Query psy9368
Match_columns 179
No_of_seqs 15 out of 17
Neff 2.5
Searched_HMMs 46136
Date Fri Aug 16 17:19:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9368.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9368hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0260|consensus 42.9 4.8E+02 0.01 29.0 12.5 105 35-139 1475-1579(1605)
2 KOG0260|consensus 33.8 7.1E+02 0.015 27.8 12.3 47 90-136 1523-1569(1605)
3 PF15156 CLN6: Ceroid-lipofusc 10.4 1.4E+02 0.0031 27.1 1.2 24 136-159 75-103 (284)
4 KOG4408|consensus 8.2 2E+02 0.0044 27.4 1.4 11 144-154 258-268 (386)
5 PF07532 Big_4: Bacterial Ig-l 8.0 5.5E+02 0.012 16.8 3.1 22 141-162 14-35 (59)
6 PRK14950 DNA polymerase III su 6.8 2E+03 0.043 20.7 8.1 13 153-165 497-509 (585)
7 smart00237 Calx_beta Domains i 5.6 6.1E+02 0.013 17.9 2.4 22 145-166 55-76 (90)
8 PF00635 Motile_Sperm: MSP (Ma 5.4 6.2E+02 0.014 17.5 2.4 28 144-171 6-36 (109)
9 PF03160 Calx-beta: Calx-beta 5.0 7.4E+02 0.016 17.1 2.5 23 143-165 63-85 (100)
10 PF11497 NADH_Oxid_Nqo15: NADH 4.8 6.5E+02 0.014 20.7 2.4 25 143-167 50-74 (127)
No 1
>KOG0260|consensus
Probab=42.92 E-value=4.8e+02 Score=29.03 Aligned_cols=105 Identities=29% Similarity=0.187 Sum_probs=47.2
Q ss_pred CcccccCCCCCCCCCcccccCCCCcccCCccccccCCcCCCCCcccccCCCCCCCCCCCCccCCCCCCCCCCCCCcCCCC
Q psy9368 35 PQSIVAEPQSIVTEPQSIVAEPQSIVAEPQSIVTELQSIVTEPQSIVAEPQSIVTEPQSIVAEPQSIVTEPQSIVAEPQS 114 (179)
Q Consensus 35 P~siv~EP~SivdEP~Siv~EP~siv~EP~siv~Ep~~v~~EP~av~~EP~av~~EP~a~~~eP~a~~~EP~a~~~EP~a 114 (179)
|.++.=-|+|+.=-|+|+-+-|+|+-=-|+|+-=-|+++.=-|+++-=-|+++.=-|+++.=-|+++.=-|+++.=-|++
T Consensus 1475 ptspsysptspsysptspsysptspsysptspsysptspsysptspsysptspsysptspsysptspsysptspsyspts 1554 (1605)
T KOG0260|consen 1475 PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1554 (1605)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Confidence 33333333333333344444444443344443333334444444444444444444444444444444444444445555
Q ss_pred CCCCCCcCccCCCCCCCCCcceeee
Q psy9368 115 IVTEPQSIVAEPQSIVTEPQSIVVS 139 (179)
Q Consensus 115 ~~~EP~a~~~eP~a~~~EP~~~~~~ 139 (179)
+.=-|+++.=-|+++.=-|+++-.|
T Consensus 1555 psysptsp~ysptspsysptspsys 1579 (1605)
T KOG0260|consen 1555 PSYSPTSPSYSPTSPSYSPTSPSYS 1579 (1605)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCcc
Confidence 5555555555555555555554433
No 2
>KOG0260|consensus
Probab=33.78 E-value=7.1e+02 Score=27.80 Aligned_cols=47 Identities=30% Similarity=0.239 Sum_probs=18.3
Q ss_pred CCCCCccCCCCCCCCCCCCCcCCCCCCCCCCcCccCCCCCCCCCcce
Q psy9368 90 EPQSIVAEPQSIVTEPQSIVAEPQSIVTEPQSIVAEPQSIVTEPQSI 136 (179)
Q Consensus 90 EP~a~~~eP~a~~~EP~a~~~EP~a~~~EP~a~~~eP~a~~~EP~~~ 136 (179)
-|+++.=-|+++.=-|+++.=-|+++.=-|+++.=-|+++.=-|+++
T Consensus 1523 sptspsysptspsysptspsysptspsysptspsysptsp~ysptsp 1569 (1605)
T KOG0260|consen 1523 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSP 1569 (1605)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Confidence 33333333333333333333333333333444444444444344433
No 3
>PF15156 CLN6: Ceroid-lipofuscinosis neuronal protein 6
Probab=10.43 E-value=1.4e+02 Score=27.10 Aligned_cols=24 Identities=46% Similarity=0.656 Sum_probs=16.8
Q ss_pred eeeecccCCce-----EEEEeeccceeeE
Q psy9368 136 IVVSQAKLPRT-----VITFYMGQSTQTF 159 (179)
Q Consensus 136 ~~~~~~~~~~~-----~~~~~~~~~~~~~ 159 (179)
++-|-..|||. +|||-||.|-.-.
