Query 036886
Match_columns 85
No_of_seqs 103 out of 171
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 06:25:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036886.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036886hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2688 Transcription-associat 99.8 4.5E-21 9.7E-26 154.1 -0.8 70 1-85 305-375 (394)
2 COG5600 Transcription-associat 99.5 1.5E-15 3.3E-20 122.8 0.0 69 2-85 323-394 (413)
3 PF01399 PCI: PCI domain; Int 97.9 1.3E-05 2.7E-10 50.1 3.6 39 41-84 57-95 (105)
4 smart00753 PAM PCI/PINT associ 92.4 0.24 5.3E-06 30.6 3.7 37 43-84 23-59 (88)
5 smart00088 PINT motif in prote 92.4 0.24 5.3E-06 30.6 3.7 37 43-84 23-59 (88)
6 PF09012 FeoC: FeoC like trans 84.5 1.5 3.1E-05 26.7 3.1 34 42-80 12-45 (69)
7 KOG2908 26S proteasome regulat 73.7 3.9 8.5E-05 33.8 3.2 42 38-84 288-329 (380)
8 PF13833 EF-hand_8: EF-hand do 69.0 17 0.00036 20.2 4.4 32 42-73 2-34 (54)
9 PF02791 DDT: DDT domain; Int 56.1 16 0.00035 21.9 2.9 31 46-76 27-57 (61)
10 KOG1497 COP9 signalosome, subu 52.7 8.5 0.00018 32.0 1.5 25 60-84 328-352 (399)
11 PF09639 YjcQ: YjcQ protein; 44.9 12 0.00026 24.1 1.1 22 61-82 22-43 (88)
12 KOG2581 26S proteasome regulat 39.0 22 0.00047 30.4 1.9 37 43-83 376-412 (493)
13 PF08672 APC2: Anaphase promot 37.1 60 0.0013 19.8 3.3 35 45-79 12-51 (60)
14 PTZ00183 centrin; Provisional 36.3 79 0.0017 20.3 4.0 34 38-71 27-60 (158)
15 KOG0030 Myosin essential light 36.1 39 0.00085 24.9 2.7 40 40-79 100-140 (152)
16 PF08784 RPA_C: Replication pr 30.7 79 0.0017 20.1 3.2 33 42-79 63-95 (102)
17 PRK05423 hypothetical protein; 29.3 61 0.0013 22.5 2.6 33 43-75 38-70 (104)
18 PF00395 SLH: S-layer homology 27.5 37 0.0008 18.6 1.1 14 69-82 15-28 (45)
19 cd00051 EFh EF-hand, calcium b 27.4 97 0.0021 15.8 3.7 34 38-71 10-43 (63)
20 PF06211 BAMBI: BMP and activi 26.3 41 0.0009 23.5 1.3 17 66-82 12-28 (107)
21 PF04363 DUF496: Protein of un 25.9 74 0.0016 21.8 2.5 33 43-75 31-63 (95)
22 PF01986 DUF123: Domain of unk 25.7 52 0.0011 22.2 1.7 21 62-82 62-84 (99)
23 PF14658 EF-hand_9: EF-hand do 25.5 1.8E+02 0.004 18.3 4.1 34 38-71 8-42 (66)
24 PF11829 DUF3349: Protein of u 24.2 1.4E+02 0.003 20.2 3.5 34 45-78 20-53 (96)
25 PF05158 RNA_pol_Rpc34: RNA po 23.8 26 0.00057 27.8 0.0 36 45-80 217-255 (327)
26 COG1522 Lrp Transcriptional re 23.8 1.1E+02 0.0024 20.1 3.1 36 43-83 21-56 (154)
27 KOG0031 Myosin regulatory ligh 22.6 1.3E+02 0.0028 22.6 3.4 36 37-72 110-145 (171)
28 cd08816 CARD_RIG-I_1 Caspase a 21.2 62 0.0013 22.0 1.4 11 61-71 32-42 (89)
29 PHA01632 hypothetical protein 21.0 49 0.0011 21.1 0.8 12 70-81 44-55 (64)
No 1
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=99.80 E-value=4.5e-21 Score=154.06 Aligned_cols=70 Identities=34% Similarity=0.576 Sum_probs=66.3
