Query 032417
Match_columns 141
No_of_seqs 117 out of 1123
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 13:49:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032417.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032417hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01061 RNase_T2_euk Ribonucle 100.0 6.8E-31 1.5E-35 202.2 10.8 107 1-117 83-195 (195)
2 cd00374 RNase_T2 Ribonuclease 100.0 1.9E-30 4.2E-35 198.5 10.9 107 1-117 83-195 (195)
3 PF00445 Ribonuclease_T2: Ribo 100.0 5.7E-30 1.2E-34 195.7 7.9 95 1-95 86-188 (189)
4 KOG1642 Ribonuclease, T2 famil 100.0 1.1E-28 2.4E-33 195.3 10.4 120 1-126 119-246 (263)
5 cd01062 RNase_T2_prok Ribonucl 99.9 6E-27 1.3E-31 178.8 9.4 98 1-114 79-180 (184)
6 COG3719 Rna Ribonuclease I [Tr 99.9 5.9E-23 1.3E-27 162.3 8.4 103 1-115 136-242 (249)
7 PRK10095 ribonuclease I; Provi 99.9 5.6E-22 1.2E-26 160.0 9.0 109 1-120 149-266 (268)
8 PF01328 Peroxidase_2: Peroxid 78.9 1.8 4E-05 36.1 2.8 37 34-70 51-87 (317)
9 PF10281 Ish1: Putative stress 65.5 13 0.00029 20.9 3.5 29 34-63 8-36 (38)
10 TIGR03595 Obg_CgtA_exten Obg f 62.6 11 0.00025 24.2 3.2 28 18-48 31-58 (69)
11 PF08368 FAST_2: FAST kinase-l 57.5 29 0.00064 23.3 4.7 40 53-92 49-92 (93)
12 PF08043 Xin: Xin repeat; Int 55.3 5.2 0.00011 18.9 0.4 11 131-141 5-15 (16)
13 TIGR03853 matur_matur probable 48.0 50 0.0011 22.1 4.4 55 34-94 6-63 (77)
14 PF09269 DUF1967: Domain of un 46.5 25 0.00055 22.6 2.8 28 18-48 31-58 (69)
15 PF10678 DUF2492: Protein of u 41.6 53 0.0011 22.0 3.8 54 34-93 8-64 (78)
16 PF13041 PPR_2: PPR repeat fam 40.4 30 0.00065 19.9 2.3 35 24-61 14-48 (50)
17 cd07884 RHD-n_Relish N-termina 36.4 21 0.00045 27.1 1.3 35 39-87 100-134 (159)
18 PF08766 DEK_C: DEK C terminal 31.8 56 0.0012 19.7 2.5 29 35-68 9-37 (54)
19 PF09377 SBDS_C: SBDS protein 31.7 37 0.00081 24.3 2.0 31 34-64 5-35 (125)
20 COG1500 Predicted exosome subu 27.5 75 0.0016 25.5 3.2 33 32-64 100-132 (234)
21 TIGR00291 RNA_SBDS rRNA metabo 27.0 76 0.0016 25.4 3.2 32 33-64 101-132 (231)
22 PRK13760 putative RNA-associat 25.9 80 0.0017 25.3 3.1 32 33-64 101-132 (231)
23 cd07933 RHD-n_c-Rel N-terminal 25.7 60 0.0013 24.9 2.3 37 51-87 102-147 (172)
24 cd07885 RHD-n_RelA N-terminal 23.6 45 0.00097 25.5 1.2 44 39-87 95-145 (169)
25 PF08100 Dimerisation: Dimeris 22.7 91 0.002 18.9 2.3 32 26-62 2-33 (51)
26 PF08260 Kinin: Insect kinin p 22.7 44 0.00095 12.9 0.5 6 118-123 2-7 (8)
27 PF13308 YARHG: YARHG domain 22.3 35 0.00077 22.5 0.4 18 5-24 34-51 (81)
28 PF05182 Fip1: Fip1 motif; In 22.2 35 0.00076 20.4 0.3 15 5-26 13-27 (45)
29 PF11009 DUF2847: Protein of u 20.3 45 0.00097 23.5 0.6 54 7-73 26-84 (105)
No 1
>cd01061 RNase_T2_euk Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf senescence in order to scavenge phosphate from ribonucleotides. They are also expressed in response to wounding or pathogen invasion. S-RNases are thought to prevent self-fertilization by acting as selective cytotoxins of "self" pollen. Generally, RNases have two distinct binding sites: the primary site (B1 site) and the subsite (B2 site), for nucleotides located at the 5'- and 3'- terminal ends of the sessil bond, respectively. This CD includes the eukaryotic RNase T2 family members.
Probab=99.97 E-value=6.8e-31 Score=202.15 Aligned_cols=107 Identities=38% Similarity=0.717 Sum_probs=96.6
Q ss_pred CcchhccccccCCCCCCCHHHHHHHHHHhhhhcchhHHHHhcCCCCCCCcccchHHHHHHHHHHhCCCceEEecC----C
Q 032417 1 MHWQWEKHGTCSFPVVRDEYSYFSTTLNLYFKYNVTRVLNEAGYLPSNTEKYPLGGIVSAIQNAFHATPKLDCSK----D 76 (141)
Q Consensus 1 ~~hEW~KHGTCs~~~~~~~~~YF~~a~~L~~k~ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~~g~~p~l~C~~----~ 76 (141)
|+|||+|||||++.+..++.+||.+|++|++++|+..+|+++||+|+ ++.|++++|++||++++|..|.|.|.+ +
T Consensus 83 w~hEW~KHGTC~~~~~~~~~~YF~~a~~l~~~~~~~~~L~~~~I~P~-~~~~~~~~i~~ai~~~~g~~~~l~C~~~~~~~ 161 (195)
T cd01061 83 WEHEWNKHGTCSSTLLYNQYDYFDTALKLKDKLDLLKILAKAGIVPS-TQTYTLSDIQNAIKAATGVTPVIKCSKDPGKG 161 (195)
T ss_pred HHHHHhhCcEeCCCcccCHHHHHHHHHHHHHHCCHHHHHHHCCcCCC-CcEEcHHHHHHHHHHHHCCCcEEEeCcCCCCc
Confidence 47999999999985335899999999999999999999999999998 899999999999999999999999987 5
Q ss_pred CcceEEEEEeCC-CceecCCCCCCCCCCCCCCCCCCC-Cceee
Q 032417 77 AVNELHLCFYKD-FKPRDCIIERSPENDNYFSSSSCP-KYVSL 117 (141)
Q Consensus 77 ~L~EV~iC~~~~-~~~~~Cp~~~~~~~~~~~~~~~Cp-~~i~~ 117 (141)
+|.||+||||++ +++++||.. ...+|| ..|.|
T Consensus 162 ~L~Ev~iC~~k~~~~~~~C~~~---------~~~~C~~~~i~f 195 (195)
T cd01061 162 ELNEIWICFDKKGGEFIDCPRP---------PKSTCPDDGIKF 195 (195)
T ss_pred EEEEEEEEEECCCCeEeeCCCC---------CCCCCCCCceEC
Confidence 899999999999 799999964 357899 55654
No 2
>cd00374 RNase_T2 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf senescence in order to scavenge phosphate from ribonucleotides. They are also expressed in response to wounding or pathogen invasion. S-RNases are thought to prevent self-fertilization by acting as selective cytotoxins of "self" pollen.
