Query psy358
Match_columns 176
No_of_seqs 85 out of 102
Neff 3.4
Searched_HMMs 46136
Date Fri Aug 16 20:14:48 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy358.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/358hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4154|consensus 100.0 2.3E-75 5E-80 472.9 11.0 165 11-176 13-178 (178)
2 PF10208 Armet: Degradation ar 100.0 3.7E-75 8E-80 470.3 2.0 147 30-176 1-154 (154)
3 PF02037 SAP: SAP domain; Int 96.9 0.0016 3.6E-08 40.7 3.9 34 132-167 1-34 (35)
4 PF12949 HeH: HeH/LEM domain; 96.7 0.0013 2.7E-08 42.2 2.5 35 132-166 1-35 (35)
5 smart00513 SAP Putative DNA-bi 96.7 0.0028 6.1E-08 39.3 4.0 34 132-167 1-34 (35)
6 smart00741 SapB Saposin (B) Do 95.0 0.012 2.6E-07 38.8 1.3 73 30-110 2-74 (76)
7 PF05184 SapB_1: Saposin-like 90.2 0.25 5.5E-06 30.2 2.1 35 30-66 3-37 (39)
8 TIGR00578 ku70 ATP-dependent D 87.6 0.56 1.2E-05 44.9 3.5 39 127-167 544-582 (584)
9 PRK14537 50S ribosomal protein 81.2 1.5 3.2E-05 38.6 3.0 55 112-167 172-226 (230)
10 KOG4275|consensus 79.8 1.9 4.2E-05 39.6 3.4 38 130-167 247-284 (350)
11 PF07498 Rho_N: Rho terminatio 71.9 4.1 8.8E-05 26.4 2.4 38 131-168 1-38 (43)
12 KOG4246|consensus 53.3 9 0.0002 39.8 2.1 40 124-165 638-677 (1194)
13 KOG4052|consensus 52.0 16 0.00035 31.3 3.1 45 2-46 2-51 (190)
14 PF10281 Ish1: Putative stress 41.6 64 0.0014 20.0 4.0 34 134-167 3-37 (38)
15 KOG1340|consensus 39.3 35 0.00075 29.6 3.3 44 27-71 126-169 (218)
16 PF03589 Antiterm: Antitermina 37.9 18 0.00039 27.3 1.2 25 89-113 18-42 (95)
17 cd00051 EFh EF-hand, calcium b 35.2 39 0.00084 19.8 2.2 29 140-168 2-30 (63)
18 PF08194 DIM: DIM protein; In 35.0 24 0.00053 23.0 1.3 12 23-34 24-35 (36)
19 PF00036 EF-hand_1: EF hand; 31.3 79 0.0017 18.7 3.1 29 139-167 1-29 (29)
20 KOG1340|consensus 29.5 1E+02 0.0022 26.8 4.5 69 27-110 35-108 (218)
21 PF08766 DEK_C: DEK C terminal 28.1 80 0.0017 20.9 3.0 35 127-164 13-48 (54)
22 KOG4260|consensus 25.6 1.2E+02 0.0025 28.3 4.4 24 24-47 23-46 (350)
23 cd08324 CARD_NOD1_CARD4 Caspas 22.5 75 0.0016 24.3 2.2 33 134-171 45-77 (85)
24 cd01216 Fe65 Fe65 Phosphotyros 22.2 35 0.00077 26.5 0.4 53 61-124 70-122 (123)
25 PF13297 Telomere_Sde2_2: Telo 22.1 46 0.001 23.9 1.0 27 130-156 10-36 (60)
26 PF12588 PSDC: Phophatidylseri 21.5 44 0.00095 27.1 0.9 12 138-149 100-111 (141)
No 1
>KOG4154|consensus
Probab=100.00 E-value=2.3e-75 Score=472.88 Aligned_cols=165 Identities=59% Similarity=1.053 Sum_probs=158.5
Q ss_pred HHHHHHhhhhccccccCCCCCcchHHHHHHHHHhcch-hhhcCHHHHHHHHHHHhhhccCCCCcceeeecCcchhhhhhh
Q psy358 11 MILVLNGLKNAVNCAVTKENCEVCVTVVEKFADRLTP-EAKADTKEIEKAFKKWCKGTKGKENRFCYYLGGLEESATGIL 89 (176)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~dCEVCv~~l~~f~~sl~~-~~~~~~~~ie~~l~~~C~~~kgKEnr~CYYiGa~~dsAt~il 89 (176)
.+-+++..+++| .|++++||||||+.|+||+++|.+ +++|++.+||.+|++||+.++||||||||||||++||||+|+
T Consensus 13 ~~~la~s~lpgs-ralk~~dcevci~~l~rf~~~l~d~d~~~~~~~ie~~~~kfck~~k~ke~r~cyyig~~ddaat~ii 91 (178)
T KOG4154|consen 13 AARLALSSLPGS-RALKEEDCEVCIKTLGRFADDLDDRDTKFDPAQIENAFIKFCKAAKGKEHRFCYYIGALDDAATGII 91 (178)