Q ss_pred CeEEeeehhheeeccccccccccccccceEEEEccccCCCCCceeeHHHHHHHHhhcC-CCCCchhHHHHHHHHhhcCcc
Q 036886 1 MYIVLKKVDLQVHSSRKYFGLFNFIYSLSCYIIRKQKDPSKAHQTKLDVIVKALKWLE-MDMDVDEVECVVALLLHKNLV 79 (85)
Q Consensus 1 ~YL~lEklr~iv~r~~~~~nLfkk~~~~~v~~i~~~~~p~k~~~ipl~~f~~Al~~~~-~~~d~DEvECilANLI~kg~i 79 (85)
+|+++|+++.+||| ||||| ||.+++ |++++|++.|+.|++..+ .|.|+||+||++||||+.|+|
T Consensus 305 i~l~l~~l~lv~yr-----nL~kk-----v~~~~~-----~~~~lpls~~~~al~~~~~~~~~~deveciLa~lI~~G~i 369 (394)
T KOG2688|consen 305 IYLTLEKLPLVVYR-----NLFKK-----VIQLWG-----KTSQLPLSRFLTALQFSGVTDVDLDEVECILANLIDLGRI 369 (394)
T ss_pred cHHHhhhhhHHHHH-----HHHHH-----HHHHhC-----CCCCCCHHHHHHHHhhcCCCCCchhhHHHHHHhhhhhccc
Confidence 58999999999999 99999 999994 899999999999999999 569999999999999999999
Q ss_pred cccccC
Q 036886 80 KGYFAR 85 (85)
Q Consensus 80 KGYisr 85 (85)
|||||+
T Consensus 370 kgYish 375 (394)
T KOG2688|consen 370 KGYISH 375 (394)
T ss_pred cchhch
Confidence 999985
No 2
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=99.52 E-value=1.5e-15 Score=122.84 Aligned_cols=69 Identities=25% Similarity=0.510 Sum_probs=62.8
Q ss_pred eEE-eeehhheeeccccccccccccccceEEEEccccCCCCCceeeHHHHHHHHhhcCCC--CCchhHHHHHHHHhhcCc
Q 036886 2 YIV-LKKVDLQVHSSRKYFGLFNFIYSLSCYIIRKQKDPSKAHQTKLDVIVKALKWLEMD--MDVDEVECVVALLLHKNL 78 (85)
Q Consensus 2 YL~-lEklr~iv~r~~~~~nLfkk~~~~~v~~i~~~~~p~k~~~ipl~~f~~Al~~~~~~--~d~DEvECilANLI~kg~ 78 (85)
|++ .++.+.+|+| ||||| +|.+. .+.+++|++.++.|++.++.| .+.|||||++|+||.+|+
T Consensus 323 ~ltl~~~~~~V~~R-----NL~rk-----~w~~~-----~~qsrlp~sil~~~~qls~~dn~~~~~~VEciL~tlI~~G~ 387 (413)
T COG5600 323 YLTLLAHYPLVCFR-----NLFRK-----IWRLH-----GKQSRLPLSILLIVLQLSAIDNFHSFKEVECILVTLIGLGL 387 (413)
T ss_pred HHHHHhhccHHHHH-----HHHHH-----HHhhc-----cccccCcHHHHHHHHHccCCCcccChHHHHHHHHHHHhhhh
Confidence 444 5678999999 99999 99888 488999999999999999977 899999999999999999
Q ss_pred ccccccC
Q 036886 79 VKGYFAR 85 (85)
Q Consensus 79 iKGYisr 85 (85)
+|||||+
T Consensus 388 lrgYis~ 394 (413)
T COG5600 388 LRGYISH 394 (413)
T ss_pred hhheecc
Confidence 9999986
No 3
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=97.92 E-value=1.3e-05 Score=50.10 Aligned_cols=39 Identities=26% Similarity=0.359 Sum_probs=34.7
Q ss_pred CCceeeHHHHHHHHhhcCCCCCchhHHHHHHHHhhcCccccccc
Q 036886 41 KAHQTKLDVIVKALKWLEMDMDVDEVECVVALLLHKNLVKGYFA 84 (85)
Q Consensus 41 k~~~ipl~~f~~Al~~~~~~~d~DEvECilANLI~kg~iKGYis 84 (85)
.-..++++.+.+++.+ +.+|||+++++||..|.|+|+|.
T Consensus 57 ~y~~i~~~~ia~~l~~-----~~~~vE~~l~~~I~~~~i~~~ID 95 (105)
T PF01399_consen 57 PYSSISISEIAKALQL-----SEEEVESILIDLISNGLIKAKID 95 (105)
T ss_dssp C-SEEEHHHHHHHHTC-----CHHHHHHHHHHHHHTTSSEEEEE
T ss_pred HhcccchHHHHHHhcc-----chHHHHHHHHHHHHCCCEEEEEE
Confidence 3578999999999986 56999999999999999999986
No 4
>smart00753 PAM PCI/PINT associated module.