Probab=99.97 E-value=1.9e-30 Score=198.45 Aligned_cols=107 Identities=39% Similarity=0.683 Sum_probs=97.5
Q ss_pred CcchhccccccCCCCCCCHHHHHHHHHHhhhhcchhHHHHhcCCCCCCCcccchHHHHHHHHHHhCCCceEEecC----C
Q 032417 1 MHWQWEKHGTCSFPVVRDEYSYFSTTLNLYFKYNVTRVLNEAGYLPSNTEKYPLGGIVSAIQNAFHATPKLDCSK----D 76 (141)
Q Consensus 1 ~~hEW~KHGTCs~~~~~~~~~YF~~a~~L~~k~ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~~g~~p~l~C~~----~ 76 (141)
|+|||+|||||++.. .++.+||+++++|++++|++++|+..||+|+++..|+.++|++||++++|..|.|.|.+ +
T Consensus 83 w~hEW~KHGTC~~~~-~~~~~YF~~a~~l~~~~ni~~~L~~~~i~p~~~~~~~~~~i~~ai~~~~g~~~~l~C~~~~~~~ 161 (195)
T cd00374 83 WKHEWNKHGTCSGTL-LDQDDYFRTALKLLDKLDLLSILAKAGIKPSDGSTYTLAFIQNAIKAATGATPSLKCTKDPGKG 161 (195)
T ss_pred HHHHHhcCceecCCc-CCHHHHHHHHHHHHHhCCHHHHHHHCCCcCCCCceecHHHHHHHHHHHHCCCcEEEeccCCCCc
Confidence 579999999999853 48999999999999999999999999999998899999999999999999999999987 6
Q ss_pred CcceEEEEEeCC-CceecCCCCCCCCCCCCCCCCCCC-Cceee
Q 032417 77 AVNELHLCFYKD-FKPRDCIIERSPENDNYFSSSSCP-KYVSL 117 (141)
Q Consensus 77 ~L~EV~iC~~~~-~~~~~Cp~~~~~~~~~~~~~~~Cp-~~i~~ 117 (141)
+|.||+|||+++ +++++||.. ..++|| ..|.|
T Consensus 162 ~L~Ev~iC~~~~~~~~~~C~~~---------~~~~C~~~~i~~ 195 (195)
T cd00374 162 LLTEIWICFDKDALKFIDCPTP---------GKSTCPADGIKF 195 (195)
T ss_pred EEEEEEEEEECCCCeEEeCCCC---------CCCCCCCCcEEC
Confidence 899999999999 899999964 257899 65654
No 3
>PF00445 Ribonuclease_T2: Ribonuclease T2 family; InterPro: IPR001568 The fungal ribonucleases T2 from Aspergillus oryzae, M from Aspergillus saitoi and Rh from Rhizopus niveus are structurally and functionally related 30 Kd glycoproteins [] that cleave the 3'-5' internucleotide linkage of RNA via a nucleotide 2',3'-cyclic phosphate intermediate (3.1.27.1 from EC). Two histidines residues have been shown [, ] to be involved in the catalytic mechanism of RNase T2 and Rh. These residues and the region around them are highly conserved in a number of other RNAses that have been found to be evolutionary related to these fungal enzymes.; GO: 0003723 RNA binding, 0033897 ribonuclease T2 activity; PDB: 1IOO_A 3D3Z_A 1UCG_B 1UCC_A 1J1F_A 1V9H_A 1UCD_A 1J1G_A 1UCA_A 1BK7_A ....
Probab=99.96 E-value=5.7e-30 Score=195.71 Aligned_cols=95 Identities=44% Similarity=0.825 Sum_probs=87.2
Q ss_pred CcchhccccccCCCCCCCHHHHHHHHHHhhhhcchhHHHHhcCCCCCCCcccchHHHHHHHHHHh-CCCceEEecCC---
Q 032417 1 MHWQWEKHGTCSFPVVRDEYSYFSTTLNLYFKYNVTRVLNEAGYLPSNTEKYPLGGIVSAIQNAF-HATPKLDCSKD--- 76 (141)
Q Consensus 1 ~~hEW~KHGTCs~~~~~~~~~YF~~a~~L~~k~ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~~-g~~p~l~C~~~--- 76 (141)
|+|||.|||||++....++.+||++|++|++++|+.++|+++||+|+.+.+|++++|++||++++ |..|.|.|.++
T Consensus 86 w~hEW~KHGtC~~~~~~~~~~YF~~a~~l~~~~~~~~~L~~~gI~p~~~~~~~~~~i~~al~~~~~~~~~~l~C~~~~~~ 165 (189)
T PF00445_consen 86 WKHEWEKHGTCSGMDFIDQYDYFSTALKLYKKLNLPKILANAGIVPSNGKTYSLSDIRDALKQAFNGVRPQLRCSRNQVN 165 (189)
T ss_dssp HHHHHHHTGGGGTTTSSSHHHHHHHHHHHHHHCHHHHHHHHTTHCSCSSEEEEHHHHHHHHHHHHTSSGEEEEEECTETT
T ss_pred HHhcceeeeEEcCCchhhHHHHHHHHHHHHHhccchHHHhhcccCCCccccccHHHHHHHHHHHcCCCceEEEEecCCCC
Confidence 58999999999996433499999999999999999999999999999999999999999999999 99999999886
Q ss_pred ---CcceEEEEEeCCC-ceecCC
Q 032417 77 ---AVNELHLCFYKDF-KPRDCI 95 (141)
Q Consensus 77 ---~L~EV~iC~~~~~-~~~~Cp 95 (141)
+|.||+|||++++ ++|+||
T Consensus 166 ~~~~L~ei~iC~~~~~~~~idCp 188 (189)
T PF00445_consen 166 GEQYLTEIRICFDKDLFQFIDCP 188 (189)
T ss_dssp SEEEEEEEEEEEETTSSSEE--S
T ss_pred CcEEEEEEEEEEeCCCCeEeCCc
Confidence 8999999999996 899998
No 4
>KOG1642 consensus Ribonuclease, T2 family [RNA processing and modification]
Probab=99.96 E-value=1.1e-28 Score=195.33 Aligned_cols=120 Identities=38% Similarity=0.762 Sum_probs=105.4
Q ss_pred CcchhccccccCCCCCC--CHHHHHHHHHHhhhhcchhHHHHhcCCCCCCCcccchHHHHHHHHHHhCCCceEEecCC--
Q 032417 1 MHWQWEKHGTCSFPVVR--DEYSYFSTTLNLYFKYNVTRVLNEAGYLPSNTEKYPLGGIVSAIQNAFHATPKLDCSKD-- 76 (141)
Q Consensus 1 ~~hEW~KHGTCs~~~~~--~~~~YF~~a~~L~~k~ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~~g~~p~l~C~~~-- 76 (141)
|.|||+|||||+.+++. ++.+||+.+++|++++|+..+|.++||.|+ ...|++++|++||+.++|..|.+.|.++
T Consensus 119 W~HEweKHGTCa~sv~~~~dq~~YF~~~L~l~~k~~l~~~L~~~gI~p~-~~~y~l~~I~nAi~~~~G~~p~I~C~rd~~ 197 (263)
T KOG1642|consen 119 WKHEWEKHGTCASSVFPLCDQHKYFETTLKLKQKLDLLSILKKAGIKPD-DNFYSLADIKNAIKEAIGKTPGIECLRDSK 197 (263)
T ss_pred hhhhhhccCchhhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHcCCCCC-CCceeHHHHHHHHHHHhCCCCceEeccCcc
Confidence 68999999999988743 999999999999999999999999999996 5799999999999999999999999874
Q ss_pred ----CcceEEEEEeCCCceecCCCCCCCCCCCCCCCCCCCCceeecCCccCCCC
Q 032417 77 ----AVNELHLCFYKDFKPRDCIIERSPENDNYFSSSSCPKYVSLPVYMSSGVD 126 (141)
Q Consensus 77 ----~L~EV~iC~~~~~~~~~Cp~~~~~~~~~~~~~~~Cp~~i~~p~~~~~~~~ 126 (141)
+|.||++||.|++++++|..... ....+.||..+.||.|.+-.+.