T ss_pred HHHHHHHhCCcc-ccCCcccchHHHHHHHHHHHhhccccccCCHHHHHHHHHHHHHHhcCCcceeeeeeccchHHHHHHH
Confidence 444566677777 999999999999999999999999 899999999999999999999999999999999999999999
Q ss_pred hhccccccCCCChHHHhHHhcccCcccccccccccccccccccCcccHHHHHHHhhhcccCCCcchhhhHHHHHHHHhCc
Q psy358 90 GELSKPLSWGMPATKICEKLKKSDSQICDLRYDKQIDFKTVDLKKLKVRDLKKILNDWEEECDGCLEKGDFIKRIEELKP 169 (176)
Q Consensus 90 ~evskPlS~~mP~~KICekLkkkD~QICelkYdk~iD~~~~Dl~KmrVkeLKkIL~d~g~~C~gC~EK~DfV~ri~el~~ 169 (176)
||||+||+||||++||||||||+|+|||+||||||||+++|||+||||++||+||+||||.|+||+||+|||++|+||+|
T Consensus 92 nelskpla~~ip~ekiceklkkkdaqicdlkydkqidlnsvdlkklkvkdlkkilddw~esc~gc~ek~d~ikki~el~p 171 (178)
T KOG4154|consen 92 NELSKPLAHHIPAEKICEKLKKKDAQICDLKYDKQIDLNSVDLKKLKVKDLKKILDDWDESCDGCAEKGDFIKKIEELKP 171 (178)
T ss_pred HHhcchhhccCcHHHHHHHHHhchhhhhcchhhhhcCcchhhHHHHhHHHHHHHHhhhhhhcccHhhhhhHHHHHHHhCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhccC
Q psy358 170 KYVREEL 176 (176)
Q Consensus 170 k~~~~el 176 (176)
||++.++
T Consensus 172 kya~~~~ 178 (178)
T KOG4154|consen 172 KYAPKAA 178 (178)
T ss_pred ccCcccC
Confidence 9987764
No 2
>PF10208 Armet: Degradation arginine-rich protein for mis-folding; InterPro: IPR019345 This entry represents Armet proteins (aka mesencephalic astrocyte-derived neurotrophic factor or arginine-rich protein). Armet is a small protein of approximately 170 residues which contains four di-sulphide bridges that are highly conserved from nematodes to humans. Armet is a soluble protein resident in the endoplasmic reticulum and induced by ER stress. It appears to be involved with dealing with mis-folded proteins in the ER, thus in quality control of ER stress []. Armet from Rattus norvegicus (Rat) selectively promotes the survival of dopaminergic neurons of the ventral mid-brain. It modulates GABAergic transmission to the dopaminergic neurons of the substantia nigra, and enhances spontaneous, as well as evoked, GABAergic inhibitory postsynaptic currents in dopaminergic neurons [].; PDB: 2KVE_A 2KVD_A 2W51_A 2W50_B 2RQY_A.
Probab=100.00 E-value=3.7e-75 Score=470.31 Aligned_cols=147 Identities=67% Similarity=1.214 Sum_probs=134.1
Q ss_pred CCcchHHHHHHHHHhcch-hhhcCHHHHHHHHHHHhhhccCCCCcceeeecCcchhhhhhhhhccccccCCCChHHHhHH
Q psy358 30 NCEVCVTVVEKFADRLTP-EAKADTKEIEKAFKKWCKGTKGKENRFCYYLGGLEESATGILGELSKPLSWGMPATKICEK 108 (176)
Q Consensus 30 dCEVCv~~l~~f~~sl~~-~~~~~~~~ie~~l~~~C~~~kgKEnr~CYYiGa~~dsAt~il~evskPlS~~mP~~KICek 108 (176)
+|||||+||++|++||.+ +++++++.||++|++||++++||||||||||||++||||+|++|||+|||||||++|||||
T Consensus 1 ~CEVCv~~l~~f~~sl~~~~~~~~~~~ie~~l~~~C~~~k~kenr~CYyig~~~dsat~il~evs~Pls~~mP~~KICek 80 (154)
T PF10208_consen 1 ECEVCVKFLDRFYASLKDKDVKFDPDKIEKELRKFCKKAKGKENRFCYYIGATEDSATGILNEVSKPLSWHMPVEKICEK 80 (154)
T ss_dssp STHHHHCCHHHHHHHHHHTTS-SSCCHHHHHHHHHHCTS-CHHHHHHHHTT-STTTSHCCCHHHHHHHCTTSSCCCHHHH
T ss_pred CCcchHHHHHHHHHHhhcccccCCHHHHHHHHHHHHHhccCcccceEeeecccchHHHHHHHhhccccccCCCHHHHHHH