Probab=92.41 E-value=0.24 Score=30.57 Aligned_cols=37 Identities=22% Similarity=0.236 Sum_probs=31.8
Q ss_pred ceeeHHHHHHHHhhcCCCCCchhHHHHHHHHhhcCccccccc
Q 036886 43 HQTKLDVIVKALKWLEMDMDVDEVECVVALLLHKNLVKGYFA 84 (85)
Q Consensus 43 ~~ipl~~f~~Al~~~~~~~d~DEvECilANLI~kg~iKGYis 84 (85)
..|+++.+..++.+ +.||+|=.+.++|..|.++|-|.
T Consensus 23 ~~i~~~~i~~~~~l-----~~~~vE~~i~~~i~~~~l~~~ID 59 (88)
T smart00753 23 SSISLSDLAKLLGL-----SVPEVEKLVSKAIRDGEISAKID 59 (88)
T ss_pred ceeeHHHHHHHhCc-----CHHHHHHHHHHHHHCCCeEEEEc
Confidence 56899999988864 67799999999999999998764
No 5
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=92.41 E-value=0.24 Score=30.57 Aligned_cols=37 Identities=22% Similarity=0.236 Sum_probs=31.8
Q ss_pred ceeeHHHHHHHHhhcCCCCCchhHHHHHHHHhhcCccccccc
Q 036886 43 HQTKLDVIVKALKWLEMDMDVDEVECVVALLLHKNLVKGYFA 84 (85)
Q Consensus 43 ~~ipl~~f~~Al~~~~~~~d~DEvECilANLI~kg~iKGYis 84 (85)
..|+++.+..++.+ +.||+|=.+.++|..|.++|-|.
T Consensus 23 ~~i~~~~i~~~~~l-----~~~~vE~~i~~~i~~~~l~~~ID 59 (88)
T smart00088 23 SSISLSDLAKLLGL-----SVPEVEKLVSKAIRDGEISAKID 59 (88)
T ss_pred ceeeHHHHHHHhCc-----CHHHHHHHHHHHHHCCCeEEEEc
Confidence 56899999988864 67799999999999999998764
No 6
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=84.45 E-value=1.5 Score=26.71 Aligned_cols=34 Identities=15% Similarity=0.373 Sum_probs=25.8
Q ss_pred CceeeHHHHHHHHhhcCCCCCchhHHHHHHHHhhcCccc
Q 036886 42 AHQTKLDVIVKALKWLEMDMDVDEVECVVALLLHKNLVK 80 (85)
Q Consensus 42 ~~~ipl~~f~~Al~~~~~~~d~DEvECilANLI~kg~iK 80 (85)
.+.++++.+..-|. ++.+.||-++.-|+.+|+|+
T Consensus 12 ~~~~S~~eLa~~~~-----~s~~~ve~mL~~l~~kG~I~ 45 (69)
T PF09012_consen 12 RGRVSLAELAREFG-----ISPEAVEAMLEQLIRKGYIR 45 (69)
T ss_dssp S-SEEHHHHHHHTT-------HHHHHHHHHHHHCCTSCE
T ss_pred cCCcCHHHHHHHHC-----cCHHHHHHHHHHHHHCCcEE
Confidence 45567777766665 58999999999999999996
No 7
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=73.70 E-value=3.9 Score=33.81 Aligned_cols=42 Identities=29% Similarity=0.374 Sum_probs=36.5
Q ss_pred CCCCCceeeHHHHHHHHhhcCCCCCchhHHHHHHHHhhcCccccccc
Q 036886 38 DPSKAHQTKLDVIVKALKWLEMDMDVDEVECVVALLLHKNLVKGYFA 84 (85)
Q Consensus 38 ~p~k~~~ipl~~f~~Al~~~~~~~d~DEvECilANLI~kg~iKGYis 84 (85)
.|++..++|++.+..+.+ ++.+|||-++---+..|+|||-|.
T Consensus 288 rpa~~R~lsf~~Ia~~tk-----ip~~eVE~LVMKAlslgLikG~Id 329 (380)
T KOG2908|consen 288 RPANERTLSFKEIAEATK-----IPNKEVELLVMKALSLGLIKGSID 329 (380)
T ss_pred CcchhccccHHHHHHHhC-----CCHHHHHHHHHHHHhccceeeeec
Confidence 356778899999999988 478999999999999999999763
No 8
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=68.99 E-value=17 Score=20.20 Aligned_cols=32 Identities=16% Similarity=0.220 Sum_probs=26.3
Q ss_pred CceeeHHHHHHHHhhcCCC-CCchhHHHHHHHH
Q 036886 42 AHQTKLDVIVKALKWLEMD-MDVDEVECVVALL 73 (85)
Q Consensus 42 ~~~ipl~~f~~Al~~~~~~-~d~DEvECilANL 73 (85)
...|..+.|..|++..+.+ ++.+|++-++.-+
T Consensus 2 ~G~i~~~~~~~~l~~~g~~~~s~~e~~~l~~~~ 34 (54)
T PF13833_consen 2 DGKITREEFRRALSKLGIKDLSEEEVDRLFREF 34 (54)
T ss_dssp SSEEEHHHHHHHHHHTTSSSSCHHHHHHHHHHH
T ss_pred cCEECHHHHHHHHHHhCCCCCCHHHHHHHHHhc
Confidence 4678899999999888887 8999988777643
No 9
>PF02791 DDT: DDT domain; InterPro: IPR004022 This domain is predicted to be a DNA binding domain. The DDT domain is named after (DNA binding homeobox and Different Transcription factors). It is found in foetal Alzheimer antigen and several hypothetical and uncharacterised proteins.
