEFHKKEFLPELERCERD-----PLELGQAFAKHERKNSVLYVT 154 (448)
T ss_pred cccccccccccccccCCChhcc-CCceeeechHHHHHHhhcccCcchHHHhhhC-----HHHHHHHHHHHHHHhhhhhhh
Confidence 4455566666665431 111 13678999999999999886 8888865322 4689999999999997 9999
Q ss_pred hhhcHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCC--ccchHHH--HHHHHhhh
Q psy7075 78 FCSCQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETET--ISPLLKL--ISPLLKEI 134 (135)
Q Consensus 78 Yc~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~--~~p~~~~--~~~~~~~~ 134 (135)
||.|.+.+...+ ....+..|.+.+... .-.++++.+ ++|+||+ |+.||+++
T Consensus 155 y~q~kp~s~~~~-----~~~~~~~~f~~~~~~-~~~~l~l~~~l~kPiQR~~kYqlLL~~~ 209 (448)
T KOG0689|consen 155 YCQNKPKSDYLL-----AEYDNEAFFQEYQTQ-LGHKLDLSSYLIKPVQRIMKYQLLLQDF 209 (448)
T ss_pred hhcCCCCCcccc-----eecccchhhHHHhhh-cccccccchhhhhhhHHHHHHHHHHHHH
Confidence 999999983332 223334455556553 336788886 6999999 99999987
No 18
>KOG3531|consensus
Probab=98.79 E-value=4.9e-09 Score=89.53 Aligned_cols=131 Identities=13% Similarity=0.195 Sum_probs=113.2
Q ss_pred chHhHHHHHHHHHHhCCCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCC----c--cchHHHHHhhCCCcchH
Q psy7075 2 KTILCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGD----I--RMIGDILCEHLPRMTAY 75 (135)
Q Consensus 2 ~L~~l~~~F~~pl~~~~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~----~--~~IGdvfl~~~~~~~~Y 75 (135)
+|+++..+|..-+.+....+......+|.|++.+.+.|+.||+++++|.+.|++.. . +.||||.++....+++|
T Consensus 551 dleV~tt~Frst~v~~dam~~~~~s~l~~~~~pl~k~h~~fLk~ieeria~weGrsnani~~~~~igDVmLk~m~~l~i~ 630 (1036)
T KOG3531|consen 551 DLEVITTWFRSTVVKEDAMPNALKSLLFHNSTPLTKFHEGFLKEIEERIALWEGRSNANIVIEQRIGDVMLKNMRSLKIT 630 (1036)
T ss_pred ccceeeeeecceeecCcccccchhhhhccCCChhhHHHHHHHHHHHHHHHhccCCCCCceeeeeccCCcchhhhhccchh
Confidence 56677777877777778888889999999999999999999999999999985321 3 67999999999999999
Q ss_pred HHhhhcHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCC--ccchHHH--HHHHHhh
Q psy7075 76 VRFCSCQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETET--ISPLLKL--ISPLLKE 133 (135)
Q Consensus 76 ~~Yc~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~--~~p~~~~--~~~~~~~ 133 (135)
.+|...+.++..+++.-.+...+|+++.++.+....| -|++.. ++|++|| |...|.-
T Consensus 631 ~~~~q~h~~~l~~~t~~~k~~~r~~~v~kefelqkvc-yLP~~~fllkpL~rllhyq~~LeR 691 (1036)
T KOG3531|consen 631 TTTTQRHAETLTTLTTTSKVLTRLEAVYKEFELQKVC-YLPLNTFLLKPLSRLLHYQLALER 691 (1036)
T ss_pred hhhHHhHHHHHHHHhhcchhhhhHHhhhccHHhhhcc-ccccchhhhccccHHHHHHHHHHH
Confidence 9999999999999999999999999999999888777 466665 5999999 7766643
No 19
>KOG4269|consensus
Probab=94.71 E-value=0.0049 Score=54.12 Aligned_cols=86 Identities=21% Similarity=0.339 Sum_probs=76.5
Q ss_pred CCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCcchHHHhhhc--HHHHHHHHHHHHhc
Q psy7075 18 KILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVRFCSC--QLSAAALLQKLTDQ 95 (135)
Q Consensus 18 ~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~~Y~~Yc~n--~~~A~~~L~~l~~~ 95 (135)
+.++...+.+||.-+.+|+++|.+|..-|-.+...| +.....|..|......+-.|..|..| |..|+.+=+.|...