T Consensus 75 iERsP~tlprs~~y~~iitfvmGasiHLv 103 (284)
T PF15156_consen 75 IERSPRTLPRSAVYLSIITFVMGASIHLV 103 (284)
T ss_pred HhhCCCCCCcceeEEEEEEEEccCceeEc
Confidence 34455667774 6899999986543
No 4
>KOG4408|consensus
Probab=8.24 E-value=2e+02 Score=27.37 Aligned_cols=11 Identities=55% Similarity=0.896 Sum_probs=8.9
Q ss_pred CceEEEEeecc
Q psy9368 144 PRTVITFYMGQ 154 (179)
Q Consensus 144 ~~~~~~~~~~~ 154 (179)
--||++||||-
T Consensus 258 ~Vtvstfylge 268 (386)
T KOG4408|consen 258 RVTVSTFYLGE 268 (386)
T ss_pred EEEEEEeeecc
Confidence 34899999995
No 5
>PF07532 Big_4: Bacterial Ig-like domain (group 4); InterPro: IPR011081 This entry represents bacterial domains with an Ig-like fold. These domains are found in a variety of bacterial surface proteins.
Probab=8.03 E-value=5.5e+02 Score=16.81 Aligned_cols=22 Identities=32% Similarity=0.513 Sum_probs=18.5
Q ss_pred ccCCceEEEEeeccceeeEEEe
Q psy9368 141 AKLPRTVITFYMGQSTQTFSIS 162 (179)
Q Consensus 141 ~~~~~~~~~~~~~~~~~~~~~~ 162 (179)
.+||.+|.-+|-..|...+.+.
T Consensus 14 ~~LP~~V~v~~~dGs~~~~~V~ 35 (59)
T PF07532_consen 14 PQLPETVTVTYSDGSTEEVPVT 35 (59)
T ss_pred CCCCCEEEEEECCCCEEEEEeE
Confidence 4899999999998888777665
No 6
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=6.78 E-value=2e+03 Score=20.73 Aligned_cols=13 Identities=23% Similarity=0.227 Sum_probs=5.7
Q ss_pred ccceeeEEEeccC
Q psy9368 153 GQSTQTFSISTLS 165 (179)
Q Consensus 153 ~~~~~~~~~~~~~ 165 (179)
|-...+|.+...|
T Consensus 497 ~~~~~~l~l~~~~ 509 (585)
T PRK14950 497 SVEKNTLTLSFKS 509 (585)
T ss_pred eecCCEEEEecCc
Confidence 3333455554433
No 7
>smart00237 Calx_beta Domains in Na-Ca exchangers and integrin-beta4. Domain in Na-Ca exchangers and integrin subunit beta4 (and some cyanobacterial proteins)
Probab=5.58 E-value=6.1e+02 Score=17.89 Aligned_cols=22 Identities=18% Similarity=0.360 Sum_probs=18.5
Q ss_pred ceEEEEeeccceeeEEEeccCC
Q psy9368 145 RTVITFYMGQSTQTFSISTLSP 166 (179)
Q Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~ 166 (179)
...++|--|+..++|+|..+.-
T Consensus 55 ~g~l~F~~ge~~k~i~i~i~dD 76 (90)
T smart00237 55 EGTLTFPPGETEKCIRIKIIDD 76 (90)
T ss_pred ceEEEECCCCEEEEEEEEEeCC
Confidence 5788999999999999986643
No 8
>PF00635 Motile_Sperm: MSP (Major sperm protein) domain; InterPro: IPR000535 Major sperm proteins (MSP) are central components in molecular interactions underlying sperm motility in Caenorhabditis elegans, whose sperm employ an amoebae-like crawling motion using a MSP-containing lamellipod, rather than the flagellar-based swimming motion associated with other sperm. These proteins oligomerise to form an extensive filament system that extends from sperm villipoda, along the leading edge of the pseudopod. About 30 MSP isoforms may exist in C. elegans. MSPs form a fibrous network, whereby MSP dimers form helical subfilaments that coil around one another to produce filaments, which in turn form supercoils to produce bundles. The crystal structure of MSP from C. elegans reveals an immunoglobulin (Ig)-like seven-stranded beta sandwich fold []. ; GO: 0005198 structural molecule activity; PDB: 1MSP_A 3MSP_B 2BVU_B 2MSP_C 1Z9O_F 1Z9L_A 3IKK_A 1WIC_A 2CRI_A 2RR3_A ....
