Query psy70
Match_columns 88
No_of_seqs 104 out of 351
Neff 4.4
Searched_HMMs 46136
Date Sat Aug 17 00:12:53 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy70.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/70hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00262 Calreticulin: Calreti 100.0 2.4E-37 5.2E-42 246.2 4.7 73 13-88 61-134 (367)
2 KOG0675|consensus 100.0 4.6E-34 1E-38 235.4 3.9 76 13-88 102-177 (558)
3 KOG0674|consensus 100.0 6.9E-30 1.5E-34 203.4 5.3 71 14-88 77-148 (406)
4 KOG3537|consensus 97.6 1.8E-05 3.8E-10 66.2 0.1 44 1-50 16-64 (543)
5 PF07210 DUF1416: Protein of u 77.0 4.2 9.1E-05 27.3 3.5 29 27-56 5-33 (85)
6 PF02747 PCNA_C: Proliferating 60.8 12 0.00025 25.3 3.1 22 26-54 105-126 (128)
7 PF10106 DUF2345: Uncharacteri 54.5 12 0.00026 26.5 2.4 14 41-54 118-131 (155)
8 COG4253 Uncharacterized protei 52.0 18 0.00039 28.8 3.2 43 13-55 142-184 (278)
9 TIGR00590 pcna proliferating c 49.3 19 0.00041 27.2 2.9 23 26-55 231-253 (259)
10 PLN00057 proliferating cell nu 46.0 25 0.00054 26.7 3.1 22 27-55 232-253 (263)
11 PF14472 DUF4429: Domain of un 42.8 53 0.0012 21.3 3.9 41 36-76 37-78 (94)
12 PF15306 LIN37: LIN37 37.7 14 0.00031 25.9 0.6 21 48-71 17-38 (148)
13 KOG0674|consensus 34.8 56 0.0012 27.2 3.7 37 17-55 21-57 (406)
14 cd01781 AF6_RA_repeat2 Ubiquit 33.1 51 0.0011 22.5 2.7 24 46-77 1-25 (100)
15 PLN03148 Blue copper-like prot 32.5 1E+02 0.0022 22.7 4.3 63 21-87 44-115 (167)
16 PHA03383 PCNA-like protein; Pr 30.3 59 0.0013 24.9 2.9 23 26-55 237-259 (262)
17 COG4463 CtsR Transcriptional r 30.0 46 0.001 24.5 2.2 18 34-54 56-73 (153)
18 PF02941 FeThRed_A: Ferredoxin 30.0 16 0.00035 23.5 -0.1 22 8-38 38-59 (67)
19 PF07623 PEGSRP: Protein of un 29.8 27 0.00058 18.8 0.7 8 2-9 12-19 (27)
20 KOG3931|consensus 28.3 28 0.00061 29.4 0.9 13 42-54 203-215 (484)
21 PRK10779 zinc metallopeptidase 28.0 33 0.00072 27.8 1.3 25 46-70 66-94 (449)
22 PF14636 FNIP_N: Folliculin-in 26.9 35 0.00076 23.7 1.1 18 71-88 99-119 (131)
23 cd01681 aeEF2_snRNP_like_IV Th 25.9 31 0.00067 24.4 0.7 13 70-82 75-87 (177)
24 PF05848 CtsR: Firmicute trans 24.4 40 0.00086 24.5 1.0 17 34-53 56-72 (152)
25 cd00102 IPT Immunoglobulin-lik 22.7 1.7E+02 0.0038 17.2 3.6 38 35-80 5-43 (89)
26 PF00041 fn3: Fibronectin type 21.8 1.7E+02 0.0036 16.5 3.4 58 13-72 14-71 (85)
27 PF01082 Cu2_monooxygen: Coppe 21.7 80 0.0017 21.5 2.1 39 1-41 8-46 (132)
28 PF01556 CTDII: DnaJ C termina 21.0 85 0.0018 19.3 2.0 17 27-43 59-75 (81)
29 PTZ00483 proliferating cell nu 20.5 1.3E+02 0.0028 23.2 3.2 29 27-55 232-260 (264)
30 PF11599 AviRa: RRNA methyltra 20.3 27 0.00059 27.5 -0.5 7 43-49 59-65 (246)
No 1
>PF00262 Calreticulin: Calreticulin family; InterPro: IPR001580 Synonym(s): Calregulin, CRP55, HACBP Calreticulin [] is a high-capacity calcium-binding protein which is present in most tissues and located at the periphery of the endoplasmic (ER) and the sarcoplamic reticulum (SR) membranes. It probably plays a role in the storage of calcium in the lumen of the ER and SR and it may well have other important functions. Structurally, calreticulin is a protein of about 400 amino acid residues consisting of three domains: An N-terminal, probably globular, domain of about 180 amino acid residues (N-domain). A central domain of about 70 residues (P-domain) which contains three repeats of an acidic 17 amino acid motif. This region binds calcium with a low-capacity, but a high-affinity. A C-terminal domain rich in acidic residues and in lysine (C-domain). This region binds calcium with a high-capacity but a low-affinity. Calreticulin is evolutionarily related to several other calcium-binding proteins, including Onchocerca volvulus antigen RAL-1, calnexin [] and calmegin [].; GO: 0005509 calcium ion binding; PDB: 3POS_C 3DOW_B 3POW_A 1HHN_A 1K9C_A 1K91_A 3O0X_B 3O0W_A 3RG0_A 3O0V_A ....