Confidence 699999999999999966 8889999999999999999999999999999999999999999999999999999999999
Q ss_pred hcccCcccccccccccccccccccCcccHHHHHHHhhhcccCCCcchhhhHHHHHHHHhCccch------hccC
Q psy358 109 LKKSDSQICDLRYDKQIDFKTVDLKKLKVRDLKKILNDWEEECDGCLEKGDFIKRIEELKPKYV------REEL 176 (176)
Q Consensus 109 LkkkD~QICelkYdk~iD~~~~Dl~KmrVkeLKkIL~d~g~~C~gC~EK~DfV~ri~el~~k~~------~~el 176 (176)
|+++|||||+|||+++|||+++||+||||+|||+||++||++|+||+||+|||+||+|++|||+ |+||
T Consensus 81 LkkkDsqICelkY~k~idl~~~Dl~KlrVk~LK~iL~~~g~~C~GC~EK~dfv~ri~el~~k~~~~~~~~~~~~ 154 (154)
T PF10208_consen 81 LKKKDSQICELKYDKKIDLSTVDLKKLRVKQLKKILDDWGEDCKGCLEKSDFVRRIEELKPKYVPSEARARTEL 154 (154)
T ss_dssp HHCT-CCCTTTTTT-S-SCCCTSTTTTCHHHHHHHHHHHTTT-SS-CSHHHHHHHCHCCCCCCTCHCCTSSS--
T ss_pred HhcccchhcccccccccchhhhHHhhCcHHHHHHHHHHcCCCCCCccchHHHHHHHHHHhhhccchhcccccCC
Confidence 9999999999999999999999999999999999999999999999999999999999999994 6665
No 3
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=96.90 E-value=0.0016 Score=40.71 Aligned_cols=34 Identities=35% Similarity=0.520 Sum_probs=30.7
Q ss_pred cCcccHHHHHHHhhhcccCCCcchhhhHHHHHHHHh
Q psy358 132 LKKLKVRDLKKILNDWEEECDGCLEKGDFIKRIEEL 167 (176)
Q Consensus 132 l~KmrVkeLKkIL~d~g~~C~gC~EK~DfV~ri~el 167 (176)
|++|+|.|||++|..+|.+..|= |++.|.||.+.
T Consensus 1 l~~l~v~eLk~~l~~~gL~~~G~--K~~Li~Rl~~~ 34 (35)
T PF02037_consen 1 LSKLTVAELKEELKERGLSTSGK--KAELIERLKEH 34 (35)
T ss_dssp TTTSHHHHHHHHHHHTTS-STSS--HHHHHHHHHHH
T ss_pred CCcCcHHHHHHHHHHCCCCCCCC--HHHHHHHHHHh
Confidence 57999999999999999999996 99999999874
No 4
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=96.74 E-value=0.0013 Score=42.22 Aligned_cols=35 Identities=26% Similarity=0.387 Sum_probs=23.8
Q ss_pred cCcccHHHHHHHhhhcccCCCcchhhhHHHHHHHH
Q psy358 132 LKKLKVRDLKKILNDWEEECDGCLEKGDFIKRIEE 166 (176)
Q Consensus 132 l~KmrVkeLKkIL~d~g~~C~gC~EK~DfV~ri~e 166 (176)
+++|+|.|||.||.++|.+-..=+-|+|.|+.+++
T Consensus 1 p~sltV~~Lk~iL~~~~I~~ps~AkKaeLv~L~~~ 35 (35)
T PF12949_consen 1 PKSLTVAQLKRILDEHGIEFPSNAKKAELVALFNQ 35 (35)
T ss_dssp STT--SHHHHHHHHHHT---SSS--SHHHHHH---
T ss_pred CCcCcHHHHHHHHHHcCCCCCCCCCHHHHHHHHcC
Confidence 57899999999999999999999999999998764
No 5
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=96.73 E-value=0.0028 Score=39.27 Aligned_cols=34 Identities=35% Similarity=0.499 Sum_probs=31.4
Q ss_pred cCcccHHHHHHHhhhcccCCCcchhhhHHHHHHHHh
Q psy358 132 LKKLKVRDLKKILNDWEEECDGCLEKGDFIKRIEEL 167 (176)
Q Consensus 132 l~KmrVkeLKkIL~d~g~~C~gC~EK~DfV~ri~el 167 (176)
+++|+|.|||++|.+.|.+..| .|+|-|+||.+.
T Consensus 1 ~~~l~~~~Lk~~l~~~gl~~~G--~K~~Lv~Rl~~~ 34 (35)
T smart00513 1 LAKLKVSELKDELKKRGLSTSG--TKAELVDRLLEA 34 (35)
T ss_pred CCcCcHHHHHHHHHHcCCCCCC--CHHHHHHHHHHh
Confidence 4789999999999999999999 799999999875
No 6
>smart00741 SapB Saposin (B) Domains. Present in multiple copies in prosaposin and in pulmonary surfactant-associated protein B. In plant aspartic proteinases, a saposin domain is circularly permuted. This causes the prediction algorithm to predict two such domains, where only one is truly present.