Probab=5.38 E-value=6.2e+02 Score=17.47 Aligned_cols=28 Identities=21% Similarity=0.399 Sum_probs=17.5
Q ss_pred CceEEEEeecc---ceeeEEEeccCCchhhh
Q psy9368 144 PRTVITFYMGQ---STQTFSISTLSPRPILL 171 (179)
Q Consensus 144 ~~~~~~~~~~~---~~~~~~~~~~~~~~~~~ 171 (179)
|...|.|..-. ..+.+.|...+.++|..
T Consensus 6 P~~~i~F~~~~~~~~~~~l~l~N~s~~~i~f 36 (109)
T PF00635_consen 6 PSELIFFNAPFNKQQSCELTLTNPSDKPIAF 36 (109)
T ss_dssp SSSEEEEESSTSS-EEEEEEEEE-SSSEEEE
T ss_pred CCcceEEcCCCCceEEEEEEEECCCCCcEEE
Confidence 55667776633 66777777777776543
No 9
>PF03160 Calx-beta: Calx-beta domain; InterPro: IPR003644 The calx-beta motif is present as a tandem repeat in the cytoplasmic domains of Calx Na-Ca exchangers, which are used to expel calcium from cells. This motif overlaps domains used for calcium binding and regulation. The calx-beta motif is also present in the cytoplasmic tail of mammalian integrin-beta4, which mediates the bi-directional transfer of signals across the plasma membrane, as well as in some cyanobacterial proteins. This motif contains a series of beta-strands and turns that form a self-contained beta-sheet [, ].; GO: 0007154 cell communication, 0016021 integral to membrane; PDB: 3H6A_B 3FSO_A 3FQ4_B 2DPK_A 2QVM_A 3GIN_B 2QVK_A 2FWU_A 2FWS_A 3E9U_A ....
Probab=5.00 E-value=7.4e+02 Score=17.14 Aligned_cols=23 Identities=22% Similarity=0.421 Sum_probs=14.5
Q ss_pred CCceEEEEeeccceeeEEEeccC
Q psy9368 143 LPRTVITFYMGQSTQTFSISTLS 165 (179)
Q Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~ 165 (179)
.-...++|--|+..++|+|..+.
T Consensus 63 ~~~~~v~f~~g~t~~~i~i~i~d 85 (100)
T PF03160_consen 63 PTSGTVTFPPGETSKTINITIID 85 (100)
T ss_dssp --EEEEEE-TT-SEEEEEEEB--
T ss_pred cceeEEEECCCCeEEEEEEEEeC
Confidence 34557899999999999998653
No 10
>PF11497 NADH_Oxid_Nqo15: NADH-quinone oxidoreductase chain 15; InterPro: IPR021093 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This entry represents subunit 15 of NADH-quinone oxidoreductase, also known as Complex I. The nqo15 subunit has probably a role in complex stabilisation, and may be also involved in the storage of iron for iron-sulphur cluster regeneration in the complex [].; PDB: 3M9S_7 3I9V_7 3IAM_H 2FUG_H 3IAS_7 2YBB_7.
Probab=4.85 E-value=6.5e+02 Score=20.71 Aligned_cols=25 Identities=32% Similarity=0.676 Sum_probs=0.0
Q ss_pred CCceEEEEeeccceeeEEEeccCCc
Q psy9368 143 LPRTVITFYMGQSTQTFSISTLSPR 167 (179)
Q Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~ 167 (179)
||-||.+.-..+..|-|-+...|||
T Consensus 50 LPTtvMsvslS~~geP~l~a~vSpr 74 (127)
T PF11497_consen 50 LPTTVMSVSLSDGGEPFLVAAVSPR 74 (127)
T ss_dssp -S-SEEEEEEE-SS-EEEEEEE--T
T ss_pred CCceeEEEEecCCCceEEEEecCcc
Done!