Probab=100.00 E-value=2.4e-37 Score=246.17 Aligned_cols=73 Identities=48% Similarity=0.836 Sum_probs=61.1
Q ss_pred cccceecCceeeecCCceEEEEEEEeecccccCcceEEeecCCCccccc-ccCCCCCCceEEeecCCcCCCCeEEEC
Q psy70 13 DEASVRAGTCYFHVKVPFVIQYEVMFQDKHDCGGAYLKLLTEGPALQDL-TAFNDKTPYTIMFGPDKCGTDDKVCTV 88 (88)
Q Consensus 13 ~~~s~~l~kpf~~~~k~LVvQYEVk~q~~idCGGaYIKLl~~~~~~~~~-~~f~~~tpY~IMFGPD~Cg~~~kvHfI 88 (88)
+-||++|++||+|++|+||||||||+|++|+|||||||||+++. ++ ++|+++|||+||||||+||.++|||||
T Consensus 61 yaIS~kl~kPf~~~~k~LVvQYeVK~q~~idCGGaYIKLL~~~~---~~~~~f~~~TpY~IMFGPD~CG~~~kvHfI 134 (367)
T PF00262_consen 61 YAISAKLDKPFSNKDKDLVVQYEVKFQQGIDCGGAYIKLLPASF---DQEENFSDKTPYSIMFGPDKCGSSNKVHFI 134 (367)
T ss_dssp EEEEEEEEEEE-STTS-EEEEEEEEETT--SEEE--EEEEBTTS---SGGGG-STTS-ESEEEEEEEESTTEEEEEE
T ss_pred hhhhhhCCCccccCCCcEEEEEEEEeecceeccceEEEEecCcc---chhhhcCCCCCceEEeCCccCCCCceEEEE
Confidence 57999999999999999999999999999999999999999964 44 499999999999999999999999998
No 2
>KOG0675|consensus
Probab=100.00 E-value=4.6e-34 Score=235.36 Aligned_cols=76 Identities=51% Similarity=0.912 Sum_probs=72.4
Q ss_pred cccceecCceeeecCCceEEEEEEEeecccccCcceEEeecCCCcccccccCCCCCCceEEeecCCcCCCCeEEEC
Q psy70 13 DEASVRAGTCYFHVKVPFVIQYEVMFQDKHDCGGAYLKLLTEGPALQDLTAFNDKTPYTIMFGPDKCGTDDKVCTV 88 (88)
Q Consensus 13 ~~~s~~l~kpf~~~~k~LVvQYEVk~q~~idCGGaYIKLl~~~~~~~~~~~f~~~tpY~IMFGPD~Cg~~~kvHfI 88 (88)
|-|++.|++||++..++||||||||+|+|++|||||||||+...+..++++|+++|||+||||||+||.++|||||
T Consensus 102 haI~a~L~~P~~~~~~plVVQYEvk~qeg~eCGGAYlKLLs~~~~~~~l~~f~dktpy~ImFGPDKCG~~~kvhFI 177 (558)
T KOG0675|consen 102 HAISAELEEPFNFKEKPLVVQYEVKFQEGLECGGAYLKLLSQGTAGENLKNFDDKTPYTIMFGPDKCGETNKVHFI 177 (558)
T ss_pred hHHHhhhcCCcccCCCCeEEEEEEecCCCcccchhHHHhhcccccccchhccCCCCCeEEEeCccccCCcccEEEE
Confidence 5689999999999999999999999999999999999999995447899999999999999999999999999998
No 3
>KOG0674|consensus
Probab=99.96 E-value=6.9e-30 Score=203.42 Aligned_cols=71 Identities=39% Similarity=0.723 Sum_probs=65.5
Q ss_pred ccceecCceeeecCCceEEEEEEEeecccccCcceEEeecCCCcccccccCCCCCCceEEeecCCcCCC-CeEEEC
Q psy70 14 EASVRAGTCYFHVKVPFVIQYEVMFQDKHDCGGAYLKLLTEGPALQDLTAFNDKTPYTIMFGPDKCGTD-DKVCTV 88 (88)
Q Consensus 14 ~~s~~l~kpf~~~~k~LVvQYEVk~q~~idCGGaYIKLl~~~~~~~~~~~f~~~tpY~IMFGPD~Cg~~-~kvHfI 88 (88)
.+||+| +||+|++|+|||||.||++|.|+|||||||||++ +.|+.+|+++|||.||||||+||++ +|||+|
T Consensus 77 a~sa~F-~~FsnK~kTLv~q~tVkheQ~~dcgggyiKl~~~---d~Dq~~f~ges~y~iMfGPDICG~~tkKVhvi 148 (406)
T KOG0674|consen 77 AISAKF-KPFSNKGKTLVIQFTVKHEQKIDCGGGYIKLFPA---DLDQTDFHGESPYNIMFGPDICGFGTKKVHVI 148 (406)
T ss_pred eeeccc-ccccccCceEEEEEEecccccccCCceeEEeeec---ccchhhcCCCcccccccCCcccCCCCceEEEE
Confidence 466766 6699999999999999999999999999999998 5799999999999999999999995 599987
No 4
>KOG3537|consensus
Probab=97.56 E-value=1.8e-05 Score=66.25 Aligned_cols=44 Identities=50% Similarity=0.902 Sum_probs=37.6
Q ss_pred CCCCCCCccccccccceecCceeeecCCceEEEE----EEEeecc-cccCcceEE
Q psy70 1 MPESSKPHQWQSDEASVRAGTCYFHVKVPFVIQY----EVMFQDK-HDCGGAYLK 50 (88)
Q Consensus 1 ~~~~~~~~~~~~~~~s~~l~kpf~~~~k~LVvQY----EVk~q~~-idCGGaYIK 50 (88)
+||+|||||||.||.+.|..++- |-|.| ||--.+| ..|.+|--+
T Consensus 16 Vpe~SkphQWQ~DE~aVRtgtCs------F~VkYLG~VEV~ESRGM~vCE~AlK~ 64 (543)
T KOG3537|consen 16 VPEASKPHQWQADEEAVRTGTCS------FPVKYLGHVEVFESRGMQVCEDALKV 64 (543)
T ss_pred CCCCCCccccccchhhhccceee------eeeeeeeeEEEecccCcHHHHHHHHH
Confidence 69999999999999999998887 77888 8877777 789998433
No 5
>PF07210 DUF1416: Protein of unknown function (DUF1416); InterPro: IPR010814 This family consists of several hypothetical bacterial proteins of around 100 residues in length. Members of this family appear to be Actinomycete specific. The function of this family is unknown.