T Consensus 198 ~nv~~l~qI~lCl~kd~~~~d~~~~~~-----~~P~g~~~~~~~~ps~~~r~~~ 246 (263)
T KOG1642|consen 198 HNVSQLGQIRLCLLKDFSPRDCIECPT-----EFPRGSCPTFIQFPSFGPRPSE 246 (263)
T ss_pred cCceEeeeEEEEeecCcccccccCCCC-----cccCCcccccccCCCCCCCCcc
Confidence 59999999999998888875421 1346899999999988766553
No 5
>cd01062 RNase_T2_prok Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf senescence in order to scavenge phosphate from ribonucleotides. They are also expressed in response to wounding or pathogen invasion. S-RNases are thought to prevent self-fertilization by acting as selective cytotoxins of "self" pollen. Generally, RNases have two distinct binding sites: the primary site (B1 site) and the subsite (B2 site), for nucleotides located at the 5'- and 3'- terminal ends of the sessil bond, respectively. This CD includes the prokaryotic RNase T2 family members.
Probab=99.94 E-value=6e-27 Score=178.77 Aligned_cols=98 Identities=27% Similarity=0.432 Sum_probs=86.6
Q ss_pred CcchhccccccCCCCCCCHHHHHHHHHHhhhhcchhHHHHhcCCCCCCCcccchHHHHHHHHHHhCCCc----eEEecCC
Q 032417 1 MHWQWEKHGTCSFPVVRDEYSYFSTTLNLYFKYNVTRVLNEAGYLPSNTEKYPLGGIVSAIQNAFHATP----KLDCSKD 76 (141)
Q Consensus 1 ~~hEW~KHGTCs~~~~~~~~~YF~~a~~L~~k~ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~~g~~p----~l~C~~~ 76 (141)
++|||+|||||++ .++.+||++|++|++++|++++|+..++.+ + |+.++|++||++++|..+ .|.|.++
T Consensus 79 w~hEW~KHGtC~~---~~~~~YF~~a~~l~~~~~~~~~l~~~~~~~--~--~~~~~i~~a~~~~~~~~~~~~~~~~C~~~ 151 (184)
T cd01062 79 IRHEWRKHGTCSG---LDPDAYFAKARNLREALKIPPELRLLAGNI--G--VTASEIRQAFIKANPGLPPDAVSVSCQGG 151 (184)
T ss_pred hHHHHhcCCcCCC---CCHHHHHHHHHHHHHHcCcchhhhhccccC--C--cCHHHHHHHHHHHCCCCCCceEEEEECCC
Confidence 5899999999998 489999999999999999999999865432 2 999999999999998766 8999999
Q ss_pred CcceEEEEEeCCCceecCCCCCCCCCCCCCCCCCCCCc
Q 032417 77 AVNELHLCFYKDFKPRDCIIERSPENDNYFSSSSCPKY 114 (141)
Q Consensus 77 ~L~EV~iC~~~~~~~~~Cp~~~~~~~~~~~~~~~Cp~~ 114 (141)
+|.||+||||+++++++||.. ..+.||..
T Consensus 152 ~L~Ei~iC~~~~~~~~~C~~~---------~~~~C~~~ 180 (184)
T cd01062 152 LLTEVRICLDKDLKFAACPTA---------DRDNCPAG 180 (184)
T ss_pred eEEEEEEEeCcccCcccCCcc---------ccCCCCCC
Confidence 999999999999999999964 24679954
No 6
>COG3719 Rna Ribonuclease I [Translation, ribosomal structure and biogenesis]
Probab=99.88 E-value=5.9e-23 Score=162.32 Aligned_cols=103 Identities=24% Similarity=0.456 Sum_probs=87.5
Q ss_pred CcchhccccccCCCCCCCHHHHHHHHHHhhhhcchhHHHHhcCCCCCCCcccchHHHHHHHHHHhCC----CceEEecCC
Q 032417 1 MHWQWEKHGTCSFPVVRDEYSYFSTTLNLYFKYNVTRVLNEAGYLPSNTEKYPLGGIVSAIQNAFHA----TPKLDCSKD 76 (141)
Q Consensus 1 ~~hEW~KHGTCs~~~~~~~~~YF~~a~~L~~k~ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~~g~----~p~l~C~~~ 76 (141)
++|||+|||||++ .++.+||.++++|+++++++..+.... +++++|..+|++||.+.+|. .+.+.|..+
T Consensus 136 ~~heW~KHGtC~g---~s~~~YFa~~r~l~~~l~~p~~~~~~a----~~~~ls~~ei~~AF~~~n~~~~~~~v~vsc~~~ 208 (249)
T COG3719 136 ERHEWRKHGTCSG---LSQEAYFATTRRLFEELKLPPVRKLLA----DGKTLSRDEIEQAFDKANGGLKGDAVRVSCQGN 208 (249)
T ss_pred hhhhHHhcCccCC---CCHHHHHHHHHHHHHHhcCCccccccc----cccccCHHHHHHHHHHhCCCCCchheEEEeecc
Confidence 4899999999999 599999999999999999998866542 47899999999999999963 468999999
Q ss_pred CcceEEEEEeCCCceecCCCCCCCCCCCCCCCCCCCCce
Q 032417 77 AVNELHLCFYKDFKPRDCIIERSPENDNYFSSSSCPKYV 115 (141)
Q Consensus 77 ~L~EV~iC~~~~~~~~~Cp~~~~~~~~~~~~~~~Cp~~i 115 (141)
+|+||+||||++++.++|-.. + |......|++.+
T Consensus 209 ~LtEl~Icl~~~~~~~ac~~~-~----~~~~~~~C~~~~ 242 (249)
T COG3719 209 YLTELRICLDKDLQNAACLAD-L----PQPDPGNCRKTF 242 (249)
T ss_pred ceeeEEEEEccccccchhhcc-C----CCCCcccccccc
Confidence 999999999999999999332 1 112467899873
No 7
>PRK10095 ribonuclease I; Provisional
Probab=99.87 E-value=5.6e-22 Score=160.01 Aligned_cols=109 Identities=17% Similarity=0.248 Sum_probs=83.6
Q ss_pred CcchhccccccCCCCCCCHHHHHHHHHHhhhhcchhH---HHHhcCCCCCCCcccchHHHHHHHHHHhCCC----ceEEe
Q 032417 1 MHWQWEKHGTCSFPVVRDEYSYFSTTLNLYFKYNVTR---VLNEAGYLPSNTEKYPLGGIVSAIQNAFHAT----PKLDC 73 (141)
Q Consensus 1 ~~hEW~KHGTCs~~~~~~~~~YF~~a~~L~~k~ni~~---~L~~~gI~Ps~~~~~t~~~I~~ai~~~~g~~----p~l~C 73 (141)
++|||+|||||++ .++.+||.++++|++++|++. +|... .+++|+.++|++||++++|.. +.|+|
T Consensus 149 ~~heW~KHGtC~~---~~~~~YF~~al~L~~kvn~s~~~~~L~~~-----~Gk~~s~~~I~~Ai~~a~G~~~~~~~~L~C 220 (268)
T PRK10095 149 ERYEYAKHGACFG---FDPDAYFGTMVRLNQEIKESEAGKFLADN-----YGKTVSRRDFDAAFAKSWGKENVKAVKLTC 220 (268)
T ss_pred HHHHHHhCCeecC---CCHHHHHHHHHHHHHHhchhhhhhhhhcC-----CCcEEcHHHHHHHHHHHhCCCCCCcceEEe
Confidence 4799999999987 589999999999999999754 45543 578999999999999999854 59999