Probab=56.10 E-value=16 Score=21.86 Aligned_cols=31 Identities=23% Similarity=0.209 Sum_probs=27.2
Q ss_pred eHHHHHHHHhhcCCCCCchhHHHHHHHHhhc
Q 036886 46 KLDVIVKALKWLEMDMDVDEVECVVALLLHK 76 (85)
Q Consensus 46 pl~~f~~Al~~~~~~~d~DEvECilANLI~k 76 (85)
.++.|+.|+...+.+.-..|+-|.+-++|.+
T Consensus 27 tlddf~~AL~~~~~~~ll~ei~~~LL~~l~~ 57 (61)
T PF02791_consen 27 TLDDFEQALLCNDPSGLLAEIHCALLKALLA 57 (61)
T ss_pred CHHHHHHHHcCCCcchhHHHHHHHHHHHHHh
Confidence 7999999999988777889999998888765
No 10
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=52.66 E-value=8.5 Score=32.00 Aligned_cols=25 Identities=16% Similarity=0.400 Sum_probs=22.8
Q ss_pred CCCchhHHHHHHHHhhcCccccccc
Q 036886 60 DMDVDEVECVVALLLHKNLVKGYFA 84 (85)
Q Consensus 60 ~~d~DEvECilANLI~kg~iKGYis 84 (85)
.+|...+|-|.|+||.+|.+.|||.
T Consensus 328 ~i~~ekaekiaa~MI~qeRmng~ID 352 (399)
T KOG1497|consen 328 KIDAEKAEKIAAQMITQERMNGSID 352 (399)
T ss_pred CCCHHHHHHHHHHHHhHHHhccchH
Confidence 4788899999999999999999984
No 11
>PF09639 YjcQ: YjcQ protein; InterPro: IPR018597 YjcQ is a protein of approx. 100 residues containing four alpha helices and three beta strands. It is found in bacteria and also in the Lactococcus phage Tuc2009. In bacteria it appears to be under the regulation of SigD RNA polymerase which is responsible for the expression of many genes encoding cell-surface proteins related to flagellar assembly, motility, chemotaxis and autolysis in the late exponential growth phase. The exact function of YjcQ is unknown []. However, it is thought to be the major head protein in viruses [] and is found in prophage in bacteria. ; PDB: 2HGC_A.
Probab=44.94 E-value=12 Score=24.08 Aligned_cols=22 Identities=14% Similarity=0.231 Sum_probs=16.2
Q ss_pred CCchhHHHHHHHHhhcCccccc
Q 036886 61 MDVDEVECVVALLLHKNLVKGY 82 (85)
Q Consensus 61 ~d~DEvECilANLI~kg~iKGY 82 (85)
...+...=++.+|...|||+|.