T Consensus 370 p~~~~~~~~t~~~k~s~i~~~hk~~~~~l~pk~q~~--~sqs~~~~~~~~L~S~l~n~~af~~~~sy~~al~~~~~~~ss 447 (1112)
T KOG4269|consen 370 PVLTKQQIETIFNKFSPIYEIHKEFYDNLHPKVQQW--KSQSNSGGLFQKLASQLGNYLAFVDNESYLVALEMAEKCASS 447 (1112)
T ss_pred CCccccccccccccCCCchhhhhhhccccCchhhhh--hhhhccCccchhhhhhcchhhhhhcchhhhhhcccccchhhc
Confidence 678888999999999999999999999998765554 55889999999999999999999999 99999999999999
Q ss_pred CHhHHHHHHH
Q psy7075 96 SPEFKTISKK 105 (135)
Q Consensus 96 n~~F~~fl~~ 105 (135)
++.|+..=.+
T Consensus 448 s~qfq~i~~~ 457 (1112)
T KOG4269|consen 448 SPQFQCISEQ 457 (1112)
T ss_pred chhhhhhhhh
Confidence 9999865443
No 20
>KOG3524|consensus
Probab=80.94 E-value=1.8 Score=37.78 Aligned_cols=110 Identities=4% Similarity=-0.134 Sum_probs=73.4
Q ss_pred HHHHHHHHhC-----CCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCcchHHHhhhcH
Q psy7075 8 QVFEKPLKES-----KILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVRFCSCQ 82 (135)
Q Consensus 8 ~~F~~pl~~~-----~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~~Y~~Yc~n~ 82 (135)
..+..|+.+. ...+..++..+|+.+.+++..+..--.+.++-.+.. -.-+..++ +.|.+...-+
T Consensus 418 ~e~~~pil~~~eiktifgn~l~I~~vh~k~~D~l~~l~~nw~e~k~el~ka--------yppyvnff---et~ke~~~~c 486 (850)
T KOG3524|consen 418 LELHEPILARLEIKTIFGNTLLIVVVHKKNDDKLLDLAQNWIEAKEELKKA--------YPPYVNFF---ETIKELFDKC 486 (850)
T ss_pred HHhCCcccCchhhcccccCchhhhhhhccchHHHHHHHHhhHHHHHHHHHh--------ccchhhHH---HHhHHHHHHH
Confidence 3466777654 466788999999999999988887777776432111 01122333 4444444444
Q ss_pred HHHHHHHHHHHhcCHhHHHHHHHHhccccccCccC-CC-ccchHHHHH
Q psy7075 83 LSAAALLQKLTDQSPEFKTISKKCRWISRIFLLET-ET-ISPLLKLIS 128 (135)
Q Consensus 83 ~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L-~~-~~p~~~~~~ 128 (135)
+.....+-...+-|+++-+|.+.-..++.|+.-.. .+ ++|++++-.
T Consensus 487 dre~prfhaflKinq~kpecgRq~l~dlmirpvqrlpsvilllndl~k 534 (850)
T KOG3524|consen 487 DRENPRFHAFLKINQSKPECGRQKLTDLMIRPVQRLPSVILLLNDMAK 534 (850)
T ss_pred hccchHHHHHHHccccchhhhhhcccchhccchhhhhHHHHHHHHHHh
Confidence 55555666677778888888888888999997764 34 588888744
No 21
>PF12210 Hrs_helical: Hepatocyte growth factor-regulated tyrosine kinase substrate; InterPro: IPR024641 This domain comprises the helical region of hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). It is approximately 100 amino acids in length. Hrs, together with signal transducing adaptor molecule (STAM), forms the ESCRT-0 complex, which sorts ubiquitinated cell surface receptors to lysosomes for degradation []. ; PDB: 3F1I_H.
Probab=76.47 E-value=1.9 Score=28.17 Aligned_cols=43 Identities=12% Similarity=0.222 Sum_probs=30.5
Q ss_pred hHhHHHHHHHHHHhC-----CCCCHHhHhcccCChHHHHHHHHHHHHHHHH
Q psy7075 3 TILCRQVFEKPLKES-----KILTREEHGQIFVNWKEIIVCNHMFLRALRV 48 (135)
Q Consensus 3 L~~l~~~F~~pl~~~-----~il~~~~~~~iF~NieeI~~~~~~fl~~L~~ 48 (135)
|..-+++|.+.|+.. ++.++..+.++|-++..+ |..++..+++
T Consensus 7 l~~~v~if~nRmksns~RGrsIanDsaVqsLF~~lt~m---H~~LL~~i~~ 54 (96)
T PF12210_consen 7 LRSSVEIFVNRMKSNSSRGRSIANDSAVQSLFQTLTAM---HPQLLKYIQE 54 (96)
T ss_dssp HHHHHHHHHHHHHHHHHTT--GGG-HHHHHHHHHHHHH---HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhHhcCCCCcccHHHHHHHHHHHHH---HHHHHHHHHH
Confidence 455678999999865 688999999999887655 5565555543
No 22
>PF10454 DUF2458: Protein of unknown function (DUF2458); InterPro: IPR018858 This entry represents a family of uncharacterised proteins.
Probab=51.20 E-value=32 Score=24.29 Aligned_cols=32 Identities=19% Similarity=0.107 Sum_probs=28.2
Q ss_pred HhhhcHHHHHHHHHHHHhcCHhHHHHHHHHhc
Q psy7075 77 RFCSCQLSAAALLQKLTDQSPEFKTISKKCRW 108 (135)
Q Consensus 77 ~Yc~n~~~A~~~L~~l~~~n~~F~~fl~~~~~ 108 (135)
.|..|.+.|++++.+....||.|...|++.-.
T Consensus 3 ~~It~w~~ALryv~~~v~~n~~~~~~Ir~Li~ 34 (150)
T PF10454_consen 3 STITTWPAALRYVMKTVAQNPEFLQRIRRLIK 34 (150)
T ss_pred hhhhcHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence 57899999999998888899999999987754
No 23
>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat. Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei
Probab=49.49 E-value=27 Score=22.48 Aligned_cols=31 Identities=16% Similarity=0.151 Sum_probs=26.4
Q ss_pred hhhcHHHHHHHHHHHHhcCHhHHHHHHHHhc
Q psy7075 78 FCSCQLSAAALLQKLTDQSPEFKTISKKCRW 108 (135)
Q Consensus 78 Yc~n~~~A~~~L~~l~~~n~~F~~fl~~~~~ 108 (135)
.-+|+..|..++..+.+....|.+|+...+.