Probab=77.03 E-value=4.2 Score=27.27 Aligned_cols=29 Identities=34% Similarity=0.496 Sum_probs=25.3
Q ss_pred CCceEEEEEEEeecccccCcceEEeecCCC
Q psy70 27 KVPFVIQYEVMFQDKHDCGGAYLKLLTEGP 56 (88)
Q Consensus 27 ~k~LVvQYEVk~q~~idCGGaYIKLl~~~~ 56 (88)
.|..|||=.|+ ..+---||||+.||..+.
T Consensus 5 ~ke~VItG~V~-~~G~Pv~gAyVRLLD~sg 33 (85)
T PF07210_consen 5 EKETVITGRVT-RDGEPVGGAYVRLLDSSG 33 (85)
T ss_pred cceEEEEEEEe-cCCcCCCCeEEEEEcCCC
Confidence 57789999999 788888999999998764
No 6
>PF02747 PCNA_C: Proliferating cell nuclear antigen, C-terminal domain; InterPro: IPR022649 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein [] that plays a key role in the control of eukaryotic DNA replication []. It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication []. The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes []. In Saccharomyces cerevisiae (Baker's yeast), POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex; PDB: 1IZ5_A 1IZ4_A 1GE8_A 1ISQ_A 3A2F_B 1RWZ_A 3P83_A 1RXM_A 1RXZ_A 1SXJ_F ....
Probab=60.81 E-value=12 Score=25.31 Aligned_cols=22 Identities=23% Similarity=0.558 Sum_probs=17.5
Q ss_pred cCCceEEEEEEEeecccccCcceEEeecC
Q psy70 26 VKVPFVIQYEVMFQDKHDCGGAYLKLLTE 54 (88)
Q Consensus 26 ~~k~LVvQYEVk~q~~idCGGaYIKLl~~ 54 (88)
++.||.|+|++ .+||+|+++-+
T Consensus 105 ~~~Pl~l~f~~-------~~~g~l~f~LA 126 (128)
T PF02747_consen 105 EDMPLKLEFEL-------ADGGSLKFYLA 126 (128)
T ss_dssp TTSEEEEEEEE-------TTTEEEEEEE-
T ss_pred CCCCEEEEEEe-------CCCeEEEEEEc
Confidence 37899999999 36899998854
No 7
>PF10106 DUF2345: Uncharacterized protein conserved in bacteria (DUF2345); InterPro: IPR018769 This entry represents the C-terminal domain of a subset of the Rhs element Vgr protein family found only in genomes with type VI secretion loci. However, members of this protein family, although recognizably correlated to type VI secretion according the partial phylogenetic profiling algorithm, are often encoded far from the type VI secretion locus.
Probab=54.53 E-value=12 Score=26.46 Aligned_cols=14 Identities=29% Similarity=0.679 Sum_probs=11.7
Q ss_pred ccccCcceEEeecC
Q psy70 41 KHDCGGAYLKLLTE 54 (88)
Q Consensus 41 ~idCGGaYIKLl~~ 54 (88)
-|.|||+||||=+.
T Consensus 118 ~l~~ggs~i~l~gg 131 (155)
T PF10106_consen 118 TLNAGGSYIRLSGG 131 (155)
T ss_pred EEecCCcEEEEeCC
Confidence 48999999998644
No 8
>COG4253 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.02 E-value=18 Score=28.78 Aligned_cols=43 Identities=19% Similarity=0.156 Sum_probs=23.2
Q ss_pred cccceecCceeeecCCceEEEEEEEeecccccCcceEEeecCC
Q psy70 13 DEASVRAGTCYFHVKVPFVIQYEVMFQDKHDCGGAYLKLLTEG 55 (88)
Q Consensus 13 ~~~s~~l~kpf~~~~k~LVvQYEVk~q~~idCGGaYIKLl~~~ 55 (88)
|.+..-..|-+....-+.-|-..-|-.--+.|||+||+|-...