Q ss_pred cCC--CcceEEEEEeCCCceecCCCCCCCCCCCCCCCCCCCCceeecCC
Q 032417 74 SKD--AVNELHLCFYKDFKPRDCIIERSPENDNYFSSSSCPKYVSLPVY 120 (141)
Q Consensus 74 ~~~--~L~EV~iC~~~~~~~~~Cp~~~~~~~~~~~~~~~Cp~~i~~p~~ 120 (141)
.++ .|.||+||++++.. -.=+....+ .+...+++|++.|++++.
T Consensus 221 ~~~~~~L~EV~ICl~~~~~-~~~l~~~~~--~~~~~~~~C~~~~~i~~~ 266 (268)
T PRK10095 221 QGNPAYLTEIQISLKADAI-NAPLSANSF--LPQPHPGNCGKQFVIDKA 266 (268)
T ss_pred CCCCcEEEEEEEEcccccc-cCCchhhhc--cCCCCCCCCCCCeeeCCC
Confidence 987 79999999999842 111111011 111246789999888654
No 8
>PF01328 Peroxidase_2: Peroxidase, family 2; InterPro: IPR000028 Chloroperoxidase (CPO), also known as Heme haloperoxidase, is a ~250 residue heme-containing glycoprotein that is secreted by various fungi. Chloroperoxidase was first identified in Caldariomyces fumago where it catalyzes the hydrogen peroxide-dependent chlorination of cyclopentanedione during the biosynthesis of the antibiotic caldarioymcin. Additionally, heme haloperoxidase catalyzes the iodination and bromination of a wide range of substrates. Besides performing H2O2-dependent halogenation reactions, the enzyme catalyzes dehydrogenation reactions. Chloroperoxidase also functions as a catalase, facilitating the decomposition of hydrogen peroxide to oxygen and water. Furthermore, chloroperoxidase catalyzes P450-like oxygen insertion reactions. The capability of chloroperoxidase to perform these diverse reactions makes it one of the most versatile of all known heme proteins [, ]. Despite functional similarities with other heme enzymes, chloroperoxidase folds into a novel tertiary structure dominated by eight helical segments []. Structurally, chloroperoxidase is unique, but it shares features with both peroxidases and P450 enzymes. As in cytochrome P450 enzymes, the proximal heme ligand is a cysteine, but similar to peroxidases, the distal side of the heme is polar. However, unlike other peroxidases, the normally conserved distal arginine is lacking and the catalytic acid base is a glutamic acid and not a histidine [].; GO: 0004601 peroxidase activity; PDB: 2J5M_A 2J19_A 2CIW_A 2CJ0_A 2CIV_A 2CPO_A 1CPO_A 2CJ2_A 2J18_A 2CIZ_A ....
Probab=78.94 E-value=1.8 Score=36.09 Aligned_cols=37 Identities=24% Similarity=0.528 Sum_probs=28.5
Q ss_pred chhHHHHhcCCCCCCCcccchHHHHHHHHHHhCCCce
Q 032417 34 NVTRVLNEAGYLPSNTEKYPLGGIVSAIQNAFHATPK 70 (141)
Q Consensus 34 ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~~g~~p~ 70 (141)
.-.+.|+++|+.|.+|+.++..+|..++.+.++..+.
T Consensus 51 PgLNtLANHGyLPrnG~~It~~~l~~al~~~~n~~~~ 87 (317)
T PF01328_consen 51 PGLNTLANHGYLPRNGRNITVEQLINALQEGYNLSPD 87 (317)
T ss_dssp HHHHHHHHTTSS-TT-EEE-HHHHHHHHHHHH-B-HH
T ss_pred ccHHHHHhcCccCCCCccccHHHHHHHHHHHhCCChH
Confidence 3568899999999999999999999999999987654
No 9
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=65.48 E-value=13 Score=20.92 Aligned_cols=29 Identities=7% Similarity=0.118 Sum_probs=22.6
Q ss_pred chhHHHHhcCCCCCCCcccchHHHHHHHHH
Q 032417 34 NVTRVLNEAGYLPSNTEKYPLGGIVSAIQN 63 (141)
Q Consensus 34 ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~ 63 (141)
++.+.|...||..+.+. .+++++.+.+++
T Consensus 8 ~L~~wL~~~gi~~~~~~-~~rd~Ll~~~k~ 36 (38)
T PF10281_consen 8 DLKSWLKSHGIPVPKSA-KTRDELLKLAKK 36 (38)
T ss_pred HHHHHHHHcCCCCCCCC-CCHHHHHHHHHH
Confidence 56778999999886543 699998887765
No 10
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=62.59 E-value=11 Score=24.21 Aligned_cols=28 Identities=21% Similarity=0.274 Sum_probs=21.9
Q ss_pred CHHHHHHHHHHhhhhcchhHHHHhcCCCCCC
Q 032417 18 DEYSYFSTTLNLYFKYNVTRVLNEAGYLPSN 48 (141)
Q Consensus 18 ~~~~YF~~a~~L~~k~ni~~~L~~~gI~Ps~ 48 (141)
+...||+. ..++.++.++|++.|+++++
T Consensus 31 e~~~~f~~---~L~~~Gv~~~L~~~G~~~GD 58 (69)
T TIGR03595 31 ENLRRFAR---KLKKLGVEDALRKAGAKDGD 58 (69)
T ss_pred HHHHHHHH---HHHHCCHHHHHHHcCCCCCC
Confidence 34556655 66889999999999999864
No 11
>PF08368 FAST_2: FAST kinase-like protein, subdomain 2; InterPro: IPR013579 This domain represents a conserved region of eukaryotic Fas-activated serine/threonine (FAST) kinases (2.7.1 from EC) that contains several conserved leucine residues. FAST kinase is rapidly activated during Fas-mediated apoptosis, when it phosphorylates TIA-1, a nuclear RNA-binding protein that has been implicated as an effector of apoptosis []. Note that many family members are hypothetical proteins. This subdomain is often found associated with the FAST kinase-like protein, subdomain 2.