T Consensus 48 ~~g~~~~ar~LL~~L~rg~~aF~~Fl~aLre 78 (88)
T cd08819 48 NHGNESGARELLKRIVQKEGWFSKFLQALRE 78 (88)
T ss_pred ccCcHHHHHHHHHHhccCCcHHHHHHHHHHH
Confidence 5578999999999999788899999987655
No 24
>cd08325 CARD_CASP1-like Caspase activation and recruitment domain found in Caspase-1 and related proteins. Caspase activation and recruitment domain (CARD) similar to those found in Caspase-1 (CASP1, ICE) and related proteins, including CARD-only proteins such as ICEBERG or CARD18, INCA (CARD17), CARD16 (COP1, PSEUDO-ICE), CARD8 (DACAR, NDPP1, TUCAN), and CARD12 (NLRC4), as well as ICE-like caspases such as CASP12, CASP5 (ICH-3) and CASP4 (TX, ICH-2). Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. CASP1 plays a central role in the cellular response to a wide variety of microbial and non-microbial stimuli, being activated by the inflammasome or the pyroptosome. CARD8 binds itself and the initiator caspase-9, interfering with the binding of APAF-1 and suppressing caspase-9 activation. CARD12 is a Nod-like receptor (NLR) that plays an important role in the innate immune response to Gram-negative bacteria. Caspase-4 (CASP4), -5 (CASP5),
Probab=49.28 E-value=44 Score=20.97 Aligned_cols=58 Identities=19% Similarity=0.227 Sum_probs=39.7
Q ss_pred HHHHHHHHHhCCCCCHHhHhcccCChHHHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCc
Q psy7075 7 RQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRM 72 (135)
Q Consensus 7 ~~~F~~pl~~~~il~~~~~~~iF~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~ 72 (135)
.+-++.-|.+.++++.++...|=..-.....=...|+..+..+. +..|.+|..+....
T Consensus 18 i~~llD~Ll~~~Vl~~~E~e~i~~~~~t~~dkar~Lid~v~~KG--------~~A~~iF~~~L~~~ 75 (83)
T cd08325 18 INGLLDDLLEKNVLNEEEMEKIKEENNTIMDKARVLVDSVTEKG--------QEAGQIFIKHLLNR 75 (83)
T ss_pred HHHHHHHHHHcCCCCHHHHHHHHhccCCHHHHHHHHHHHHHHHh--------HHHHHHHHHHHHhc
Confidence 44455666677999999998886654445666677888887641 25778887766544
No 25
>cd02641 R3H_Smubp-2_like R3H domain of Smubp-2_like proteins. Smubp-2_like proteins also contain a helicase_like and an AN1-like Zinc finger domain and have been shown to bind single-stranded DNA. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.
Probab=48.38 E-value=42 Score=19.72 Aligned_cols=36 Identities=22% Similarity=0.180 Sum_probs=28.1
Q ss_pred hHHHHHHHHhccccccCccCCC-ccchHHH-HHHHHhh
Q psy7075 98 EFKTISKKCRWISRIFLLETET-ISPLLKL-ISPLLKE 133 (135)
Q Consensus 98 ~F~~fl~~~~~~p~c~~L~L~~-~~p~~~~-~~~~~~~ 133 (135)
.|.+-+..+..++.-..|.++. +.+.||. |+.|-++
T Consensus 3 ~~~~~i~~F~~~~~~~~l~F~p~ls~~eR~~vH~lA~~ 40 (60)
T cd02641 3 HLKAMVKAFMKDPKATELEFPPTLSSHDRLLVHELAEE 40 (60)
T ss_pred hHHHHHHHHHcCCCcCcEECCCCCCHHHHHHHHHHHHH
Confidence 4566677777787778899998 9999999 8877654
No 26
>cd08806 CARD_CARD14_CARMA2 Caspase activation and recruitment domain of CARD14-like proteins. Caspase activation and recruitment domain (CARD) similar to that found in CARD14, also known as BIMP2 or CARMA2 (caspase recruitment domain-containing membrane-associated guanylate kinase protein 2). CARD14 has been identified as a novel member of the MAGUK (membrane-associated guanylate kinase) family that functions as upstream activators of BCL10 (B-cell lymphoma 10) and NF-kB signaling. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. 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 PYRIN and DED (Death Effector Domain). They serve as adaptors in signaling pathways
Probab=39.69 E-value=50 Score=21.17 Aligned_cols=36 Identities=17% Similarity=0.275 Sum_probs=27.4
Q ss_pred HHhCCCCCHHhHhcccCChHHHHHHHH--HHHHHHHHH
Q psy7075 14 LKESKILTREEHGQIFVNWKEIIVCNH--MFLRALRVR 49 (135)
Q Consensus 14 l~~~~il~~~~~~~iF~NieeI~~~~~--~fl~~L~~r 49 (135)
|++++++++.+.+.|++.-.-....++ .+++=|+.|
T Consensus 25 LrQ~~IL~~~deeeIls~~t~~~r~~k~g~LLDIL~tr 62 (86)
T cd08806 25 LRQAKVLDQLDEEEVLHSPRLTNRAMRVGHLLDLLKTR 62 (86)
T ss_pred HHHcCCCChhhHHHHHccchHHHHHHHHHHHHHHHHhc
Confidence 567799999999999988877776665 366666654
No 27
>cd08789 CARD_IPS-1_RIG-I Caspase activation and recruitment domains (CARDs) found in IPS-1 and RIG-I-like RNA helicases. Caspase activation and recruitment domains (CARDs) found in IPS-1 (Interferon beta promoter stimulator protein 1) and Retinoic acid Inducible Gene I (RIG-I)-like DEAD box helicases. RIG-I-like helicases and IPS-1 play important roles in the induction of interferons in response to viral infection. They are crucial in triggering innate immunity and in developing adaptive immunity against viral pathogens. RIG-I-like helicases, including MDA5 and RIG-I, contain two N-terminal CARD domains and a C-terminal DEAD box RNA helicase domain. They are cytoplasmic RNA helicases that play an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. MDA5 and RIG-I associate with IPS-1 through a CARD-CAR
Probab=35.10 E-value=64 Score=20.31 Aligned_cols=32 Identities=16% Similarity=0.020 Sum_probs=27.1
Q ss_pred hhhcHHHHHHHHHHHHhcCHhHHHHHHHHhcc
Q psy7075 78 FCSCQLSAAALLQKLTDQSPEFKTISKKCRWI 109 (135)
Q Consensus 78 Yc~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~ 109 (135)
--+|...|..+++.+.++.--|..|++..+..