T Consensus 142 d~i~llA~k~I~~~s~~~~V~i~Ak~~i~l~agGayitl~~g~ 184 (278)
T COG4253 142 DDIELLAKKAITLTSTQDEIDITAKKRITLNAGGAYITLDGGN 184 (278)
T ss_pred cchhhhhccceEEEecccEEEEEeeeEEEEecCccEEEEcCCe
Confidence 3333333344444333333333444444578999999998653
No 9
>TIGR00590 pcna proliferating cell nuclear antigen (pcna). All proteins in this family for which functions are known form sliding DNA clamps that are used in DNA replication processes. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=49.28 E-value=19 Score=27.20 Aligned_cols=23 Identities=22% Similarity=0.583 Sum_probs=19.0
Q ss_pred cCCceEEEEEEEeecccccCcceEEeecCC
Q psy70 26 VKVPFVIQYEVMFQDKHDCGGAYLKLLTEG 55 (88)
Q Consensus 26 ~~k~LVvQYEVk~q~~idCGGaYIKLl~~~ 55 (88)
++.||.++|++. |||||+++-+.
T Consensus 231 ~~~Pl~l~y~i~-------~~g~l~f~lAP 253 (259)
T TIGR00590 231 NDVPLVVEYKIK-------DMGFLRFFLAP 253 (259)
T ss_pred CCCCEEEEEEeC-------CCeEEEEEEcC
Confidence 379999999983 67999998764
No 10
>PLN00057 proliferating cell nuclear antigen; Provisional
Probab=46.02 E-value=25 Score=26.68 Aligned_cols=22 Identities=18% Similarity=0.578 Sum_probs=18.7
Q ss_pred CCceEEEEEEEeecccccCcceEEeecCC
Q psy70 27 KVPFVIQYEVMFQDKHDCGGAYLKLLTEG 55 (88)
Q Consensus 27 ~k~LVvQYEVk~q~~idCGGaYIKLl~~~ 55 (88)
+.||.++|++ -+||||+.+-++
T Consensus 232 ~~Pl~l~y~l-------~~~g~l~f~LAP 253 (263)
T PLN00057 232 ELPVVVEYKI-------AEMGYIRYYLAP 253 (263)
T ss_pred CCCEEEEEEe-------CCCeEEEEEEcC
Confidence 7999999998 268999999764
No 11
>PF14472 DUF4429: Domain of unknown function (DUF4429)
Probab=42.84 E-value=53 Score=21.27 Aligned_cols=41 Identities=22% Similarity=0.308 Sum_probs=23.6
Q ss_pred EEeecccccCcceEEeecCCCccccccc-CCCCCCceEEeec
Q psy70 36 VMFQDKHDCGGAYLKLLTEGPALQDLTA-FNDKTPYTIMFGP 76 (88)
Q Consensus 36 Vk~q~~idCGGaYIKLl~~~~~~~~~~~-f~~~tpY~IMFGP 76 (88)
|.++..---+.|||.|......+..... =-...||++||++
T Consensus 37 V~~~~pg~~~~G~Lrf~~~~g~~~~~~~~~~~~Dp~~v~~~~ 78 (94)
T PF14472_consen 37 VEWKPPGGLTNGYLRFVLRGGADPLGGAAPPKQDPNAVLFGG 78 (94)
T ss_pred EEEEcCCceeEEEEEEEECCcCccccccCCCCCCCcEEEEec
Confidence 4444433335799999976521111111 2345789999994
No 12
>PF15306 LIN37: LIN37
Probab=37.71 E-value=14 Score=25.92 Aligned_cols=21 Identities=38% Similarity=0.733 Sum_probs=16.6
Q ss_pred eEEeecCCCcccccccCCCCCC-ce
Q psy70 48 YLKLLTEGPALQDLTAFNDKTP-YT 71 (88)
Q Consensus 48 YIKLl~~~~~~~~~~~f~~~tp-Y~ 71 (88)
=|||+.. .+|+..|+.+|| |.
T Consensus 17 v~kLfdR---svdLa~f~~~tpLY~ 38 (148)
T PF15306_consen 17 VMKLFDR---SVDLAQFSENTPLYP 38 (148)
T ss_pred EEEEeCc---eeeecccCCCCcHHH
Confidence 4788887 479999999888 44
No 13
>KOG0674|consensus
Probab=34.83 E-value=56 Score=27.22 Aligned_cols=37 Identities=5% Similarity=-0.189 Sum_probs=31.0
Q ss_pred eecCceeeecCCceEEEEEEEeecccccCcceEEeecCC
Q psy70 17 VRAGTCYFHVKVPFVIQYEVMFQDKHDCGGAYLKLLTEG 55 (88)
Q Consensus 17 ~~l~kpf~~~~k~LVvQYEVk~q~~idCGGaYIKLl~~~ 55 (88)
+-+.+.|++.+.-.+-+..+++-+. |+|+|+++.+.-
T Consensus 21 Vyf~E~F~d~~~w~~rwv~skhk~~--~fG~f~ls~g~f 57 (406)
T KOG0674|consen 21 VYFKEEFLDEDGWENRWVQSKHKSR--DFGKFVLSAGKF 57 (406)
T ss_pred hhhhhhhcCCCCceEEEEEeecccc--ccCceEeccccc
Confidence 4466778888899999999998876 999999988774
No 14
>cd01781 AF6_RA_repeat2 Ubiquitin domain of AT-6, second repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=33.09 E-value=51 Score=22.46 Aligned_cols=24 Identities=29% Similarity=0.548 Sum_probs=15.9
Q ss_pred cceEEeecCCCcccccccCCCCCCc-eEEeecC
Q psy70 46 GAYLKLLTEGPALQDLTAFNDKTPY-TIMFGPD 77 (88)
Q Consensus 46 GaYIKLl~~~~~~~~~~~f~~~tpY-~IMFGPD 77 (88)
||+||+++.. .....|| +|+.-.+
T Consensus 1 gG~LKIYg~~--------L~~~~~YKSIlvt~~ 25 (100)
T cd01781 1 GGTLKIYGGS--------LVPTRPYKTILLSIN 25 (100)
T ss_pred CCeEEEcCCc--------ccCCCCeEEEEecCC
Confidence 7899999873 2256777 6665543
No 15
>PLN03148 Blue copper-like protein; Provisional
Probab=32.46 E-value=1e+02 Score=22.71 Aligned_cols=63 Identities=21% Similarity=0.327 Sum_probs=42.0
Q ss_pred ceeeecCCceEEEE--------EEEeecccccCc-ceEEeecCCCcccccccCCCCCCceEEeecCCcCCCCeEEE
Q psy70 21 TCYFHVKVPFVIQY--------EVMFQDKHDCGG-AYLKLLTEGPALQDLTAFNDKTPYTIMFGPDKCGTDDKVCT 87 (88)
Q Consensus 21 kpf~~~~k~LVvQY--------EVk~q~~idCGG-aYIKLl~~~~~~~~~~~f~~~tpY~IMFGPD~Cg~~~kvHf 87 (88)
|.|.. +..||++| ||..+..-.|.- .-+.-+..+. |.-.++..-+|..+-|++-|...-|++.