Probab=95.03 E-value=0.012 Score=38.80 Aligned_cols=73 Identities=27% Similarity=0.461 Sum_probs=54.9
Q ss_pred CCcchHHHHHHHHHhcchhhhcCHHHHHHHHHHHhhhccCCCCcceeeecCcchhhhhhhhhccccccCCCChHHHhHHh
Q psy358 30 NCEVCVTVVEKFADRLTPEAKADTKEIEKAFKKWCKGTKGKENRFCYYLGGLEESATGILGELSKPLSWGMPATKICEKL 109 (176)
Q Consensus 30 dCEVCv~~l~~f~~sl~~~~~~~~~~ie~~l~~~C~~~kgKEnr~CYYiGa~~dsAt~il~evskPlS~~mP~~KICekL 109 (176)
.|+.|..+++.+.+.+.++ .+.+.|.+.+.+.|......-...|..+- . ....++-+=+.-+++++.||..|
T Consensus 2 ~C~~C~~~v~~~~~~~~~~--~~~~~i~~~~~~~C~~~~~~~~~~C~~~v--~----~~~~~ii~~i~~~~~p~~iC~~l 73 (76)
T smart00741 2 LCELCEDVVKQLENLLKDN--KTEEEIKKALEKVCKKLPKSLSDQCKEFV--D----QYGPEIIDLLEQGLDPKDVCQKL 73 (76)
T ss_pred cChHHHHHHHHHHHHHHhc--hHHHHHHHHHHHHHHHcCHHHHHHHHHHH--H----HHHHHHHHHHHhCCCHHHHHHHc
Confidence 6999999999999888763 23679999999999988866788898553 2 22334444455566799999987
Q ss_pred c
Q psy358 110 K 110 (176)
Q Consensus 110 k 110 (176)
+
T Consensus 74 ~ 74 (76)
T smart00741 74 G 74 (76)
T ss_pred C
Confidence 4
No 7
>PF05184 SapB_1: Saposin-like type B, region 1; InterPro: IPR007856 Synonym(s):cerebroside sulphate activator, CSAct Saposin B is a small non-enzymatic glycoprotein required for the breakdown of cerebroside sulphates (sulphatides) in lysosomes. Saposin B contains three intramolecular disulphide bridges, exists as a dimer and is remarkably heat, protease, and pH stable. The crystal structure of human saposin B reveals an unusual shell-like dimer consisting of a monolayer of alpha-helices enclosing a large hydrophobic cavity. Although the secondary structure of saposin B is similar to that of the known monomeric members of the saposin-like superfamily, the helices are repacked into a different tertiary arrangement to form the homodimer. A comparison of the two forms of the saposin B dimer suggests that extraction of target lipids from membranes involves a conformational change that facilitates access to the inner cavity [].; GO: 0006629 lipid metabolic process; PDB: 1N69_C 1QDM_C 4DDJ_A 2DOB_A 1OF9_A 2Z9A_A 1M12_A 2GTG_A 1SN6_A 2QYP_B ....
Probab=90.16 E-value=0.25 Score=30.19 Aligned_cols=35 Identities=31% Similarity=0.642 Sum_probs=30.4
Q ss_pred CCcchHHHHHHHHHhcchhhhcCHHHHHHHHHHHhhh
Q psy358 30 NCEVCVTVVEKFADRLTPEAKADTKEIEKAFKKWCKG 66 (176)
Q Consensus 30 dCEVCv~~l~~f~~sl~~~~~~~~~~ie~~l~~~C~~ 66 (176)
.|++|..+++.+.+.|.+ ..+.+.|.+++.+.|..
T Consensus 3 ~C~~C~~~v~~i~~~l~~--~~t~~~I~~~l~~~C~~ 37 (39)
T PF05184_consen 3 ECDICKFVVKEIEKLLKN--NKTEEEIKKALEKACNK 37 (39)
T ss_dssp HHHHHHHHHHHHHHHHHS--TCHHHHHHHHHHHHHTT
T ss_pred cchHHHHHHHHHHHHHHc--CccHHHHHHHHHHHHhh
Confidence 599999999999999864 45688999999999974
No 8
>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70). Proteins in this family are involved in non-homologous end joining, a process used for the repair of double stranded DNA breaks. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Cutoff does not detect the putative ku70 homologs in yeast.
Probab=87.60 E-value=0.56 Score=44.86 Aligned_cols=39 Identities=21% Similarity=0.256 Sum_probs=35.2
Q ss_pred ccccccCcccHHHHHHHhhhcccCCCcchhhhHHHHHHHHh
Q psy358 127 FKTVDLKKLKVRDLKKILNDWEEECDGCLEKGDFIKRIEEL 167 (176)
Q Consensus 127 ~~~~Dl~KmrVkeLKkIL~d~g~~C~gC~EK~DfV~ri~el 167 (176)
|++=.|.||.|.|||.+|..+|+.+-| -|.|-|.||+++
T Consensus 544 ~~~~~l~kltv~~Lk~~l~~~g~~~~~--kKadLi~~i~~~ 582 (584)
T TIGR00578 544 AKKGTLGKLTVSVLKDFCRAYGLRSGS--KKQELLDALTKH 582 (584)
T ss_pred HHcCChhhccHHHHHHHHHHcCCCccc--cHHHHHHHHHHH
Confidence 456789999999999999999999777 799999999986
No 9
>PRK14537 50S ribosomal protein L20/unknown domain fusion protein; Provisional
Probab=81.16 E-value=1.5 Score=38.56 Aligned_cols=55 Identities=24% Similarity=0.403 Sum_probs=45.0
Q ss_pred cCcccccccccccccccccccCcccHHHHHHHhhhcccCCCcchhhhHHHHHHHHh
Q psy358 112 SDSQICDLRYDKQIDFKTVDLKKLKVRDLKKILNDWEEECDGCLEKGDFIKRIEEL 167 (176)
Q Consensus 112 kD~QICelkYdk~iD~~~~Dl~KmrVkeLKkIL~d~g~~C~gC~EK~DfV~ri~el 167 (176)
..||+-.++ +++-+++..||++|.|.|||++-..+..+=-.=.-|+|.|..++..