T Consensus 44 ~~G~~~aa~~Ll~~L~r~~~Wf~~Fl~AL~~~ 75 (84)
T cd08789 44 NSGNIKAAWTLLDTLVRRDNWLEPFLDALREC 75 (84)
T ss_pred cCChHHHHHHHHHHHhccCChHHHHHHHHHHc
Confidence 45788999999999998888999999887663
No 28
>cd08812 CARD_RIG-I_like Caspase activation and recruitment domains found in RIG-I-like DEAD box helicases. Caspase activation and recruitment domains (CARDs) found in Retinoic acid Inducible Gene I (RIG-I)-like DEAD box helicases. These helicases, including MDA5 and RIG-I, contain two N-terminal CARD domains and a C-terminal DEAD box RNA helicase domain. They are cytoplasmic RNA helicases that play an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, RIG-I and MDA5 have been shown to recognize different sets of viruses. MDA5 and RIG-I associate with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mec
Probab=32.74 E-value=1.3e+02 Score=18.97 Aligned_cols=31 Identities=23% Similarity=0.233 Sum_probs=25.8
Q ss_pred hhcHHHHHHHHHHHH--hcCHhHHHHHHHHhcc
Q psy7075 79 CSCQLSAAALLQKLT--DQSPEFKTISKKCRWI 109 (135)
Q Consensus 79 c~n~~~A~~~L~~l~--~~n~~F~~fl~~~~~~ 109 (135)
.+|...|..++..+. ++.--|++|++..+..
T Consensus 47 ~g~~~aa~~Ll~~L~~~r~~~wf~~Fl~AL~~~ 79 (88)
T cd08812 47 KGNIAAAEELLDRLERCDKPGWFQAFLDALRRT 79 (88)
T ss_pred cChHHHHHHHHHHHHHhccCCcHHHHHHHHHHc
Confidence 478999999999998 4677899999887663
No 29
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=31.78 E-value=26 Score=21.82 Aligned_cols=16 Identities=13% Similarity=0.351 Sum_probs=13.1
Q ss_pred ccchHHHHHhhCCCcc
Q psy7075 58 IRMIGDILCEHLPRMT 73 (135)
Q Consensus 58 ~~~IGdvfl~~~~~~~ 73 (135)
.|+.|++|++|-..++
T Consensus 59 ~QTag~vflKhGseLr 74 (76)
T PF03671_consen 59 QQTAGNVFLKHGSELR 74 (76)
T ss_dssp TSBHHHHHHHT-SEEE
T ss_pred chhhhhhHhhcCcEee
Confidence 8999999999987664
No 30
>PF14053 DUF4248: Domain of unknown function (DUF4248)
Probab=31.69 E-value=77 Score=19.29 Aligned_cols=41 Identities=17% Similarity=0.161 Sum_probs=33.2
Q ss_pred cHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCCccchHHH
Q psy7075 81 CQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETETISPLLKL 126 (135)
Q Consensus 81 n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~~~p~~~~ 126 (135)
+..+|.+.|.+..+.||...+-|.+.--.+.++ .+.|.|.=
T Consensus 20 ~~~sA~r~L~rwI~~~~~L~~~L~~~Gy~~~~r-----~~TP~QV~ 60 (69)
T PF14053_consen 20 TPSSAVRKLRRWIRRNPELLEELEATGYHPRQR-----SFTPRQVR 60 (69)
T ss_pred CHHHHHHHHHHHHHHCHHHHHHHHHcCCCCCCE-----ecCHHHHH
Confidence 668899999999999999999988887777754 46777753
No 31
>PF06757 Ins_allergen_rp: Insect allergen related repeat, nitrile-specifier detoxification; InterPro: IPR010629 This entry represents several insect specific allergen repeats. These repeats are commonly found in various proteins from cockroaches, fruit flies and mosquitos. It has been suggested that the repeat sequences have evolved by duplication of an ancestral amino acid domain, which may have arisen from the mitochondrial energy transfer proteins []. This family exemplifies a case of novel gene evolution. The case in point is the arms-race between plants and their infective insective herbivores in the area of the glucosinolate-myrosinase system. Brassicas have developed the glucosinolate-myrosinase system as chemical defence mechanism against the insects, and consequently the insects have adapted to produce a detoxifying molecule, nitrile-specifier protein (NSP). NSP is present in the Pieris rapae (Cabbage white butterfly). NSP is structurally different from and has no amino acid homology to any known detoxifying enzymes, and it appears to have arisen by a process of domain and gene duplication of a sequence of unknown function that is widespread in insect species and referred to as insect-allergen-repeat protein. Thus this family is found either as a single domain or as a multiple repeat-domain [].
Probab=31.10 E-value=85 Score=22.43 Aligned_cols=28 Identities=25% Similarity=0.233 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhcCHhHHHHHHHHhcc
Q psy7075 82 QLSAAALLQKLTDQSPEFKTISKKCRWI 109 (135)
Q Consensus 82 ~~~A~~~L~~l~~~n~~F~~fl~~~~~~ 109 (135)
.+.-.+++.+..++++.|++|+++..+.