T Consensus 44 k~F~V-GD~LvF~Y~~~~hnV~~V~~~~Y~~C~~~~pi~~~tsG~---d~v~L~~~G~~YFIcg~ghC~~GmKl~I 115 (167)
T PLN03148 44 QTFYV-GDLISFRYQKTQYNVFEVNQTGYDNCTTEGAAGNWTSGK---DFIPLNKAKRYYFICGNGQCFNGMKVTI 115 (167)
T ss_pred CCCcc-CCEEEEEecCCCceEEEEChHHcCcccCCCCcceecCCC---cEEEecCCccEEEEcCCCccccCCEEEE
Confidence 45533 67799998 666666788984 4555555432 4445555457887789999988777764
No 16
>PHA03383 PCNA-like protein; Provisional
Probab=30.27 E-value=59 Score=24.94 Aligned_cols=23 Identities=22% Similarity=0.371 Sum_probs=18.2
Q ss_pred cCCceEEEEEEEeecccccCcceEEeecCC
Q psy70 26 VKVPFVIQYEVMFQDKHDCGGAYLKLLTEG 55 (88)
Q Consensus 26 ~~k~LVvQYEVk~q~~idCGGaYIKLl~~~ 55 (88)
.+.||.|.|++. |||||+.+=+.
T Consensus 237 ~d~Pl~ley~i~-------~~G~l~fyLAP 259 (262)
T PHA03383 237 ESNPLILKYNVG-------SLGNLKFVIAP 259 (262)
T ss_pred CCCCEEEEEEeC-------CCcEEEEEEcc
Confidence 378999999973 58899988653
No 17
>COG4463 CtsR Transcriptional repressor of class III stress genes [Transcription]
Probab=30.00 E-value=46 Score=24.49 Aligned_cols=18 Identities=28% Similarity=0.639 Sum_probs=12.4
Q ss_pred EEEEeecccccCcceEEeecC
Q psy70 34 YEVMFQDKHDCGGAYLKLLTE 54 (88)
Q Consensus 34 YEVk~q~~idCGGaYIKLl~~ 54 (88)
|+|..-+| |||||++..-
T Consensus 56 Y~VESKRG---GGGYIRI~Kv 73 (153)
T COG4463 56 YLVESKRG---GGGYIRIIKV 73 (153)
T ss_pred eEEEeecC---CCceEEEEEe
Confidence 55544444 8999998854
No 18
>PF02941 FeThRed_A: Ferredoxin thioredoxin reductase variable alpha chain; InterPro: IPR004207 Ferredoxin thioredoxin reductase is a [4FE-4S] protein which plays an important role in the ferredoxin/thioredoxin regulatory chain. It converts an electron signal (photoreduced ferredoxin) to a thiol signal (reduced thioredoxin), regulating enzymes by reduction of specific disulphide groups. It catalyses the light-dependent activation of several photosynthetis enzymes. Ferredoxin thioredoxin reductase is a heterodimer of subunit a and subunit b. Subunit a is the variable subunit, and b is the catalytic chain. This family is the alpha chain.; GO: 0008937 ferredoxin-NAD(P) reductase activity, 0015979 photosynthesis, 0009536 plastid; PDB: 2PUK_B 2PVO_B 2PVG_B 1DJ7_B 2PVD_B 2PU9_B 2PUO_B.
Probab=29.97 E-value=16 Score=23.50 Aligned_cols=22 Identities=23% Similarity=0.607 Sum_probs=12.5
Q ss_pred ccccccccceecCceeeecCCceEEEEEEEe
Q psy70 8 HQWQSDEASVRAGTCYFHVKVPFVIQYEVMF 38 (88)
Q Consensus 8 ~~~~~~~~s~~l~kpf~~~~k~LVvQYEVk~ 38 (88)
..|+--.|||+| |+.|||.+||
T Consensus 38 ~~wkGr~iSanl---------P~~V~F~~kf 59 (67)
T PF02941_consen 38 TDWKGRPISANL---------PVKVQFDKKF 59 (67)
T ss_dssp SEETTEE---SS----------EEEEETTTE
T ss_pred eecCCcEecCCC---------cEEEEEehhh
Confidence 357777777766 5788887654
No 19
>PF07623 PEGSRP: Protein of unknown function (DUF1584); InterPro: IPR011477 This sequence motif is highly conserved in several short hypothetical proteins from Rhodopirellula baltica. It is also associated with IPR011476 from INTERPRO in Q7UJJ9 from SWISSPROT.