Probab=57.50 E-value=29 Score=23.29 Aligned_cols=40 Identities=10% Similarity=0.103 Sum_probs=32.6
Q ss_pred chHHHHHHHHHHhCCCceEEec----CCCcceEEEEEeCCCcee
Q 032417 53 PLGGIVSAIQNAFHATPKLDCS----KDAVNELHLCFYKDFKPR 92 (141)
Q Consensus 53 t~~~I~~ai~~~~g~~p~l~C~----~~~L~EV~iC~~~~~~~~ 92 (141)
-...|.++|+..+|..-.+++. .++...+.+++|++.+++
T Consensus 49 ~~~~v~~~L~~lLg~~~~~~~~v~tp~gy~iD~E~~lD~~~~pl 92 (93)
T PF08368_consen 49 LQQEVQEALKSLLGGENYFRSNVITPYGYTIDFEIVLDKNGKPL 92 (93)
T ss_pred HHHHHHHHHHHHhCCccceEEccccCCCceEEEEEEECCCCCcC
Confidence 5778999999999987777775 368889999999987654
No 12
>PF08043 Xin: Xin repeat; InterPro: IPR012510 The repeat has the consensus sequence GDV(K/Q/R)(T/S/G)X(R/K/T) WLFETXPLD. This repeat motif is typically found in the N terminus of the proteins, with a copy number between 2 and 28 repeats. Direct evidence for binding to and stabilising F-actin has been found in the human protein (Q702N9 from SWISSPROT) []. The homologues in mouse and chicken localise in the adherens junction complex of the intercalated disc in cardiac muscle and in the myotendon junction of skeletal muscle. mXin may co-localise with Vinculin which is known to attach the actin to the cytoplasmic membrane []. It has been shown that the amino-terminus of human xin (CMYA1) binds the EVH1 domain of Mena/VASP/EVL, and the carboxy-terminus binds the, for the filamin family unique, domain 20 of filamin C []. This confirms the proposed role of xin repeat containing proteins as F-actin-binding adapter proteins.; GO: 0003779 actin binding, 0030036 actin cytoskeleton organization, 0030054 cell junction
Probab=55.27 E-value=5.2 Score=18.95 Aligned_cols=11 Identities=36% Similarity=1.075 Sum_probs=8.8
Q ss_pred eeeeccCCCCC
Q 032417 131 AIPWILENEPL 141 (141)
Q Consensus 131 ~~~~~~~~~~~ 141 (141)
..-|+.|+.||
T Consensus 5 ~~~wlFEtqpl 15 (16)
T PF08043_consen 5 TTRWLFETQPL 15 (16)
T ss_pred eeEEEeecccC
Confidence 35699999986
No 13
>TIGR03853 matur_matur probable metal-binding protein. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulfatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulfur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulfatase/maturase systems.
Probab=48.03 E-value=50 Score=22.07 Aligned_cols=55 Identities=22% Similarity=0.286 Sum_probs=37.3
Q ss_pred chhHHHHhcCCCCCCCcccchHHHHHHHHHHhCCCc-eEEecCC--CcceEEEEEeCCCceecC
Q 032417 34 NVTRVLNEAGYLPSNTEKYPLGGIVSAIQNAFHATP-KLDCSKD--AVNELHLCFYKDFKPRDC 94 (141)
Q Consensus 34 ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~~g~~p-~l~C~~~--~L~EV~iC~~~~~~~~~C 94 (141)
++...|.+. +.+||.+.++.+|.+.||... .-.|+.. .+.|+.--|-+.++++.-
T Consensus 6 eVL~mml~~------~~~~t~~~L~~~i~~~FG~~arFhTCSa~~m~a~~Li~FL~~kgKfi~~ 63 (77)
T TIGR03853 6 EVLNLMLAS------GEPYTRESLKAAIEQKFGEDARFHTCSAEGMTADELLQFLLKKGKFIES 63 (77)
T ss_pred HHHHHHHHc------CCCcCHHHHHHHHHHHhCCCceEeecccccCCHHHHHHHHHHCCCEeec
Confidence 455555543 568999999999999999766 5678753 344544445555666653
No 14
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=46.45 E-value=25 Score=22.56 Aligned_cols=28 Identities=21% Similarity=0.291 Sum_probs=20.0
Q ss_pred CHHHHHHHHHHhhhhcchhHHHHhcCCCCCC
Q 032417 18 DEYSYFSTTLNLYFKYNVTRVLNEAGYLPSN 48 (141)
Q Consensus 18 ~~~~YF~~a~~L~~k~ni~~~L~~~gI~Ps~ 48 (141)
+...||+. ..++.++.+.|+++||++++
T Consensus 31 e~~~rf~~---~L~~~Gv~~~L~~~G~~~GD 58 (69)
T PF09269_consen 31 ESLRRFQR---KLKKMGVEKALRKAGAKEGD 58 (69)
T ss_dssp GGHHHHHH---HHHHTTHHHHHHTTT--TT-
T ss_pred HHHHHHHH---HHHHCCHHHHHHHcCCCCCC
Confidence 34567776 56889999999999999754
No 15
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=41.57 E-value=53 Score=21.97 Aligned_cols=54 Identities=20% Similarity=0.199 Sum_probs=35.7
Q ss_pred chhHHHHhcCCCCCCCcccchHHHHHHHHHHhCCCc-eEEecCC--CcceEEEEEeCCCceec
Q 032417 34 NVTRVLNEAGYLPSNTEKYPLGGIVSAIQNAFHATP-KLDCSKD--AVNELHLCFYKDFKPRD 93 (141)
Q Consensus 34 ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~~g~~p-~l~C~~~--~L~EV~iC~~~~~~~~~ 93 (141)
++...|-+. +.+|+.+++..+|.+.||... .-.|+.. .+.|+.--|-+.++++.