T Consensus 116 ~~~l~aL~~~K~~~s~~F~~f~~~l~S~ 143 (179)
T PF06757_consen 116 RDKLRALYEEKLATSPEFAEFVEALRSP 143 (179)
T ss_pred HHHHHHHHHHHHHCCHHHHHHHHHHcCH
Confidence 4556667777777888888888877664
No 32
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=30.91 E-value=42 Score=15.94 Aligned_cols=18 Identities=22% Similarity=0.220 Sum_probs=13.6
Q ss_pred hcHHHHHHHHHHHHhcCH
Q psy7075 80 SCQLSAAALLQKLTDQSP 97 (135)
Q Consensus 80 ~n~~~A~~~L~~l~~~n~ 97 (135)
++.+.|.++++++.++.|
T Consensus 14 g~~~~A~~~~~~~~~~~P 31 (33)
T PF13174_consen 14 GDYDEAIEYFQRLIKRYP 31 (33)
T ss_dssp CHHHHHHHHHHHHHHHST
T ss_pred cCHHHHHHHHHHHHHHCc
Confidence 577888888888876655
No 33
>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A.
Probab=29.34 E-value=76 Score=18.18 Aligned_cols=25 Identities=12% Similarity=0.065 Sum_probs=18.0
Q ss_pred hhcHHHHHHHHHHHHhcCHhHHHHH
Q psy7075 79 CSCQLSAAALLQKLTDQSPEFKTIS 103 (135)
Q Consensus 79 c~n~~~A~~~L~~l~~~n~~F~~fl 103 (135)
..+|..|.+.++.+.+..|...+..
T Consensus 14 l~~Y~~A~~~~~~lL~~eP~N~Qa~ 38 (53)
T PF14853_consen 14 LGEYEKARRYCDALLEIEPDNRQAQ 38 (53)
T ss_dssp TT-HHHHHHHHHHHHHHTTS-HHHH
T ss_pred hhhHHHHHHHHHHHHhhCCCcHHHH
Confidence 3578999999999988777666553
No 34
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=28.57 E-value=1.1e+02 Score=16.78 Aligned_cols=24 Identities=33% Similarity=0.574 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHhcCHhHHHHHHHHh
Q psy7075 83 LSAAALLQKLTDQSPEFKTISKKCR 107 (135)
Q Consensus 83 ~~A~~~L~~l~~~n~~F~~fl~~~~ 107 (135)
+.+...++... +||.|++-++.|.
T Consensus 4 ~~l~~Fl~~~~-~d~~l~~~l~~~~ 27 (49)
T PF07862_consen 4 ESLKAFLEKVK-SDPELREQLKACQ 27 (49)
T ss_pred HHHHHHHHHHh-cCHHHHHHHHhcC
Confidence 45667777786 9999999999886
No 35
>PRK06462 asparagine synthetase A; Reviewed
Probab=26.27 E-value=88 Score=24.84 Aligned_cols=89 Identities=12% Similarity=0.120 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCccchHHHHH---------hhCCCc---chHHHhhhcHHHHHHHHHHHHhcCHhHHHHH
Q psy7075 36 IVCNHMFLRALRVRRDMSSKGDIRMIGDILC---------EHLPRM---TAYVRFCSCQLSAAALLQKLTDQSPEFKTIS 103 (135)
Q Consensus 36 ~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl---------~~~~~~---~~Y~~Yc~n~~~A~~~L~~l~~~n~~F~~fl 103 (135)
+..+-.+..++-.. . -+-+-.||.+|. .|.+.| ..|..|. ++...++..+++.+ .-+..+.
T Consensus 87 L~~Spql~k~ll~~---g-~~rVfeI~p~FR~E~~~~~~~rHl~EFtmlE~e~~~~-d~~dlm~~~e~lv~--~i~~~~~ 159 (335)
T PRK06462 87 LADSMILHKQLALR---M-LGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGA-DLDEVMDLIEDLIK--YLVKELL 159 (335)
T ss_pred eccCHHHHHHHHHh---h-cCcEEEEeccccCCCCCCCCCCCCCchheeeehhhcC-CHHHHHHHHHHHHH--HHHHHHH
Confidence 44444555555432 1 123778999994 666654 8999985 89999999998873 3344444
Q ss_pred HHHhccccccCccCCCc-cchHHH-HHHHH
Q psy7075 104 KKCRWISRIFLLETETI-SPLLKL-ISPLL 131 (135)
Q Consensus 104 ~~~~~~p~c~~L~L~~~-~p~~~~-~~~~~ 131 (135)
+.+...-.-.+-.+.++ .|.+|+ |.-.+
T Consensus 160 ~~~~~~i~~~~~~~~~~~~p~~rit~~eA~ 189 (335)
T PRK06462 160 EEHEDELEFFGRDLPHLKRPFKRITHKEAV 189 (335)
T ss_pred hhhHHHHHhcCCccccCCCCCeEEEHHHHH
Confidence 44432111111122333 578887 54443
No 36
>COG3512 CRISPR-associated protein, Cas2 homolog [Defense mechanisms]
Probab=25.97 E-value=51 Score=21.87 Aligned_cols=28 Identities=18% Similarity=0.350 Sum_probs=23.9
Q ss_pred CcchHHHhhhcHHHHHHHHHHHHhcCHh
Q psy7075 71 RMTAYVRFCSCQLSAAALLQKLTDQSPE 98 (135)
Q Consensus 71 ~~~~Y~~Yc~n~~~A~~~L~~l~~~n~~ 98 (135)
+|.+|+.-|.+-+.+.+...++++-+|.
T Consensus 42 QfSvYsri~kg~~s~~~~i~rl~e~lP~ 69 (116)
T COG3512 42 QFSVYSRILKGRDSNQKHIGRLREHLPN 69 (116)
T ss_pred HHHHHHHHHhCchhHHHHHHHHHHhCCC
Confidence 4689999999999999999999876663
No 37
>TIGR00995 3a0901s06TIC22 chloroplast protein import component, Tic22 family. Two families of proteins are involved in the chloroplast envelope import appartus.They are the three proteins of the outer membrane (TOC) and four proteins in the inner membrane (TIC). This family is specific for the Tic22 protein.