Probab=29.80 E-value=27 Score=18.85 Aligned_cols=8 Identities=50% Similarity=0.987 Sum_probs=6.4
Q ss_pred CCCCCCcc
Q psy70 2 PESSKPHQ 9 (88)
Q Consensus 2 ~~~~~~~~ 9 (88)
||.|||+-
T Consensus 12 PegSrpSA 19 (27)
T PF07623_consen 12 PEGSRPSA 19 (27)
T ss_pred CCCCCccc
Confidence 88899863
No 20
>KOG3931|consensus
Probab=28.30 E-value=28 Score=29.38 Aligned_cols=13 Identities=38% Similarity=0.981 Sum_probs=10.9
Q ss_pred cccCcceEEeecC
Q psy70 42 HDCGGAYLKLLTE 54 (88)
Q Consensus 42 idCGGaYIKLl~~ 54 (88)
-+|||.||||-..
T Consensus 203 ~~CgGtflKikEP 215 (484)
T KOG3931|consen 203 KTCGGTFLKIKEP 215 (484)
T ss_pred hhcCceeEEecCC
Confidence 5899999999744
No 21
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=28.03 E-value=33 Score=27.82 Aligned_cols=25 Identities=40% Similarity=0.488 Sum_probs=15.5
Q ss_pred cceEEeecCCCccc----ccccCCCCCCc
Q psy70 46 GAYLKLLTEGPALQ----DLTAFNDKTPY 70 (88)
Q Consensus 46 GaYIKLl~~~~~~~----~~~~f~~~tpY 70 (88)
|||+|++++..++. +...|++++++
T Consensus 66 GGyVk~~~e~~~~~~~~~~~~~f~~k~~~ 94 (449)
T PRK10779 66 GGYVKMLDERVEPVAPELRHHAFNNKTVG 94 (449)
T ss_pred CCeeecCCCCCCcCChhhhhhhhccCCHH
Confidence 89999997642111 12357777765
No 22
>PF14636 FNIP_N: Folliculin-interacting protein N-terminus
Probab=26.88 E-value=35 Score=23.73 Aligned_cols=18 Identities=33% Similarity=0.606 Sum_probs=14.9
Q ss_pred eEEeec---CCcCCCCeEEEC
Q psy70 71 TIMFGP---DKCGTDDKVCTV 88 (88)
Q Consensus 71 ~IMFGP---D~Cg~~~kvHfI 88 (88)
+.|||- -.+|.+.|||.|
T Consensus 99 emmFGS~amsYkGsStKvH~i 119 (131)
T PF14636_consen 99 EMMFGSSAMSYKGSSTKVHII 119 (131)
T ss_pred HhhhcceeeeeccCceEEEEc
Confidence 678885 478999999986
No 23
>cd01681 aeEF2_snRNP_like_IV This family represents domain IV of archaeal and eukaryotic elongation factor 2 (aeEF-2) and of an evolutionarily conserved U5 snRNP-specific protein. U5 snRNP is a GTP-binding factor closely related to the ribosomal translocase EF-2. In complex with GTP, EF-2 promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site of the small subunit of ribosome and the mRNA is shifted one codon relative to the ribosome. It has been shown that EF-2_IV domain mimics the shape of anticodon arm of the tRNA in the structurally homologous ternary complex of Phe-tRNA, EF-1 (another transcriptional elongation factor) and GTP analog. The tip portion of this domain is found in a position that overlaps the anticodon arm of the A-site tRNA, implying that EF-2 displaces the A-site tRNA to the P-site by physical interaction with the anticodon arm.
Probab=25.89 E-value=31 Score=24.37 Aligned_cols=13 Identities=38% Similarity=0.815 Sum_probs=10.6
Q ss_pred ceEEeecCCcCCC
Q psy70 70 YTIMFGPDKCGTD 82 (88)
Q Consensus 70 Y~IMFGPD~Cg~~ 82 (88)
=..-|||+.||++
T Consensus 75 ~Iw~fGP~~~gpN 87 (177)
T cd01681 75 KIWAFGPDRTGPN 87 (177)
T ss_pred cEEEECCCCCCce
Confidence 3677999999975
No 24
>PF05848 CtsR: Firmicute transcriptional repressor of class III stress genes (CtsR); InterPro: IPR008463 This family consists of several Firmicute transcriptional repressor of class III stress gene (CtsR) proteins. CtsR of Listeria monocytogenes negatively regulates the clpC, clpP and clpE genes belonging to the CtsR regulon [].; PDB: 3H0D_A.
Probab=24.42 E-value=40 Score=24.54 Aligned_cols=17 Identities=29% Similarity=0.690 Sum_probs=10.0
Q ss_pred EEEEeecccccCcceEEeec
Q psy70 34 YEVMFQDKHDCGGAYLKLLT 53 (88)
Q Consensus 34 YEVk~q~~idCGGaYIKLl~ 53 (88)
|-|...+| |||||+...