T Consensus 172 ~~~~~~~~~-~~~~~~~~~~l~~m~~~elk~lak~~~i~~~~~~kk~e~i~al~~~ 226 (230)
T PRK14537 172 TQPQKTQLK-EKKPSIEHIDLSKMLLKELKKLAKEHKIPNFNKLKKTEIIKALKKA 226 (230)
T ss_pred cCcHHHHHH-hhCCCcccccHHHhhHHHHHHHHHHhCCcchhhhhHHHHHHHHHHH
Confidence 345665544 5556777899999999999999999999988889999999988764
No 10
>KOG4275|consensus
Probab=79.84 E-value=1.9 Score=39.64 Aligned_cols=38 Identities=39% Similarity=0.547 Sum_probs=35.3
Q ss_pred cccCcccHHHHHHHhhhcccCCCcchhhhHHHHHHHHh
Q psy358 130 VDLKKLKVRDLKKILNDWEEECDGCLEKGDFIKRIEEL 167 (176)
Q Consensus 130 ~Dl~KmrVkeLKkIL~d~g~~C~gC~EK~DfV~ri~el 167 (176)
.|...|.|++||.||++.+..=+||-||-+.+.+..++
T Consensus 247 ~d~Eg~~v~qLke~l~~d~vsy~gCcek~el~d~vtrl 284 (350)
T KOG4275|consen 247 LDEEGLTVRQLKEILDDDFVSYKGCCEKYELDDRVTRL 284 (350)
T ss_pred cccccchHHHhhhhhhccCCcccchhHHHHHHHHHHHH
Confidence 68889999999999999999999999999999988765
No 11
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=71.93 E-value=4.1 Score=26.39 Aligned_cols=38 Identities=21% Similarity=0.322 Sum_probs=31.1
Q ss_pred ccCcccHHHHHHHhhhcccCCCcchhhhHHHHHHHHhC
Q psy358 131 DLKKLKVRDLKKILNDWEEECDGCLEKGDFIKRIEELK 168 (176)
Q Consensus 131 Dl~KmrVkeLKkIL~d~g~~C~gC~EK~DfV~ri~el~ 168 (176)
||++|.+.||++|=.+.|.+=.+=.-|.|-|..|.+..
T Consensus 1 eL~~~~~~eL~~iAk~lgI~~~~~~~K~eLI~~Il~~q 38 (43)
T PF07498_consen 1 ELKSMTLSELREIAKELGIEGYSKMRKQELIFAILKAQ 38 (43)
T ss_dssp HHHCS-HHHHHHHHHCTT-TTGCCS-HHHHHHHHHHHH
T ss_pred CcccCCHHHHHHHHHHcCCCCCCcCCHHHHHHHHHHHH
Confidence 67899999999999999999888889999999887654
No 12
>KOG4246|consensus
Probab=53.32 E-value=9 Score=39.82 Aligned_cols=40 Identities=28% Similarity=0.353 Sum_probs=36.9
Q ss_pred cccccccccCcccHHHHHHHhhhcccCCCcchhhhHHHHHHH
Q psy358 124 QIDFKTVDLKKLKVRDLKKILNDWEEECDGCLEKGDFIKRIE 165 (176)
Q Consensus 124 ~iD~~~~Dl~KmrVkeLKkIL~d~g~~C~gC~EK~DfV~ri~ 165 (176)
+..|++.|.+-|+|-+|+.-|+-++..-+| +|++.|.|+.
T Consensus 638 PT~wSkldpK~mKv~~lR~elegral~~KG--~Ks~l~~rl~ 677 (1194)
T KOG4246|consen 638 PTTWSKLDPKIMKVVVLRPELEGRALGMKG--EKSDLPERLA 677 (1194)
T ss_pred CCcccccCchhhhhhhhhhhhccccccccc--chhhHHHHhh
Confidence 467888999999999999999999999998 9999999875
No 13
>KOG4052|consensus
Probab=52.03 E-value=16 Score=31.28 Aligned_cols=45 Identities=27% Similarity=0.510 Sum_probs=26.9
Q ss_pred CCCCchHHHHHHHHHhhhhcccc-----ccCCCCCcchHHHHHHHHHhcc
Q psy358 2 KLSSLPLCCMILVLNGLKNAVNC-----AVTKENCEVCVTVVEKFADRLT 46 (176)
Q Consensus 2 ~~~~lpl~~~~~~~~~~~~~~~~-----~~~~~dCEVCv~~l~~f~~sl~ 46 (176)
-+--||.++++++++...+.+.. ..-++.||||.=+-..|.+.+.