Probab=25.48 E-value=46 Score=25.92 Aligned_cols=27 Identities=30% Similarity=0.411 Sum_probs=22.9
Q ss_pred chHHHhhhcHHHHHHHHHHHHhcCHhH
Q psy7075 73 TAYVRFCSCQLSAAALLQKLTDQSPEF 99 (135)
Q Consensus 73 ~~Y~~Yc~n~~~A~~~L~~l~~~n~~F 99 (135)
+..+.||++++.|.+.+++++++||+.
T Consensus 104 ~~~gvf~s~qedA~afL~~lk~~~p~l 130 (270)
T TIGR00995 104 KSIGLLCFRQEDAEAFLAQLRKRKPEV 130 (270)
T ss_pred ceEEEEECCHHHHHHHHHHHHhhCccc
Confidence 455669999999999999999888755
No 38
>cd06571 Bac_DnaA_C C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple copies of DnaA, which is an ATPase, bind to 9-mers at the origin and form an initial complex in which the DNA strands are being separated in an ATP-dependent step.
Probab=25.48 E-value=1.2e+02 Score=18.92 Aligned_cols=26 Identities=23% Similarity=0.337 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHhcCHhHHHHHHHHhc
Q psy7075 83 LSAAALLQKLTDQSPEFKTISKKCRW 108 (135)
Q Consensus 83 ~~A~~~L~~l~~~n~~F~~fl~~~~~ 108 (135)
..|.+.+++..++|+.|+..++.++.
T Consensus 63 ~~a~~ri~~~~~~d~~~~~~v~~i~~ 88 (90)
T cd06571 63 LHAVRKIEELLEEDPELKEDVEELEK 88 (90)
T ss_pred HHHHHHHHHHHHhCHHHHHHHHHHHH
Confidence 56788888888899999999988764
No 39
>COG4359 Uncharacterized conserved protein [Function unknown]
Probab=25.16 E-value=1e+02 Score=22.96 Aligned_cols=34 Identities=18% Similarity=0.043 Sum_probs=27.8
Q ss_pred HHhhhcHHHHHHHHHHHHhcCHhHHHHHHHHhcc
Q psy7075 76 VRFCSCQLSAAALLQKLTDQSPEFKTISKKCRWI 109 (135)
Q Consensus 76 ~~Yc~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~ 109 (135)
..-=++++.+++.+.+--+-+|.|++|++.|.++
T Consensus 55 ~~i~~s~~Eile~llk~i~Idp~fKef~e~ike~ 88 (220)
T COG4359 55 GSIHSSLEEILEFLLKDIKIDPGFKEFVEWIKEH 88 (220)
T ss_pred HhcCCCHHHHHHHHHhhcccCccHHHHHHHHHHc
Confidence 3444577899999888666999999999999885
No 40
>PF00636 Ribonuclease_3: Ribonuclease III domain; InterPro: IPR000999 Prokaryotic ribonuclease III (3.1.26.3 from EC) (gene rnc) [] is an enzyme that digests double-stranded RNA. It is involved in the processing of ribosomal RNA precursors and of some mRNAs. RNase III is evolutionary related to a number of proteins including []: Saccharomyces cerevisiae (Baker's yeast) protein pac1, a ribonuclease that probably inhibits mating and meiosis by degrading a specific mRNA required for sexual development yeast ribonuclease III (gene RNT1), a dsRNA-specific nuclease that cleaves eukaryotic preribosomal RNA at various sites Caenorhabditis elegans hypothetical protein F26E4.13 Paramecium bursaria Chlorella virus 1 (PBCV-1) 1 protein A464R Synechocystis sp. (strain PCC 6803) hypothetical protein slr0346 yeast hypothetical protein SpAC8A4.08c, a protein with a N-terminal helicase domain and a C-terminal RNase III domain C. elegans hypothetical protein K12H4.8, a protein with the same structure as SpAC8A4.08c ; GO: 0003723 RNA binding, 0004525 ribonuclease III activity, 0006396 RNA processing; PDB: 2GSL_A 2NUE_B 1YYO_A 2NUF_A 1YZ9_A 1JFZ_A 1YYW_C 1RC5_B 1YYK_B 1RC7_A ....
Probab=25.13 E-value=67 Score=20.64 Aligned_cols=46 Identities=11% Similarity=0.130 Sum_probs=35.2
Q ss_pred chHHHHHhhCCCcchHHHhhhcHHHHHHHHHHHHhcCHhHHHHHHH
Q psy7075 60 MIGDILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKK 105 (135)
Q Consensus 60 ~IGdvfl~~~~~~~~Y~~Yc~n~~~A~~~L~~l~~~n~~F~~fl~~ 105 (135)
-+||.++++.-....|..|-.-.+..+..+....-+|..+.....+
T Consensus 5 fLGDavL~~~v~~~l~~~~p~~~~~~L~~~r~~~vsn~~L~~~a~~ 50 (114)
T PF00636_consen 5 FLGDAVLKLLVSEYLFEKYPNLNEGQLTKLRSALVSNKFLARLAVK 50 (114)
T ss_dssp HHHHHHHHHHHHHHHHHHTTTSSHHHHHHHHHHHHSHHHHHHHHHH
T ss_pred HhHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHhCHHHHHHHHHH
Confidence 4899999988877888888777777888887777677777666443
No 41
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=24.59 E-value=84 Score=15.15 Aligned_cols=19 Identities=16% Similarity=0.158 Sum_probs=12.6
Q ss_pred hcHHHHHHHHHHHHhcCHh
Q psy7075 80 SCQLSAAALLQKLTDQSPE 98 (135)
Q Consensus 80 ~n~~~A~~~L~~l~~~n~~ 98 (135)
.+++.|+..+++..+-+|.