T Consensus 56 Y~VESrRG---GGGyIRI~r 72 (152)
T PF05848_consen 56 YIVESRRG---GGGYIRIVR 72 (152)
T ss_dssp EEEEEE-S---TT-EEEEEE
T ss_pred eEEEeccC---CCceEEEEE
Confidence 44444444 899999874
No 25
>cd00102 IPT Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor receptors), as well as, cyclodextrin glycosyltransferase and similar enzymes. Although they are involved in DNA binding in transcription factors, their function in other proteins is unknown. In these transcription factors, IPTs form homo- or heterodimers with the exception of the nuclear factor of activated Tcells (NFAT) transcription factors which are mainly monomers.
Probab=22.66 E-value=1.7e+02 Score=17.17 Aligned_cols=38 Identities=16% Similarity=0.334 Sum_probs=26.3
Q ss_pred EEEeecccccCcceEEeecCCCcccccccCCCCCCceEEe-ecCCcC
Q psy70 35 EVMFQDKHDCGGAYLKLLTEGPALQDLTAFNDKTPYTIMF-GPDKCG 80 (88)
Q Consensus 35 EVk~q~~idCGGaYIKLl~~~~~~~~~~~f~~~tpY~IMF-GPD~Cg 80 (88)
.+....+-..||.-|.+.+.. |.......++| |--.|-
T Consensus 5 ~i~P~~g~~~GGt~itI~G~~--------f~~~~~~~v~~~g~~~c~ 43 (89)
T cd00102 5 SISPSSGPVSGGTEVTITGSN--------FGSGSNLRVTFGGGVPCS 43 (89)
T ss_pred EEECCcCCCCCCeEEEEEEEC--------CCCCCcEEEEEeCCCeEE
Confidence 345566777799999988863 33333678999 777774
No 26
>PF00041 fn3: Fibronectin type III domain; InterPro: IPR003961 Fibronectins are multi-domain glycoproteins found in a soluble form in plasma, and in an insoluble form in loose connective tissue and basement membranes []. They contain multiple copies of 3 repeat regions (types I, II and III), which bind to a variety of substances including heparin, collagen, DNA, actin, fibrin and fibronectin receptors on cell surfaces. The wide variety of these substances means that fibronectins are involved in a number of important functions: e.g., wound healing; cell adhesion; blood coagulation; cell differentiation and migration; maintenance of the cellular cytoskeleton; and tumour metastasis []. The role of fibronectin in cell differentiation is demonstrated by the marked reduction in the expression of its gene when neoplastic transformation occurs. Cell attachment has been found to be mediated by the binding of the tetrapeptide RGDS to integrins on the cell surface [], although related sequences can also display cell adhesion activity. Plasma fibronectin occurs as a dimer of 2 different subunits, linked together by 2 disulphide bonds near the C terminus. The difference in the 2 chains occurs in the type III repeat region and is caused by alternative splicing of the mRNA from one gene []. The observation that, in a given protein, an individual repeat of one of the 3 types (e.g., the first FnIII repeat) shows much less similarity to its subsequent tandem repeats within that protein than to its equivalent repeat between fibronectins from other species, has suggested that the repeating structure of fibronectin arose at an early stage of evolution. It also seems to suggest that the structure is subject to high selective pressure []. The fibronectin type III repeat region is an approximately 100 amino acid domain, different tandem repeats of which contain binding sites for DNA, heparin and the cell surface []. The superfamily of sequences believed to contain FnIII repeats represents 45 different families, the majority of which are involved in cell surface binding in some manner, or are receptor protein tyrosine kinases, or cytokine receptors.; GO: 0005515 protein binding; PDB: 1UEM_A 1TDQ_A 1X5I_A 2IC2_B 2IBG_C 2IBB_A 3R8Q_A 2FNB_A 1FNH_A 2EDB_A ....
Probab=21.84 E-value=1.7e+02 Score=16.53 Aligned_cols=58 Identities=10% Similarity=0.052 Sum_probs=31.1
Q ss_pred cccceecCceeeecCCceEEEEEEEeecccccCcceEEeecCCCcccccccCCCCCCceE
Q psy70 13 DEASVRAGTCYFHVKVPFVIQYEVMFQDKHDCGGAYLKLLTEGPALQDLTAFNDKTPYTI 72 (88)
Q Consensus 13 ~~~s~~l~kpf~~~~k~LVvQYEVk~q~~idCGGaYIKLl~~~~~~~~~~~f~~~tpY~I 72 (88)
.++..+-..|. .+..-+.+|+|.....-+.+......++..........+...+.|.+
T Consensus 14 ~sv~v~W~~~~--~~~~~~~~y~v~~~~~~~~~~~~~~~~~~~~~~~~i~~L~p~t~Y~~ 71 (85)
T PF00041_consen 14 TSVTVSWKPPS--SGNGPITGYRVEYRSVNSTSDWQEVTVPGNETSYTITGLQPGTTYEF 71 (85)
T ss_dssp SEEEEEEEESS--STSSSESEEEEEEEETTSSSEEEEEEEETTSSEEEEESCCTTSEEEE
T ss_pred CEEEEEEECCC--CCCCCeeEEEEEEEecccceeeeeeeeeeeeeeeeeccCCCCCEEEE
Confidence 33444444554 34445667887776665555333443444321345556666777765
No 27
>PF01082 Cu2_monooxygen: Copper type II ascorbate-dependent monooxygenase, N-terminal domain; InterPro: IPR000323 Copper type II, ascorbate-dependent monooxygenases [] are a class of enzymes that requires copper as a cofactor and which uses ascorbate as an electron donor. This family contains two related enzymes, Dopamine-beta-monooxygenase (1.14.17.1 from EC) and Peptidyl-glycine alpha-amidating monooxygenase (1.14.17.3 from EC). There are a few regions of sequence similarities between these two enzymes, two of these regions contain clusters of conserved histidine residues which are most probably involved in binding copper.; GO: 0004497 monooxygenase activity, 0005507 copper ion binding, 0016715 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen, 0055114 oxidation-reduction process; PDB: 1YI9_A 3MLL_A 1SDW_A 3MID_A 1YIP_A 3PHM_A 3MIC_A 3MIB_A 1OPM_A 3MIG_A ....