T Consensus 8 eVL~mmi~~------~~~~t~~~L~~ai~~~FG~~arFhTCSae~m~a~eLv~FL~~rgKfi~ 64 (78)
T PF10678_consen 8 EVLNMMIES------GNPYTKEELKAAIIEKFGEDARFHTCSAEGMTADELVDFLEERGKFIP 64 (78)
T ss_pred HHHHHHHHc------CCCcCHHHHHHHHHHHhCCCceEEecCCCCCCHHHHHHHHHHcCCEee
Confidence 455556443 468999999999999999765 5678764 23344433444455554
No 16
>PF13041 PPR_2: PPR repeat family
Probab=40.43 E-value=30 Score=19.89 Aligned_cols=35 Identities=9% Similarity=0.225 Sum_probs=22.1
Q ss_pred HHHHHhhhhcchhHHHHhcCCCCCCCcccchHHHHHHH
Q 032417 24 STTLNLYFKYNVTRVLNEAGYLPSNTEKYPLGGIVSAI 61 (141)
Q Consensus 24 ~~a~~L~~k~ni~~~L~~~gI~Ps~~~~~t~~~I~~ai 61 (141)
-+.-++.+.+.+.+.+.+.||.|+ .+|..-+.+++
T Consensus 14 ~~~~~~~~a~~l~~~M~~~g~~P~---~~Ty~~li~~~ 48 (50)
T PF13041_consen 14 CKAGKFEEALKLFKEMKKRGIKPD---SYTYNILINGL 48 (50)
T ss_pred HHCcCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHH
Confidence 333344455566667888999996 46666665544
No 17
>cd07884 RHD-n_Relish N-terminal sub-domain of the Rel homology domain (RHD) of the arthropod protein Relish. Proteins containing the Rel homology domain (RHD) are metazoan transcription factors. The RHD is composed of two structural sub-domains; this model characterizes the N-terminal RHD sub-domain of the arthropod Relish protein, in which the RHD domain co-occurs with C-terminal ankyrin repeats. Family members are sometimes referred to as p110 or p68 (proteolytically processed form). Relish is an NF-kappa B-like transcription factor, which plays a role in mediating innate immunity in Drosophila. It is activated via the Imd (immune deficiency) pathway, which triggers phosphorylation of Relish. IKK-dependent proteolytic cleavage of Relish (which involves Dredd) results in a smaller active form (without the C-terminal ankyrin repeats), which is transported into the nucleus and functions as a transactivator.
Probab=36.39 E-value=21 Score=27.06 Aligned_cols=35 Identities=14% Similarity=0.170 Sum_probs=25.4
Q ss_pred HHhcCCCCCCCcccchHHHHHHHHHHhCCCceEEecCCCcceEEEEEeC
Q 032417 39 LNEAGYLPSNTEKYPLGGIVSAIQNAFHATPKLDCSKDAVNELHLCFYK 87 (141)
Q Consensus 39 L~~~gI~Ps~~~~~t~~~I~~ai~~~~g~~p~l~C~~~~L~EV~iC~~~ 87 (141)
|.+.|| .-++.++|.++|.+. ..-.|..||+||..
T Consensus 100 F~nLGI-----qcv~Kk~v~~~L~~r---------~~idLn~VRLcFqa 134 (159)
T cd07884 100 FQNMGI-----IHTAKKNIPEELYKK---------KNMNLNQVVLRFQA 134 (159)
T ss_pred eCCcce-----EEEEecchHHHHhhh---------cccCcccEEEEEEE
Confidence 566666 356778888888864 23369999999986
No 18
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=31.83 E-value=56 Score=19.69 Aligned_cols=29 Identities=14% Similarity=0.286 Sum_probs=18.4
Q ss_pred hhHHHHhcCCCCCCCcccchHHHHHHHHHHhCCC
Q 032417 35 VTRVLNEAGYLPSNTEKYPLGGIVSAIQNAFHAT 68 (141)
Q Consensus 35 i~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~~g~~ 68 (141)
+.++|+..+ -.++|..+|..++++.||..
T Consensus 9 i~~iL~~~d-----l~~vT~k~vr~~Le~~~~~d 37 (54)
T PF08766_consen 9 IREILREAD-----LDTVTKKQVREQLEERFGVD 37 (54)
T ss_dssp HHHHHTTS------GGG--HHHHHHHHHHH-SS-
T ss_pred HHHHHHhCC-----HhHhhHHHHHHHHHHHHCCC
Confidence 345666653 45789999999999999853
No 19
>PF09377 SBDS_C: SBDS protein C-terminal domain; InterPro: IPR018978 This entry represents the C-terminal domain of proteins that are highly conserved in species ranging from archaea to vertebrates and plants []. The family contains several Shwachman-Bodian-Diamond syndrome (SBDS, OMIM 260400) proteins from both mouse and humans. Shwachman-Diamond syndrome is an autosomal recessive disorder with clinical features that include pancreatic exocrine insufficiency, haematological dysfunction and skeletal abnormalities. It is characterised by bone marrow failure and leukemia predisposition. Members of this family play a role in RNA metabolism [, ]. In yeast Sdo1 is involved in the biogenesis of the 60S ribosomal subunit and translational activation of ribosomes. Together with the EF-2-like GTPase RIA1 (EfI1), it triggers the GTP-dependent release of TIF6 from 60S pre-ribosomes in the cytoplasm, thereby activating ribosomes for translation competence by allowing 80S ribosome assembly and facilitating TIF6 recycling to the nucleus, where it is required for 60S rRNA processing and nuclear export. This data links defective late 60S subunit maturation to an inherited bone marrow failure syndrome associated with leukemia predisposition []. A number of uncharacterised hydrophilic proteins of about 30 kDa share regions of similarity. These include, Mouse protein 22A3. Saccharomyces cerevisiae chromosome XII hypothetical protein YLR022c. Caenorhabditis elegans hypothetical protein W06E11.4. Methanocaldococcus jannaschii (Methanococcus jannaschii) hypothetical protein MJ0592. ; GO: 0042254 ribosome biogenesis; PDB: 2KDO_A 2L9N_A 2WBM_B 1P9Q_C 1T95_A.
Probab=31.69 E-value=37 Score=24.26 Aligned_cols=31 Identities=23% Similarity=0.412 Sum_probs=24.6
Q ss_pred chhHHHHhcCCCCCCCcccchHHHHHHHHHH
Q 032417 34 NVTRVLNEAGYLPSNTEKYPLGGIVSAIQNA 64 (141)
Q Consensus 34 ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~ 64 (141)
++.+++.+.-|.|..+..|+...|++|+++.