T Consensus 22 ~~~~~~~~il~~L~d~GyI~G~ 43 (88)
T PF09639_consen 22 ITDSYWSDILRMLQDEGYIKGV 43 (88)
T ss_dssp S-HHHHHHHHHHHHHHTSEE--
T ss_pred hhHHHHHHHHHHHHHCCCccce
Confidence 3337777899999999999985
No 12
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=38.96 E-value=22 Score=30.42 Aligned_cols=37 Identities=19% Similarity=0.282 Sum_probs=28.4
Q ss_pred ceeeHHHHHHHHhhcCCCCCchhHHHHHHHHhhcCcccccc
Q 036886 43 HQTKLDVIVKALKWLEMDMDVDEVECVVALLLHKNLVKGYF 83 (85)
Q Consensus 43 ~~ipl~~f~~Al~~~~~~~d~DEvECilANLI~kg~iKGYi 83 (85)
.+|++..+..-|...+. +++|-|+|--|..|.|+|=|
T Consensus 376 SRISl~DIA~kL~l~Se----ed~EyiVakAIRDGvIea~I 412 (493)
T KOG2581|consen 376 SRISLQDIAKKLGLNSE----EDAEYIVAKAIRDGVIEAKI 412 (493)
T ss_pred eeccHHHHHHHhcCCCc----hhHHHHHHHHHHhccceeee
Confidence 55778888777765322 36999999999999998754
No 13
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=37.12 E-value=60 Score=19.82 Aligned_cols=35 Identities=23% Similarity=0.383 Sum_probs=28.3
Q ss_pred eeHHHHHHHHhhc--C---CCCCchhHHHHHHHHhhcCcc
Q 036886 45 TKLDVIVKALKWL--E---MDMDVDEVECVVALLLHKNLV 79 (85)
Q Consensus 45 ipl~~f~~Al~~~--~---~~~d~DEvECilANLI~kg~i 79 (85)
+|++-+..=|+.. + .+.+.+|++=++..++..|.+
T Consensus 12 l~l~RIh~mLkmf~~~~~~~~~s~~eL~~fL~~lv~e~~L 51 (60)
T PF08672_consen 12 LPLDRIHSMLKMFPKDPGGYDISLEELQEFLDRLVEEGKL 51 (60)
T ss_dssp EEHHHHHHHHHHH-GGG--TT--HHHHHHHHHHHHHTTSE
T ss_pred CCHHHHHHHHHhccCCCCCCCCCHHHHHHHHHHHHHCCcE
Confidence 8999999888876 3 348999999999999999876
No 14
>PTZ00183 centrin; Provisional
Probab=36.32 E-value=79 Score=20.33 Aligned_cols=34 Identities=15% Similarity=0.230 Sum_probs=21.6
Q ss_pred CCCCCceeeHHHHHHHHhhcCCCCCchhHHHHHH
Q 036886 38 DPSKAHQTKLDVIVKALKWLEMDMDVDEVECVVA 71 (85)
Q Consensus 38 ~p~k~~~ipl~~f~~Al~~~~~~~d~DEvECilA 71 (85)
++.+...|....|..+++..+...+.++++.+..
T Consensus 27 D~~~~G~i~~~e~~~~l~~~g~~~~~~~~~~l~~ 60 (158)
T PTZ00183 27 DTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIA 60 (158)
T ss_pred CCCCCCcccHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence 4456777888888888876654444455554443
No 15
>KOG0030 consensus Myosin essential light chain, EF-Hand protein superfamily [Cytoskeleton]
Probab=36.13 E-value=39 Score=24.88 Aligned_cols=40 Identities=15% Similarity=0.032 Sum_probs=30.6
Q ss_pred CCCceeeHHHHHHHHhhcCCCCCchhHHHHHHHHhhc-Ccc
Q 036886 40 SKAHQTKLDVIVKALKWLEMDMDVDEVECVVALLLHK-NLV 79 (85)
Q Consensus 40 ~k~~~ipl~~f~~Al~~~~~~~d~DEvECilANLI~k-g~i 79 (85)
.++..||-+.+..-|--.|.-++.+|||=++|+-... |-|
T Consensus 100 eg~G~i~~aeLRhvLttlGekl~eeEVe~Llag~eD~nG~i 140 (152)
T KOG0030|consen 100 EGNGTIMGAELRHVLTTLGEKLTEEEVEELLAGQEDSNGCI 140 (152)
T ss_pred cCCcceeHHHHHHHHHHHHhhccHHHHHHHHccccccCCcC
Confidence 4566677777777777777779999999999987776 544
No 16
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=30.71 E-value=79 Score=20.06 Aligned_cols=33 Identities=21% Similarity=0.338 Sum_probs=26.4
Q ss_pred CceeeHHHHHHHHhhcCCCCCchhHHHHHHHHhhcCcc
Q 036886 42 AHQTKLDVIVKALKWLEMDMDVDEVECVVALLLHKNLV 79 (85)
Q Consensus 42 ~~~ipl~~f~~Al~~~~~~~d~DEvECilANLI~kg~i 79 (85)
..=++++.+..-| .++.+||+=.+.-|+..|+|
T Consensus 63 ~~Gv~v~~I~~~l-----~~~~~~v~~al~~L~~eG~I 95 (102)
T PF08784_consen 63 EEGVHVDEIAQQL-----GMSENEVRKALDFLSNEGHI 95 (102)
T ss_dssp TTTEEHHHHHHHS-----TS-HHHHHHHHHHHHHTTSE
T ss_pred CCcccHHHHHHHh-----CcCHHHHHHHHHHHHhCCeE
Confidence 3448888888777 46899999999999999987
No 17
>PRK05423 hypothetical protein; Provisional
Probab=29.30 E-value=61 Score=22.53 Aligned_cols=33 Identities=12% Similarity=0.336 Sum_probs=23.9
Q ss_pred ceeeHHHHHHHHhhcCCCCCchhHHHHHHHHhh
Q 036886 43 HQTKLDVIVKALKWLEMDMDVDEVECVVALLLH 75 (85)
Q Consensus 43 ~~ipl~~f~~Al~~~~~~~d~DEvECilANLI~ 75 (85)
+|=.+..+..-..+-.++|+.+|+.+|++||-.