Probab=21.70 E-value=80 Score=21.49 Aligned_cols=39 Identities=15% Similarity=0.116 Sum_probs=21.1
Q ss_pred CCCCCCCccccccccceecCceeeecCCceEEEEEEEeecc
Q psy70 1 MPESSKPHQWQSDEASVRAGTCYFHVKVPFVIQYEVMFQDK 41 (88)
Q Consensus 1 ~~~~~~~~~~~~~~~s~~l~kpf~~~~k~LVvQYEVk~q~~ 41 (88)
||....|.+ .+++.++.-+.=....|..|+.||...+++
T Consensus 8 ~~~v~vP~~--~t~Y~C~~~~lp~~~~~~hIi~~ep~~~~~ 46 (132)
T PF01082_consen 8 MPNVTVPSQ--DTTYWCFVFKLPDLTEKHHIIGFEPIITNG 46 (132)
T ss_dssp -SSB---SS--SSEEEEEEEE-S-S-S-EEEEEEEEE--T-
T ss_pred cCCcCcCCC--CCeEEEEEEECCcccccceEEEeeeeeccC
Confidence 455666777 677777765443434888999999999984
No 28
>PF01556 CTDII: DnaJ C terminal domain; InterPro: IPR002939 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolizing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. Besides stimulating the ATPase activity of DnaK through its J-domain, DnaJ also associates with unfolded polypeptide chains and prevents their aggregation []. Thus, DnaK and DnaJ may bind to one and the same polypeptide chain to form a ternary complex. The formation of a ternary complex may result in cis-interaction of the J-domain of DnaJ with the ATPase domain of DnaK. An unfolded polypeptide may enter the chaperone cycle by associating first either with ATP-liganded DnaK or with DnaJ. DnaK interacts with both the backbone and side chains of a peptide substrate; it thus shows binding polarity and admits only L-peptide segments. In contrast, DnaJ has been shown to bind both L- and D-peptides and is assumed to interact only with the side chains of the substrate. This domain consists of the C-terminal region of the DnaJ protein. The function of this domain is unknown. It is found associated with IPR001623 from INTERPRO and IPR001305 from INTERPRO. ; GO: 0051082 unfolded protein binding, 0006457 protein folding; PDB: 2Q2G_A 2QLD_A 3AGX_A 3AGZ_A 3AGY_A 3I38_J 3LZ8_B 2B26_B 1C3G_A 1XAO_B ....
Probab=21.02 E-value=85 Score=19.35 Aligned_cols=17 Identities=24% Similarity=0.542 Sum_probs=11.9
Q ss_pred CCceEEEEEEEeecccc
Q psy70 27 KVPFVIQYEVMFQDKHD 43 (88)
Q Consensus 27 ~k~LVvQYEVk~q~~id 43 (88)
.-+|+|+|+|.+.+.++
T Consensus 59 ~GdL~v~~~V~~P~~ls 75 (81)
T PF01556_consen 59 RGDLIVKFEVEFPKKLS 75 (81)
T ss_dssp BEEEEEEEEEE--SSTS
T ss_pred cCCEEEEEEEECCCCCC
Confidence 35899999999877654
No 29
>PTZ00483 proliferating cell nuclear antigen; Provisional
Probab=20.53 E-value=1.3e+02 Score=23.19 Aligned_cols=29 Identities=3% Similarity=0.171 Sum_probs=19.5
Q ss_pred CCceEEEEEEEeecccccCcceEEeecCC
Q psy70 27 KVPFVIQYEVMFQDKHDCGGAYLKLLTEG 55 (88)
Q Consensus 27 ~k~LVvQYEVk~q~~idCGGaYIKLl~~~ 55 (88)
+.||.|+|++.-..+-.=|||||+.+=+.
T Consensus 232 ~~Pl~ley~i~~~~~~~~~~G~l~fyLAP 260 (264)
T PTZ00483 232 GIPLSVKFNFKDPLTDLQDSSFINFYLAP 260 (264)
T ss_pred CCCEEEEEEecccccCCCCceEEEEEEcc
Confidence 79999999973111112358999988654
No 30
>PF11599 AviRa: RRNA methyltransferase AviRa; InterPro: IPR024268 This family of proteins includes the methyltransferase AviRa from Streptomyces viridochromogenes. This protein mediates the resistance to the antibiotic avilamycin. AviRa methylates a specific guanine base within the peptidyl-transferase loop of the 23S ribosomal RNA [].; PDB: 1O9H_A 1O9G_A.
Probab=20.30 E-value=27 Score=27.45 Aligned_cols=7 Identities=57% Similarity=1.312 Sum_probs=4.8
Q ss_pred ccCcceE
Q psy70 43 DCGGAYL 49 (88)
Q Consensus 43 dCGGaYI 49 (88)
=|||||+
T Consensus 59 CCG~gyL 65 (246)
T PF11599_consen 59 CCGSGYL 65 (246)
T ss_dssp T-TTSHH
T ss_pred CCCccHH
Confidence 4999996
Done!