T Consensus 2 ll~rLp~lllL~l~~~lag~~~~~eE~~vrlpsKCEvCkllatEleA~l~ 51 (190)
T KOG4052|consen 2 LLLRLPKLLLLILLYLLAGAAKCNEETTVRLPSKCEVCKLLATELEAKLE 51 (190)
T ss_pred CcchhhHHHHHHHHHHhccccccCccccccccchhHHHHHHHHHHHHHHh
Confidence 34446666655554444443311 1224469999988888888774
No 14
>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=41.62 E-value=64 Score=20.05 Aligned_cols=34 Identities=15% Similarity=0.139 Sum_probs=27.3
Q ss_pred cccHHHHHHHhhhcccCCCcch-hhhHHHHHHHHh
Q psy358 134 KLKVRDLKKILNDWEEECDGCL-EKGDFIKRIEEL 167 (176)
Q Consensus 134 KmrVkeLKkIL~d~g~~C~gC~-EK~DfV~ri~el 167 (176)
.-.-.|||..|.++|..=..=. -+++.++.+++.
T Consensus 3 tWs~~~L~~wL~~~gi~~~~~~~~rd~Ll~~~k~~ 37 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIPVPKSAKTRDELLKLAKKN 37 (38)
T ss_pred CCCHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHh
Confidence 4456899999999999887766 788888887763
No 15
>KOG1340|consensus
Probab=39.30 E-value=35 Score=29.61 Aligned_cols=44 Identities=23% Similarity=0.374 Sum_probs=35.1
Q ss_pred CCCCCcchHHHHHHHHHhcchhhhcCHHHHHHHHHHHhhhccCCC
Q psy358 27 TKENCEVCVTVVEKFADRLTPEAKADTKEIEKAFKKWCKGTKGKE 71 (176)
Q Consensus 27 ~~~dCEVCv~~l~~f~~sl~~~~~~~~~~ie~~l~~~C~~~kgKE 71 (176)
++++|++|...+....-.|.+ .......|-....+.|+.....+
T Consensus 126 ~~~~C~~C~~~V~~~~~~l~d-~~~~k~~~~~~~~~~ck~l~~~~ 169 (218)
T KOG1340|consen 126 AAGECELCRETVTEADTKLQD-KPKTKGKIVSLLLKSCKSLPNYE 169 (218)
T ss_pred cccccHHHHHHHHHHHHhccc-chhHHHHHHHHHHhhccCCccch
Confidence 389999999999999877777 55567788888899997665443
No 16
>PF03589 Antiterm: Antitermination protein; InterPro: IPR003222 This entry consists of antitermination proteins found in bacteriophages, such as protein Q from phage lambda, and some bacterial homologues. Protein Q positively regulates expression of the phage late gene operon by binding to the bacterial host RNA polymerase (RNAP) and modifying it. The modified RNAP transcribes through termination sites that otherwise prevent expression of the regulated genes [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=37.94 E-value=18 Score=27.32 Aligned_cols=25 Identities=24% Similarity=0.393 Sum_probs=19.2
Q ss_pred hhhccccccCCCChHHHhHHhcccC
Q psy358 89 LGELSKPLSWGMPATKICEKLKKSD 113 (176)
Q Consensus 89 l~evskPlS~~mP~~KICekLkkkD 113 (176)
++...--..+|||+-|+|+|+.+..
T Consensus 18 l~~~~s~~~~G~pvfk~c~rcgg~G 42 (95)
T PF03589_consen 18 LDMKQSKAQFGVPVFKDCERCGGRG 42 (95)
T ss_pred ccHHHhHhccCCchhhhhhhhcCCC
Confidence 3444445668999999999999874
No 17
>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=35.20 E-value=39 Score=19.85 Aligned_cols=29 Identities=14% Similarity=0.413 Sum_probs=18.4
Q ss_pred HHHHhhhcccCCCcchhhhHHHHHHHHhC
Q psy358 140 LKKILNDWEEECDGCLEKGDFIKRIEELK 168 (176)
Q Consensus 140 LKkIL~d~g~~C~gC~EK~DfV~ri~el~ 168 (176)
++.+....+..+.|.+..+||...++.+.
T Consensus 2 ~~~~f~~~d~~~~g~l~~~e~~~~l~~~~ 30 (63)
T cd00051 2 LREAFRLFDKDGDGTISADELKAALKSLG 30 (63)
T ss_pred HHHHHHHhCCCCCCcCcHHHHHHHHHHhC
Confidence 44555555666677777777776666553
No 18
>PF08194 DIM: DIM protein; InterPro: IPR013172 Drosophila immune-induced molecules (DIMs) are short proteins induced during the immune response of Drosophila []. This entry includes DIMs 1 to 4 and DIM23.