T Consensus 38 NqKRVlLLdNL~~YIk~~Ms~e~i~~II~nMr~ 70 (104)
T PRK05423 38 NQKRVLLLDNLSDYIKPGMSIEEIQGIIANMKS 70 (104)
T ss_pred hHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence 344444455555666788999999999999963
No 18
>PF00395 SLH: S-layer homology domain; InterPro: IPR001119 S-layers are paracrystalline mono-layered assemblies of (glyco)proteins which coat the surface of bacteria [, ]. Several S-layer proteins and some other cell wall proteins contain one or more copies of a domain of about 50-60 residues, which has been called SLH (for S-layer homology). Although it was originally proposed that SLH domains bind to peptidoglycan, it is now evident that pyruvylated secondary cell wall polymers (SCWPs), which are either teichoic acids, teichuronic acids, lipoteichoic acids or lipoglycans, serve as the anchoring structures for SLH motifs in the Gram-positive cell wall [, ]. However, the study of S-layer protein SbpA of Bacillus sphaericus revealed that SLH motifs are not sufficient for specific binding to SCWPs. Thus, the molecular basis explaining SLH affinity and specificity of interaction with cell wall polymers are not completely elucidated [].; PDB: 3PYW_A.
Probab=27.48 E-value=37 Score=18.57 Aligned_cols=14 Identities=21% Similarity=0.624 Sum_probs=8.0
Q ss_pred HHHHHhhcCccccc
Q 036886 69 VVALLLHKNLVKGY 82 (85)
Q Consensus 69 ilANLI~kg~iKGY 82 (85)
-++.|+.+|.|.||
T Consensus 15 ~i~~~~~~gi~~G~ 28 (45)
T PF00395_consen 15 AIQWLYQLGIISGY 28 (45)
T ss_dssp HHHHHHHTTSS---
T ss_pred HHHHHHHcCCcccC
Confidence 45677778888876
No 19
>cd00051 EFh EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to the activation or inactivation of target proteins. EF-hands tend to occur in pairs or higher copy numbers.
Probab=27.36 E-value=97 Score=15.78 Aligned_cols=34 Identities=21% Similarity=0.255 Sum_probs=24.6
Q ss_pred CCCCCceeeHHHHHHHHhhcCCCCCchhHHHHHH
Q 036886 38 DPSKAHQTKLDVIVKALKWLEMDMDVDEVECVVA 71 (85)
Q Consensus 38 ~p~k~~~ipl~~f~~Al~~~~~~~d~DEvECilA 71 (85)
++.++..++.+.|..+++-.+...+.+++..+..
T Consensus 10 d~~~~g~l~~~e~~~~l~~~~~~~~~~~~~~~~~ 43 (63)
T cd00051 10 DKDGDGTISADELKAALKSLGEGLSEEEIDEMIR 43 (63)
T ss_pred CCCCCCcCcHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence 3446677899999999988776666666666544
No 20
>PF06211 BAMBI: BMP and activin membrane-bound inhibitor (BAMBI) N-terminal domain; InterPro: IPR009345 This family consists of several eukaryotic BMP and activin membrane-bound inhibitor (BAMBI) proteins. Members of the transforming growth factor-beta (TGF-beta) superfamily, including TGF-beta, bone morphogenetic proteins (BMPs), activins and nodals, are vital for regulating growth and differentiation. BAMBI is related to TGF-beta-family type I receptors but lacks an intracellular kinase domain. BAMBI is co-expressed with the ventralising morphogen BMP4 during Xenopus embryogenesis and requires BMP signalling for its expression. The protein stably associates with TGF-beta-family receptors and inhibits BMP and activin as well as TGF-beta signalling [].
Probab=26.27 E-value=41 Score=23.47 Aligned_cols=17 Identities=35% Similarity=0.643 Sum_probs=15.0
Q ss_pred HHHHHHHHhhcCccccc
Q 036886 66 VECVVALLLHKNLVKGY 82 (85)
Q Consensus 66 vECilANLI~kg~iKGY 82 (85)
.-|.+|.|..+|.|+-|
T Consensus 12 elc~m~~lltkGEIRCY 28 (107)
T PF06211_consen 12 ELCAMAVLLTKGEIRCY 28 (107)
T ss_pred HHHHHHHHHhcCceEEe
Confidence 35999999999999977
No 21
>PF04363 DUF496: Protein of unknown function (DUF496); InterPro: IPR007458 Members of this family are uncharacterised proteins.