T Consensus 15 ~~~~~A~~~~~~al~~~p~ 33 (34)
T PF00515_consen 15 GDYEEALEYYQRALELDPD 33 (34)
T ss_dssp T-HHHHHHHHHHHHHHSTT
T ss_pred CCchHHHHHHHHHHHHCcC
Confidence 4567788887777666664
No 42
>PF08385 DHC_N1: Dynein heavy chain, N-terminal region 1; InterPro: IPR013594 Dynein heavy chains interact with other heavy chains to form dimers, and with intermediate chain-light chain complexes to form a basal cargo binding unit []. The region featured in this family includes the sequences implicated in mediating these interactions []. It is thought to be flexible and not to adopt a rigid conformation [].
Probab=24.28 E-value=4.1e+02 Score=22.12 Aligned_cols=67 Identities=18% Similarity=0.218 Sum_probs=40.7
Q ss_pred ccchHHHHHhhCCCcchHHHhhhcHHHHHHHHHHHHhcCHhHHHHHHHHhccccccCccCCCccchHHHHHHHHh
Q psy7075 58 IRMIGDILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLETETISPLLKLISPLLK 132 (135)
Q Consensus 58 ~~~IGdvfl~~~~~~~~Y~~Yc~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~p~c~~L~L~~~~p~~~~~~~~~~ 132 (135)
++.+..|+... -+.|+..+..-.+-+.+..++-.....|++.+ .|.|..|.-.++.-++-.+++++.
T Consensus 63 v~~~~~iL~~~------~s~~~~~f~~~~~~l~~~~~ea~d~~~fL~~l--~~~~~~l~~~~~~~i~~~i~~l~~ 129 (579)
T PF08385_consen 63 VQKILEILEKA------KSSYTKSFKNLTRELKEALNEAKDNNKFLKPL--EPPFELLEASDLSEIQESIPPLFH 129 (579)
T ss_pred HHHHHHHHHHh------cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHhhccCCHHHHHHHHHHHHH
Confidence 66777766443 23466666666644444444566667777666 456677766666666666666654
No 43
>cd01671 CARD Caspase activation and recruitment domain: a protein-protein interaction domain. Caspase activation and recruitment domains (CARDs) are death domains (DDs) found associated with caspases. Caspases are aspartate-specific cysteine proteases with functions in apoptosis, immune signaling, inflammation, and host-defense mechanisms. In addition to caspases, proteins containing CARDs include adaptor proteins such as RAIDD, CARD9, and RIG-I-like helicases, which can form mutliprotein complexes and play important roles in mediating the signals to induce immune and inflammatory responses. 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 PYRIN and DED (Death Effector Domain). They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=23.74 E-value=1.6e+02 Score=17.53 Aligned_cols=29 Identities=21% Similarity=0.146 Sum_probs=22.5
Q ss_pred cHHHHHHHHHHHHh-cCHhHHHHHHHHhcc
Q psy7075 81 CQLSAAALLQKLTD-QSPEFKTISKKCRWI 109 (135)
Q Consensus 81 n~~~A~~~L~~l~~-~n~~F~~fl~~~~~~ 109 (135)
....|.++++.+.+ .+..|..|++.++..
T Consensus 42 ~~~k~~~Lld~l~~kg~~af~~F~~~L~~~ 71 (80)
T cd01671 42 RQDKARKLLDILPRKGPKAFQSFLQALQET 71 (80)
T ss_pred hHHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence 56778888888874 555899999888763
No 44
>cd02642 R3H_encore_like R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H domain is a potential regulator of DBF1 activity in stress responses. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=22.78 E-value=1.7e+02 Score=17.07 Aligned_cols=32 Identities=16% Similarity=0.134 Sum_probs=22.0
Q ss_pred HhHHHHHHHHhccccccCccCCCccchHHH-HHHHHh
Q psy7075 97 PEFKTISKKCRWISRIFLLETETISPLLKL-ISPLLK 132 (135)
Q Consensus 97 ~~F~~fl~~~~~~p~c~~L~L~~~~p~~~~-~~~~~~ 132 (135)
..+..|++ ++....+.++...|++|+ ++.+-+
T Consensus 10 ~~i~~Fi~----~~~~~~~~f~pm~sy~RllvH~la~ 42 (63)
T cd02642 10 KDLLAFIK----DSTRQSLELPPMNSYYRLLAHRVAQ 42 (63)
T ss_pred HHHHHHHh----CCCCCeeEcCCCCcHHHHHHHHHHH
Confidence 34555544 444577888889999999 776643
No 45
>TIGR03798 ocin_TIGR03798 bacteriocin propeptide, TIGR03798 family. This model describes a conserved, fairly long (about 65 residue) propeptide region for a family of putative microcins, that is, bacteriocins of small size. Members of the seed alignment tend to have the Gly-Gly motif as the last two residues of the matched region. This is a cleavage site for a combination processing/export ABC transporter with a peptidase domain.
Probab=22.48 E-value=1.4e+02 Score=17.41 Aligned_cols=24 Identities=21% Similarity=0.328 Sum_probs=18.7
Q ss_pred HHHHHHHHHHhcCHhHHHHHHHHhc
Q psy7075 84 SAAALLQKLTDQSPEFKTISKKCRW 108 (135)
Q Consensus 84 ~A~~~L~~l~~~n~~F~~fl~~~~~ 108 (135)
.+...++... +||.|++-++.|..
T Consensus 3 ~l~~Fl~~~~-~d~~L~~~l~~~~~ 26 (64)
T TIGR03798 3 QLKAFLEKVK-TDPDLREKLKAAED 26 (64)
T ss_pred HHHHHHHHHH-cCHHHHHHHHHcCC
Confidence 4556677777 99999999988754
No 46
>PF06135 DUF965: Bacterial protein of unknown function (DUF965); InterPro: IPR009309 This family consists of several hypothetical bacterial proteins. The function of the family is unknown.