T Consensus 5 eI~~~Ia~~~VnP~T~rP~p~~~IE~Am~e~ 35 (125)
T PF09377_consen 5 EIATIIAEKCVNPRTNRPYPPTRIEKAMKEA 35 (125)
T ss_dssp HHHHHHHHHEEBTTTTBTT-HHHHHHHHHHT
T ss_pred HHHHHHHHhccCCCCCCCCCHHHHHHHHHhC
Confidence 4556677777899999999999999999754
No 20
>COG1500 Predicted exosome subunit [Translation, ribosomal structure and biogenesis]
Probab=27.48 E-value=75 Score=25.55 Aligned_cols=33 Identities=18% Similarity=0.305 Sum_probs=27.2
Q ss_pred hcchhHHHHhcCCCCCCCcccchHHHHHHHHHH
Q 032417 32 KYNVTRVLNEAGYLPSNTEKYPLGGIVSAIQNA 64 (141)
Q Consensus 32 k~ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~ 64 (141)
+-.+.+...++.|.|..+.+++...|++|+..+
T Consensus 100 ~rqIi~~IsRn~IdP~t~~P~Pp~rIe~Ameea 132 (234)
T COG1500 100 KRQIINIISRNAIDPQTKAPHPPARIEKAMEEA 132 (234)
T ss_pred HHHHHHHHHHhccCCCCCCCCCHHHHHHHHHhc
Confidence 334666677888999988899999999999964
No 21
>TIGR00291 RNA_SBDS rRNA metabolism protein, SBDS family. This protein family, possibly universal in both archaea and eukaryotes, appears to be involved in (ribosomal) RNA metabolism. Mutations in the human ortholog are associated with Shwachman-Bodian-Diamond syndrome.
Probab=27.00 E-value=76 Score=25.43 Aligned_cols=32 Identities=16% Similarity=0.279 Sum_probs=28.1
Q ss_pred cchhHHHHhcCCCCCCCcccchHHHHHHHHHH
Q 032417 33 YNVTRVLNEAGYLPSNTEKYPLGGIVSAIQNA 64 (141)
Q Consensus 33 ~ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~ 64 (141)
-++...+.+.-|.|....+|+...|+.|++++
T Consensus 101 ~~Ii~~Ia~~~VnP~T~~P~p~~rIE~Am~e~ 132 (231)
T TIGR00291 101 NQIINIISRNTINPQTKKPHPPTRIEKALEEA 132 (231)
T ss_pred HHHHHHHHHhCcCCCCCCCCCHHHHHHHHHhc
Confidence 35677888899999999999999999999874
No 22
>PRK13760 putative RNA-associated protein; Provisional
Probab=25.93 E-value=80 Score=25.30 Aligned_cols=32 Identities=16% Similarity=0.200 Sum_probs=28.1
Q ss_pred cchhHHHHhcCCCCCCCcccchHHHHHHHHHH
Q 032417 33 YNVTRVLNEAGYLPSNTEKYPLGGIVSAIQNA 64 (141)
Q Consensus 33 ~ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~ 64 (141)
-++...+.+.-|.|..+.+|+...|+.|++++
T Consensus 101 r~Ii~~Ia~~~vnP~T~~P~p~~rIE~Am~e~ 132 (231)
T PRK13760 101 RQIINFIARNAINPQTGLPHPPQRIENAMEEA 132 (231)
T ss_pred HHHHHHHHHhccCCCCCCCCCHHHHHHHHHhc
Confidence 35677888999999999999999999999974
No 23
>cd07933 RHD-n_c-Rel N-terminal sub-domain of the Rel homology domain (RHD) of c-Rel. Proteins containing the Rel homology domain (RHD) are metazoan transcription factors. The RHD is composed of two structural sub-domains; this model characterizes the N-terminal RHD sub-domain of the c-Rel family of transcription factors, categorized as a class II member of the NF-kappa B family. In class II NF-kappa Bs, the RHD domain co-occurs with a C-terminal transactivation domain (TAD). NF-kappa B proteins are part of a protein complex that acts as a transcription factor, which is responsible for regulating a host of cellular responses to a variety of stimuli. This complex tightly regulates the expression of a large number of genes, and is involved in processes such as adaptive and innate immunity, stress response, inflammation, cell adhesion, proliferation and apoptosis. The cytosolic NF-kappa B complex is activated via phosphorylation of the ankyrin-repeat containing inhibitory protein I-kappa B
Probab=25.69 E-value=60 Score=24.91 Aligned_cols=37 Identities=19% Similarity=0.165 Sum_probs=20.8
Q ss_pred ccchHHHHHHHHHHh--CCCceE-------EecCCCcceEEEEEeC
Q 032417 51 KYPLGGIVSAIQNAF--HATPKL-------DCSKDAVNELHLCFYK 87 (141)
Q Consensus 51 ~~t~~~I~~ai~~~~--g~~p~l-------~C~~~~L~EV~iC~~~ 87 (141)
-++.++|.++|.+.. +..|.= +=..-.|..||+||..
T Consensus 102 cV~KK~v~e~L~~R~~~~~~pf~~~~~~~~~~~~iDLn~VRLCFqa 147 (172)
T cd07933 102 CVRRREVKEAIMLRISRGINPFNVPEEQLLQIEEYDLNVVRLCFQI 147 (172)
T ss_pred EEEhhhHHHHHHHHHHhcCCCCcchHhHhhhhhccccceEEEEEEE
Confidence 456666666666543 322210 0001259999999987
No 24
>cd07885 RHD-n_RelA N-terminal sub-domain of the Rel homology domain (RHD) of RelA. Proteins containing the Rel homology domain (RHD) are metazoan transcription factors. The RHD is composed of two structural sub-domains; this model characterizes the N-terminal RHD domain of the RelA family of transcription factors, categorized as a class II member of the NF-kappa B family. In class II NF-kappa Bs, the RHD domain co-occurs with a C-terminal transactivation domain (TAD). NF-kappa B proteins are part of a protein complex that acts as a transcription factor, which is responsible for regulating a host of cellular responses to a variety of stimuli. This complex tightly regulates the expression of a large number of genes, and is involved in processes such as adaptive and innate immunity, stress response, inflammation, cell adhesion, proliferation and apoptosis. The cytosolic NF-kappa B complex is activated via phosphorylation of the ankyrin-repeat containing inhibitory protein I-kappa B, which
Probab=23.59 E-value=45 Score=25.54 Aligned_cols=44 Identities=18% Similarity=0.360 Sum_probs=25.6
Q ss_pred HHhcCCCCCCCcccchHHHHHHHHHHh--CCCce-EEec---CC-CcceEEEEEeC
Q 032417 39 LNEAGYLPSNTEKYPLGGIVSAIQNAF--HATPK-LDCS---KD-AVNELHLCFYK 87 (141)
Q Consensus 39 L~~~gI~Ps~~~~~t~~~I~~ai~~~~--g~~p~-l~C~---~~-~L~EV~iC~~~ 87 (141)
|.+.|| .-++.++|.++|.+.. +..|. +... +. .|..||+||..