Probab=25.91 E-value=74 Score=21.79 Aligned_cols=33 Identities=9% Similarity=0.360 Sum_probs=23.4
Q ss_pred ceeeHHHHHHHHhhcCCCCCchhHHHHHHHHhh
Q 036886 43 HQTKLDVIVKALKWLEMDMDVDEVECVVALLLH 75 (85)
Q Consensus 43 ~~ipl~~f~~Al~~~~~~~d~DEvECilANLI~ 75 (85)
+|=.+..+.--..+-.++|+.+|+-+|++||-.
T Consensus 31 NqKRV~LLdNL~~YI~~~Ms~edi~~II~nMr~ 63 (95)
T PF04363_consen 31 NQKRVLLLDNLSDYIKPDMSIEDIRAIIENMRS 63 (95)
T ss_pred hHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHh
Confidence 333344455555666688999999999999953
No 22
>PF01986 DUF123: Domain of unknown function DUF123; InterPro: IPR002837 This archaebacterial domain has no known function. In Methanocaldococcus jannaschii (Methanococcus jannaschii) it occurs with an endonuclease domain IPR003265 from INTERPRO.
Probab=25.67 E-value=52 Score=22.17 Aligned_cols=21 Identities=24% Similarity=0.542 Sum_probs=16.0
Q ss_pred CchhHHHHHHHHhhcCc--cccc
Q 036886 62 DVDEVECVVALLLHKNL--VKGY 82 (85)
Q Consensus 62 d~DEvECilANLI~kg~--iKGY 82 (85)
+..+.||.+|..+.... |+|+
T Consensus 62 ~~~~~Ec~lA~~l~~~~~~i~gF 84 (99)
T PF01986_consen 62 SEKRLECELAQALSELFEPIPGF 84 (99)
T ss_pred CCCCHHHHHHHHHHhcCCcCCCC
Confidence 45678999998887754 7775
No 23
>PF14658 EF-hand_9: EF-hand domain
Probab=25.48 E-value=1.8e+02 Score=18.31 Aligned_cols=34 Identities=12% Similarity=0.205 Sum_probs=25.4
Q ss_pred CCCCCceeeHHHHHHHHhhcCC-CCCchhHHHHHH
Q 036886 38 DPSKAHQTKLDVIVKALKWLEM-DMDVDEVECVVA 71 (85)
Q Consensus 38 ~p~k~~~ipl~~f~~Al~~~~~-~~d~DEvECilA 71 (85)
++.++..||++.+..-|+-.+. .....|+|=+.+
T Consensus 8 D~~~tG~V~v~~l~~~Lra~~~~~p~e~~Lq~l~~ 42 (66)
T PF14658_consen 8 DTQKTGRVPVSDLITYLRAVTGRSPEESELQDLIN 42 (66)
T ss_pred CCcCCceEeHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence 5678999999999999998876 455556655444
No 24
>PF11829 DUF3349: Protein of unknown function (DUF3349); InterPro: IPR021784 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 99 to 124 amino acids in length. ; PDB: 2KVC_A 3OL3_B 3OL4_A 2LKY_A.
Probab=24.20 E-value=1.4e+02 Score=20.21 Aligned_cols=34 Identities=26% Similarity=0.131 Sum_probs=23.6
Q ss_pred eeHHHHHHHHhhcCCCCCchhHHHHHHHHhhcCc
Q 036886 45 TKLDVIVKALKWLEMDMDVDEVECVVALLLHKNL 78 (85)
Q Consensus 45 ipl~~f~~Al~~~~~~~d~DEvECilANLI~kg~ 78 (85)
+|=..+..=|......++.|||..+.+.|+..|.
T Consensus 20 vP~~Dy~PLlALL~r~Ltd~ev~~Va~~L~~~~~ 53 (96)
T PF11829_consen 20 VPPTDYVPLLALLRRRLTDDEVAEVAAELAARGD 53 (96)
T ss_dssp B-HHHHHHHHHHHTTTS-HHHHHHHHHHHHHHTS
T ss_pred CCCCccHHHHHHhcccCCHHHHHHHHHHHHhcCC
Confidence 5555555555555566899999999999998874
No 25
>PF05158 RNA_pol_Rpc34: RNA polymerase Rpc34 subunit; InterPro: IPR007832 The family comprises a subunit specific to RNA Pol III, the tRNA specific polymerase. The C34 subunit of Saccharomyces cerevisiae RNA Pol III is part of a subcomplex of three subunits which have no counterpart in the other two nuclear RNA polymerases. This subunit interacts with TFIIIB70 and therefore participates in Pol III recruitment [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2DK8_A 2DK5_A 2YU3_A.