Probab=22.44 E-value=74 Score=20.06 Aligned_cols=61 Identities=15% Similarity=0.157 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCCccchHHHHHhhCCCcchHHHhhhcHHHHHHHHHHHHhcCHhHHHHHHH
Q psy7075 34 EIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKK 105 (135)
Q Consensus 34 eI~~~~~~fl~~L~~r~~~~~~~~~~~IGdvfl~~~~~~~~Y~~Yc~n~~~A~~~L~~l~~~n~~F~~fl~~ 105 (135)
++.++=.....+|+++ -- ++..|-+|-++-. =.+|..+|.+|..++.+.. .+.-..+.++.
T Consensus 16 ~~~~iL~~Vy~AL~EK--GY-nPinQivGYllSG-------DPaYItsh~nAR~lIr~~e-RDellEeLv~~ 76 (79)
T PF06135_consen 16 EIREILKQVYAALEEK--GY-NPINQIVGYLLSG-------DPAYITSHNNARNLIRKIE-RDELLEELVRF 76 (79)
T ss_pred hHHHHHHHHHHHHHHc--CC-ChHHHHHhheecC-------CCccccCcccHHHHHHHHh-HHHHHHHHHHH
Confidence 3444445566777763 11 2335555544421 1468999999999999987 56666655543
No 47
>PF13120 DUF3974: Domain of unknown function (DUF3974)
Probab=22.28 E-value=1e+02 Score=20.36 Aligned_cols=27 Identities=22% Similarity=0.365 Sum_probs=20.7
Q ss_pred chHHHhhhcHHHHHHHHHHHHhcCHhH
Q psy7075 73 TAYVRFCSCQLSAAALLQKLTDQSPEF 99 (135)
Q Consensus 73 ~~Y~~Yc~n~~~A~~~L~~l~~~n~~F 99 (135)
+.|..+..-|..|-+-++++..++-.|
T Consensus 31 k~ylswakpykrahesieklsnkstpf 57 (126)
T PF13120_consen 31 KFYLSWAKPYKRAHESIEKLSNKSTPF 57 (126)
T ss_pred eeeeeecChhhHHHhHHHHhcccCCHH
Confidence 678888888888998888887655443
No 48
>PF11014 DUF2852: Protein of unknown function (DUF2852); InterPro: IPR021273 This bacterial family of proteins has no known function.
Probab=21.29 E-value=98 Score=20.97 Aligned_cols=23 Identities=22% Similarity=0.442 Sum_probs=17.9
Q ss_pred HHHHHHHHhcCHhHHHHHHHHhc
Q psy7075 86 AALLQKLTDQSPEFKTISKKCRW 108 (135)
Q Consensus 86 ~~~L~~l~~~n~~F~~fl~~~~~ 108 (135)
.++|+.+.++..+|..|+++.++
T Consensus 77 ~~tL~RLEeEq~eF~~Fl~rLR~ 99 (115)
T PF11014_consen 77 EDTLRRLEEEQREFEDFLERLRR 99 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677777777799999998865
No 49
>cd08810 CARD_BCL10 Caspase activation and recruitment domain of B-cell lymphoma 10. Caspase activation and recruitment domain (CARD) similar to that found in BCL10 (B-cell lymphoma 10). BCL10 and Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1) are the integral components of CBM signalosomes. They associate with CARD9 to form M-CBM (CBM complex in myeloid immune cells) and with CARMA1 to form L-CBM (CBM complex in lymphoid immune cells), to mediate activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. Both CARMA1 and CARD9 associate with BCL10 via a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. 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 asso
Probab=21.05 E-value=2e+02 Score=18.20 Aligned_cols=30 Identities=17% Similarity=0.248 Sum_probs=22.6
Q ss_pred hcHHHHHHHHHHHHhcCHhHHHHHHHHhcc
Q psy7075 80 SCQLSAAALLQKLTDQSPEFKTISKKCRWI 109 (135)
Q Consensus 80 ~n~~~A~~~L~~l~~~n~~F~~fl~~~~~~ 109 (135)
++...|..++.-+.+...+|..|++.++..
T Consensus 44 t~~~qa~~LLdiL~rGp~Af~~F~esL~~~ 73 (84)
T cd08810 44 TSRKQAGKLLDILAENPKGLDALIESIRRE 73 (84)
T ss_pred CcHHHHHHHHHHHhhCchHHHHHHHHHHHc
Confidence 566778888888886667888888777653
No 50
>PF15602 Imm43: Immunity protein 43
Probab=20.14 E-value=3.4e+02 Score=19.66 Aligned_cols=57 Identities=12% Similarity=0.061 Sum_probs=36.9
Q ss_pred cCChHHHHHHHHHHHHHHHHHHhhcCCCCccch-HHHHHhhCCCcchHHHhhhcHHHHHHHHHHH
Q psy7075 29 FVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMI-GDILCEHLPRMTAYVRFCSCQLSAAALLQKL 92 (135)
Q Consensus 29 F~NieeI~~~~~~fl~~L~~r~~~~~~~~~~~I-Gdvfl~~~~~~~~Y~~Yc~n~~~A~~~L~~l 92 (135)
|+=+..+.++++.|+.+-|...+.++++..+.+ .+. ...+..-..+++.++..|.+-
T Consensus 20 ~T~w~r~~d~y~~F~~~~E~~v~~~p~~d~~~~~~~~-------~~~il~~La~~e~Gl~~L~~G 77 (171)
T PF15602_consen 20 FTLWNRARDLYRDFADAYERAVRTWPENDPEEMPADD-------YVRILNILAHMERGLRRLRRG 77 (171)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCcccCcHHH-------HHHHHHHHHHHHHHHHHHhcC
Confidence 566788999999999999998877654432222 111 123344456667777776654
Done!