Probab=35.04 E-value=24 Score=22.99 Aligned_cols=12 Identities=17% Similarity=0.540 Sum_probs=8.4
Q ss_pred ccccCCCCCcch
Q psy358 23 NCAVTKENCEVC 34 (176)
Q Consensus 23 ~~~~~~~dCEVC 34 (176)
+.+.-.|+|-.|
T Consensus 24 G~ViING~C~dC 35 (36)
T PF08194_consen 24 GNVIINGKCIDC 35 (36)
T ss_pred CeEEECceeeeC
Confidence 455666788887
No 19
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=31.32 E-value=79 Score=18.69 Aligned_cols=29 Identities=21% Similarity=0.569 Sum_probs=24.7
Q ss_pred HHHHHhhhcccCCCcchhhhHHHHHHHHh
Q psy358 139 DLKKILNDWEEECDGCLEKGDFIKRIEEL 167 (176)
Q Consensus 139 eLKkIL~d~g~~C~gC~EK~DfV~ri~el 167 (176)
|++++.+..+..-.|.+...+|+..++.|
T Consensus 1 E~~~~F~~~D~d~dG~I~~~Ef~~~~~~L 29 (29)
T PF00036_consen 1 ELKEAFREFDKDGDGKIDFEEFKEMMKKL 29 (29)
T ss_dssp HHHHHHHHHSTTSSSEEEHHHHHHHHHHT
T ss_pred CHHHHHHHHCCCCCCcCCHHHHHHHHHhC
Confidence 67888888888999999999999888764
No 20
>KOG1340|consensus
Probab=29.50 E-value=1e+02 Score=26.82 Aligned_cols=69 Identities=30% Similarity=0.573 Sum_probs=47.1
Q ss_pred CCCCCcchHHHHHHHHHhcchhhhcCHHHHHHHHHHHhhhcc-CC--C-Ccce-eeecCcchhhhhhhhhccccccCCCC
Q psy358 27 TKENCEVCVTVVEKFADRLTPEAKADTKEIEKAFKKWCKGTK-GK--E-NRFC-YYLGGLEESATGILGELSKPLSWGMP 101 (176)
Q Consensus 27 ~~~dCEVCv~~l~~f~~sl~~~~~~~~~~ie~~l~~~C~~~k-gK--E-nr~C-YYiGa~~dsAt~il~evskPlS~~mP 101 (176)
....|+.|-.++.+....+.++ ...|.+.|..+|+... ++ + +.|= +|+. .|+.+ +.-++-
T Consensus 35 ~~~~C~lCe~~v~~i~~~~~~~----~~~i~~~l~~~Ckkl~~~~~~~C~~fv~~y~~-------~ii~~----l~~~~~ 99 (218)
T KOG1340|consen 35 SAEVCELCELVVKRIQEYLDKN----QNELKEDLHAECKKLPKAIPFECLSFVDSYLD-------PIIKE----LESGTA 99 (218)
T ss_pred ccchhHHHHHHHHHHHHhhccc----HHHHHHHHHHHHHHhcccchHHHHHHHHHhhh-------HHHHH----HHhccC
Confidence 4778999999999999887664 6789999999999764 22 1 1111 1221 13333 344577
Q ss_pred hHHHhHHhc
Q psy358 102 ATKICEKLK 110 (176)
Q Consensus 102 ~~KICekLk 110 (176)
++.||.++.
T Consensus 100 P~~vC~~l~ 108 (218)
T KOG1340|consen 100 PEDVCKKLN 108 (218)
T ss_pred HHHHHHHhc
Confidence 899999885
No 21
>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=28.05 E-value=80 Score=20.92 Aligned_cols=35 Identities=17% Similarity=0.442 Sum_probs=22.8
Q ss_pred ccccccCcccHHHHHHHhhhc-ccCCCcchhhhHHHHHH
Q psy358 127 FKTVDLKKLKVRDLKKILNDW-EEECDGCLEKGDFIKRI 164 (176)
Q Consensus 127 ~~~~Dl~KmrVkeLKkIL~d~-g~~C~gC~EK~DfV~ri 164 (176)
+.+.||..+..|++++-|+++ |.+=. ++-+||+.+
T Consensus 13 L~~~dl~~vT~k~vr~~Le~~~~~dL~---~~K~~I~~~ 48 (54)
T PF08766_consen 13 LREADLDTVTKKQVREQLEERFGVDLS---SRKKFIKEL 48 (54)
T ss_dssp HTTS-GGG--HHHHHHHHHHH-SS--S---HHHHHHHHH
T ss_pred HHhCCHhHhhHHHHHHHHHHHHCCCcH---HHHHHHHHH
Confidence 457899999999999999988 43322 777777654
No 22
>KOG4260|consensus
Probab=25.56 E-value=1.2e+02 Score=28.30 Aligned_cols=24 Identities=25% Similarity=0.599 Sum_probs=20.4
Q ss_pred cccCCCCCcchHHHHHHHHHhcch
Q psy358 24 CAVTKENCEVCVTVVEKFADRLTP 47 (176)
Q Consensus 24 ~~~~~~dCEVCv~~l~~f~~sl~~ 47 (176)
.+.++..|--|...++.|.+-|..