Probab=23.81 E-value=26 Score=27.76 Aligned_cols=36 Identities=11% Similarity=0.296 Sum_probs=0.0
Q ss_pred eeHHHHHHHHhhcC---CCCCchhHHHHHHHHhhcCccc
Q 036886 45 TKLDVIVKALKWLE---MDMDVDEVECVVALLLHKNLVK 80 (85)
Q Consensus 45 ipl~~f~~Al~~~~---~~~d~DEvECilANLI~kg~iK 80 (85)
..++.+...++-++ .+++.+|+|.||=.|++.|.|.
T Consensus 217 ~T~~eI~~fI~~sgIs~v~Ls~eDI~~LL~tLVyDgkIE 255 (327)
T PF05158_consen 217 PTLEEIAEFINKSGISNVELSEEDIESLLDTLVYDGKIE 255 (327)
T ss_dssp ---------------------------------------
T ss_pred CCHHHHHHHHHHcCCCceecCHHHHHHHHHHHhhCceeE
Confidence 34455555554443 5689999999999999999874
No 26
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=23.77 E-value=1.1e+02 Score=20.11 Aligned_cols=36 Identities=14% Similarity=0.201 Sum_probs=27.4
Q ss_pred ceeeHHHHHHHHhhcCCCCCchhHHHHHHHHhhcCcccccc
Q 036886 43 HQTKLDVIVKALKWLEMDMDVDEVECVVALLLHKNLVKGYF 83 (85)
Q Consensus 43 ~~ipl~~f~~Al~~~~~~~d~DEvECilANLI~kg~iKGYi 83 (85)
.++|+..+..++. ++...+-=.+-+|...|.|+||-
T Consensus 21 ~r~~~~eia~~lg-----lS~~~v~~Ri~~L~~~GiI~~~~ 56 (154)
T COG1522 21 ARISNAELAERVG-----LSPSTVLRRIKRLEEEGVIKGYT 56 (154)
T ss_pred CCCCHHHHHHHHC-----CCHHHHHHHHHHHHHCCceeeEE
Confidence 3477888877776 45566666788999999999984
No 27
>KOG0031 consensus Myosin regulatory light chain, EF-Hand protein superfamily [Cytoskeleton]
Probab=22.63 E-value=1.3e+02 Score=22.61 Aligned_cols=36 Identities=14% Similarity=0.067 Sum_probs=30.2
Q ss_pred cCCCCCceeeHHHHHHHHhhcCCCCCchhHHHHHHH
Q 036886 37 KDPSKAHQTKLDVIVKALKWLEMDMDVDEVECVVAL 72 (85)
Q Consensus 37 ~~p~k~~~ipl~~f~~Al~~~~~~~d~DEvECilAN 72 (85)
.+|.+...||-+.+...|.-++..++.+||+-+.+-
T Consensus 110 FD~~~~G~I~~d~lre~Ltt~gDr~~~eEV~~m~r~ 145 (171)
T KOG0031|consen 110 FDDEGSGKIDEDYLRELLTTMGDRFTDEEVDEMYRE 145 (171)
T ss_pred cCccCCCccCHHHHHHHHHHhcccCCHHHHHHHHHh
Confidence 356677889999999999998888999999887764
No 28
>cd08816 CARD_RIG-I_1 Caspase activation and recruitment domain found in RIG-I, first repeat. Caspase activation and recruitment domain (CARD) found in RIG-I (Retinoic acid Inducible Gene I, also known as Ddx58), first repeat. RIG-I is a cytoplasmic RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. RIG-I contains two N-terminal CARD domains and a C-terminal RNA helicase. 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 recognizes different sets of viruses compared to MDA5, a related RNA helicase. RIG-I 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 protein-protein interaction doma
Probab=21.22 E-value=62 Score=21.96 Aligned_cols=11 Identities=27% Similarity=0.598 Sum_probs=10.1
Q ss_pred CCchhHHHHHH
Q 036886 61 MDVDEVECVVA 71 (85)
Q Consensus 61 ~d~DEvECilA 71 (85)
.+.||||+|+|
T Consensus 32 ~~~e~v~~I~a 42 (89)
T cd08816 32 LEDEEVERILS 42 (89)
T ss_pred cCHHHHHHHHH
Confidence 78899999999
No 29
>PHA01632 hypothetical protein
Probab=20.97 E-value=49 Score=21.08 Aligned_cols=12 Identities=17% Similarity=0.146 Sum_probs=10.0
Q ss_pred HHHHhhcCcccc
Q 036886 70 VALLLHKNLVKG 81 (85)
Q Consensus 70 lANLI~kg~iKG 81 (85)
-||||.+|.+|=
T Consensus 44 yanmie~gk~ki 55 (64)
T PHA01632 44 YANMIENGKIKI 55 (64)
T ss_pred HHHHHhcCceEE
Confidence 489999999873
Done!