T Consensus 95 F~nLGI-----qcV~KKdv~e~L~~R~~~~~~pf~~~~~~~~~~iDLn~VRLcFqa 145 (169)
T cd07885 95 FQNLGI-----QCVKKRDLEQAVSQRIQTNNNPFNVPIEEQRADYDLNAVRLCFQV 145 (169)
T ss_pred ecccee-----EEEEeccHHHHHHHHHHhcCCCCccchhHhhcccchhhEEEEEEE
Confidence 455555 2466677777776554 33332 1111 12 59999999976
No 25
>PF08100 Dimerisation: Dimerisation domain; InterPro: IPR012967 This domain is found at the N terminus of a variety of plant O-methyltransferases. It has been shown to mediate dimerisation of these proteins [].; GO: 0008168 methyltransferase activity, 0046983 protein dimerization activity; PDB: 1ZGJ_A 1ZG3_A 1ZHF_A 1ZGA_A 2QYO_A 1KYW_A 1KYZ_A 3REO_D 1FPX_A 1FP2_A ....
Probab=22.74 E-value=91 Score=18.87 Aligned_cols=32 Identities=16% Similarity=0.335 Sum_probs=23.2
Q ss_pred HHHhhhhcchhHHHHhcCCCCCCCcccchHHHHHHHH
Q 032417 26 TLNLYFKYNVTRVLNEAGYLPSNTEKYPLGGIVSAIQ 62 (141)
Q Consensus 26 a~~L~~k~ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~ 62 (141)
+++-.-++++++++.++| +...|.++|...+.
T Consensus 2 aLk~aveLgI~dii~~~g-----~~~ls~~eia~~l~ 33 (51)
T PF08100_consen 2 ALKCAVELGIPDIIHNAG-----GGPLSLSEIAARLP 33 (51)
T ss_dssp HHHHHHHTTHHHHHHHHT-----TS-BEHHHHHHTST
T ss_pred cHHHHHHcCcHHHHHHcC-----CCCCCHHHHHHHcC
Confidence 444556789999999986 36899999766655
No 26
>PF08260 Kinin: Insect kinin peptide; InterPro: IPR013202 This entry represents neuropeptides that are the first members of the insect kinin-family isolated from the American cockroach. Their occurrence in the retrocerebral complex suggests a physiological role as a neurohormone. The C-terminal sequence Phe-X-Ser-Trp-Gly-NH2 characterised the peptides as members of the insect kinin family. Data suggest a possible involvement of insect kinins in water-balance by regulating the osmoregulation. Insect kinins also mediate visceral muscle contractile activity (myotropic activity) []. These peptides have lengths ranging from 6 to 14 amino acids [].
Probab=22.73 E-value=44 Score=12.91 Aligned_cols=6 Identities=33% Similarity=0.528 Sum_probs=3.3
Q ss_pred cCCccC
Q 032417 118 PVYMSS 123 (141)
Q Consensus 118 p~~~~~ 123 (141)
|+|.||
T Consensus 2 pafnsw 7 (8)
T PF08260_consen 2 PAFNSW 7 (8)
T ss_pred cccccc
Confidence 455555
No 27
>PF13308 YARHG: YARHG domain
Probab=22.34 E-value=35 Score=22.47 Aligned_cols=18 Identities=39% Similarity=0.798 Sum_probs=14.7
Q ss_pred hccccccCCCCCCCHHHHHH
Q 032417 5 WEKHGTCSFPVVRDEYSYFS 24 (141)
Q Consensus 5 W~KHGTCs~~~~~~~~~YF~ 24 (141)
+.+||-|..+ .+-.+||+
T Consensus 34 yAr~Gy~F~~--~~l~~yF~ 51 (81)
T PF13308_consen 34 YARHGYCFKS--QDLQAYFS 51 (81)
T ss_pred HHHcCCCCCC--HHHHHHHc
Confidence 5789999986 46788998
No 28
>PF05182 Fip1: Fip1 motif; InterPro: IPR007854 This short motif is about 40 amino acids in length and is found in the Fip1 protein that is a component of a Saccharomyces cerevisiae pre-mRNA polyadenylation factor that directly interacts with poly(A) polymerase []. This region of Fip1 is needed for the interaction with the Yth1 subunit of the complex and for specific polyadenylation of the cleaved mRNA precursor [].
Probab=22.25 E-value=35 Score=20.45 Aligned_cols=15 Identities=40% Similarity=0.826 Sum_probs=10.4
Q ss_pred hccccccCCCCCCCHHHHHHHH
Q 032417 5 WEKHGTCSFPVVRDEYSYFSTT 26 (141)
Q Consensus 5 W~KHGTCs~~~~~~~~~YF~~a 26 (141)
|+++|+ +..+||+..
T Consensus 13 Wr~pGa-------DisDyFNYG 27 (45)
T PF05182_consen 13 WRKPGA-------DISDYFNYG 27 (45)
T ss_pred ccCCCC-------ChhhhcCCC
Confidence 888882 456888654
No 29
>PF11009 DUF2847: Protein of unknown function (DUF2847); InterPro: IPR022551 Members of this protein family, including YtxJ from Bacillus subtilis, occur in species that encode proteins for synthesizing bacillithiol. The protein is described as thioredoxin-like, while another bacillithiol-associated protein, YpdA (TIGR04018 from TIGRFAMS), is described as thioredoxin reductase-like. ; PDB: 3IV4_A.
Probab=20.28 E-value=45 Score=23.46 Aligned_cols=54 Identities=19% Similarity=0.204 Sum_probs=28.9
Q ss_pred cccc-cCCCCCCCHHHHHHHHHHhhhh-cchhHHHHhcCCCCCCCcccchHHHHHHHHHHhCC---CceEEe
Q 032417 7 KHGT-CSFPVVRDEYSYFSTTLNLYFK-YNVTRVLNEAGYLPSNTEKYPLGGIVSAIQNAFHA---TPKLDC 73 (141)
Q Consensus 7 KHGT-Cs~~~~~~~~~YF~~a~~L~~k-~ni~~~L~~~gI~Ps~~~~~t~~~I~~ai~~~~g~---~p~l~C 73 (141)
||.| |.-+ ..+..-|+........ +...- -.-...+.|-++|...+|+ .|++-=
T Consensus 26 KHSt~C~IS--~~a~~~~e~~~~~~~~~~~~y~-----------l~v~~~R~vSn~IAe~~~V~HeSPQ~il 84 (105)
T PF11009_consen 26 KHSTRCPIS--AMALREFEKFWEESPDEIPVYY-----------LDVIEYRPVSNAIAEDFGVKHESPQVIL 84 (105)
T ss_dssp EE-TT-HHH--HHHHHHHHHHHHHHT----EEE-----------EEGGGGHHHHHHHHHHHT----SSEEEE
T ss_pred EeCCCChhh--HHHHHHHHHHhhcCCccceEEE-----------EEEEeCchhHHHHHHHhCCCcCCCcEEE
Confidence 8988 8754 2345556655554433 22211 1234667899999999995 466543
Done!