T Consensus 23 ~~~kp~pCrtC~~LVssFn~Gler 46 (350)
T KOG4260|consen 23 VTIKPEPCRTCRGLVSSFNEGLER 46 (350)
T ss_pred CCCCCCCchHHHHHHHHHHHHHHH
Confidence 344678999999999999998876
No 23
>cd08324 CARD_NOD1_CARD4 Caspase activation and recruitment domain similar to that found in NOD1. Caspase activation and recruitment domain (CARD) found in human NOD1 (CARD4) and similar proteins. NOD1 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD1, as well as NOD2, the N-terminal effector domain is a CARD. Nod1-CARD has been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. 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 hom
Probab=22.48 E-value=75 Score=24.26 Aligned_cols=33 Identities=24% Similarity=0.361 Sum_probs=27.8
Q ss_pred cccHHHHHHHhhhcccCCCcchhhhHHHHHHHHhCccc
Q psy358 134 KLKVRDLKKILNDWEEECDGCLEKGDFIKRIEELKPKY 171 (176)
Q Consensus 134 KmrVkeLKkIL~d~g~~C~gC~EK~DfV~ri~el~~k~ 171 (176)
-.|+++|=..+.+||++| |+-|..-..++..-|
T Consensus 45 qdkmRkLld~v~akG~~~-----k~~F~~iL~e~~~~y 77 (85)
T cd08324 45 PDKVRKILDLVQSKGEEV-----SEYFLYLLQQLADAY 77 (85)
T ss_pred HHHHHHHHHHHHhcCchH-----HHHHHHHHHHHHHhh
Confidence 457789999999999987 578888888888777
No 24
>cd01216 Fe65 Fe65 Phosphotyrosine-binding (PTB) domain, phosphotyrosine-interaction (PI) domain. Fe65 Phosphotyrosine-binding (PTB) domain, phosphotyrosine-interaction (PI) domain. Fe65 is an amyloid beta A4 precursor (APP) protein-binding. It contains an N-terminal WW domain followed by two PTB domains. The C-terminal PTB domain is responsible for APP binding. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=22.21 E-value=35 Score=26.55 Aligned_cols=53 Identities=17% Similarity=0.234 Sum_probs=33.6
Q ss_pred HHHhhhccCCCCcceeeecCcchhhhhhhhhccccccCCCChHHHhHHhcccCccccccccccc
Q psy358 61 KKWCKGTKGKENRFCYYLGGLEESATGILGELSKPLSWGMPATKICEKLKKSDSQICDLRYDKQ 124 (176)
Q Consensus 61 ~~~C~~~kgKEnr~CYYiGa~~dsAt~il~evskPlS~~mP~~KICekLkkkD~QICelkYdk~ 124 (176)
+.||.. |++||.|=||--..+ -.=.-.=+--..|++.||+.+. +.|+++|-|.
T Consensus 70 Isf~~~--gk~~r~FafI~~~~~-----~~~~CHVF~c~~~a~~i~~tv~----~ac~l~y~k~ 122 (123)
T cd01216 70 LSFWGV--GRDVRDFAFIMRTER-----RRFMCHVFRCEPNAGALATTVE----AACKLRYQKC 122 (123)
T ss_pred EEEEEc--CCCCcEEEEEEEcCC-----CeEEEEEEEcCCCHHHHHHHHH----HHHHHHhhcc
Confidence 345655 677798888843321 1111122333569999999886 6899999774
No 25
>PF13297 Telomere_Sde2_2: Telomere stability C-terminal
Probab=22.11 E-value=46 Score=23.88 Aligned_cols=27 Identities=30% Similarity=0.470 Sum_probs=22.9
Q ss_pred cccCcccHHHHHHHhhhcccCCCcchh
Q psy358 130 VDLKKLKVRDLKKILNDWEEECDGCLE 156 (176)
Q Consensus 130 ~Dl~KmrVkeLKkIL~d~g~~C~gC~E 156 (176)
.++.-+-...||.-|..+|..|-|=.+
T Consensus 10 ~eLe~lGldrLK~~L~a~GLKcGGTl~ 36 (60)
T PF13297_consen 10 EELEALGLDRLKSALMALGLKCGGTLQ 36 (60)
T ss_pred HHHHHhCHHHHHHHHHHcCCccCCCHH
Confidence 456677888999999999999999764
No 26
>PF12588 PSDC: Phophatidylserine decarboxylase ; InterPro: IPR022237 This domain family is found in bacteria and eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF02666 from PFAM. Phosphatidylserine decarboxylase (PSD) is an important enzyme in the synthesis of phosphatidylethanolamine in both prokaryotes and eukaryotes.
Probab=21.51 E-value=44 Score=27.12 Aligned_cols=12 Identities=67% Similarity=1.171 Sum_probs=10.4
Q ss_pred HHHHHHhhhccc
Q psy358 138 RDLKKILNDWEE 149 (176)
Q Consensus 138 keLKkIL~d~g~ 149 (176)
.+||+||+.||.
T Consensus 100 ~~lK~ILn~W~~ 111 (141)
T PF12588_consen 100 AQLKKILNEWGE 111 (141)
T ss_pred HHHHHHHHHHHH
Confidence 579999999984
Done!