Query psy3878
Match_columns 299
No_of_seqs 66 out of 68
Neff 3.3
Searched_HMMs 46136
Date Fri Aug 16 19:42:14 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3878.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3878hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10699 HAP2-GCS1: Male gamet 27.3 18 0.00039 26.6 -0.3 7 30-36 13-19 (49)
2 PF07744 SPOC: SPOC domain; I 25.7 64 0.0014 25.4 2.5 26 265-290 87-119 (119)
3 COG3088 CcmH Uncharacterized p 23.6 40 0.00087 30.4 1.1 20 264-285 80-99 (153)
4 PF08861 DUF1828: Domain of un 22.6 47 0.001 26.0 1.2 19 260-278 43-61 (90)
5 TIGR03147 cyt_nit_nrfF cytochr 22.0 47 0.001 28.9 1.2 19 265-285 77-95 (126)
6 PF03918 CcmH: Cytochrome C bi 21.6 43 0.00093 29.3 0.9 14 266-279 78-91 (148)
7 PRK10144 formate-dependent nit 20.6 52 0.0011 28.6 1.2 19 265-285 77-95 (126)
8 PF10783 DUF2599: Protein of u 15.7 95 0.0021 25.6 1.6 19 15-33 72-91 (93)
9 TIGR01340 aconitase_mito aconi 14.6 1.1E+02 0.0024 33.5 2.2 42 257-298 106-160 (745)
10 cd01584 AcnA_Mitochondrial Aco 12.4 1.5E+02 0.0032 30.3 2.2 40 258-298 50-103 (412)
No 1
>PF10699 HAP2-GCS1: Male gamete fusion factor; InterPro: IPR018928 The gene encoding Arabidopsis HAP2 is allelic with GCS1 (Generative cell-specific protein 1). HAP2 is expressed only in the haploid sperm and is required for efficient guidance of the pollen tube to the ovules. In Arabidopsis the protein is a predicted membrane protein with an N-terminal secretion signal, a single transmembrane domain and a C-terminal histidine-rich domain []. HAP2-GCS1 is found from plants to lower eukaryotes and is necessary for the fusion of the gametes in fertilisation. It is involved in a novel mechanism for gamete fusion where a first species-specific protein binds male and female gamete membranes together after which a second, broadly conserved protein, either directly or indirectly, causes fusion of the two membranes together. The broadly conserved protein is represented by this HAP2-GCS1 domain, conserved from plants to lower eukaryotes []. In Plasmodium berghei the protein is expressed only in male gametocytes and gametes, having a male-specific function during the interaction with female gametes, and being indispensable for parasite fertilisation. The gene in plants and eukaryotes might well have originated from acquisition of plastids from red algae [].
Probab=27.26 E-value=18 Score=26.59 Aligned_cols=7 Identities=43% Similarity=1.056 Sum_probs=6.0
Q ss_pred HHHhccc
Q psy3878 30 AQCNKLS 36 (299)
Q Consensus 30 AtCNKIg 36 (299)
.+|||||
T Consensus 13 ~eCnKIG 19 (49)
T PF10699_consen 13 LECNKIG 19 (49)
T ss_pred CccCcce
Confidence 3899998
No 2
>PF07744 SPOC: SPOC domain; InterPro: IPR012921 Spen (split end) proteins regulate the expression of key transcriptional effectors in diverse signalling pathways. They are large proteins characterised by N-terminal RNA-binding motifs and a highly conserved C-terminal SPOC (Spen paralog and ortholog C-terminal) domain. The function of the SPOC domain is unknown, but the SPOC domain of the SHARP Spen protein has been implicated in the interaction of SHARP with the SMRT/NcoR corepressor, where SHARP plays an essential role in the repressor complex []. The SPOC domain is folded into a single compact domain consisting of a beta-barrel with seven strands framed by six alpha helices. A number of deep grooves and clefts in the surface, plus two nonpolar loops, render the SPOC domain well suited to protein-protein interactions; most of the conserved residues occur on the protein surface rather than in the core. Other proteins containing a SPOC domain include drosophila Split ends, which promotes sclerite development in the head and restricts it in the thorax, and mouse MINT (homologue of SHARP), which is involved in skeletal and neuronal development via its repression of Msx2.; PDB: 1OW1_A.
Probab=25.65 E-value=64 Score=25.45 Aligned_cols=26 Identities=42% Similarity=0.697 Sum_probs=16.8
Q ss_pred hHhHHHhhh--hcceeEEEe-----eeeeeeec
Q psy3878 265 MKLINYFVS--RYGVYSMTL-----YKTSFVFP 290 (299)
Q Consensus 265 ~~~~~~~~~--~~~~~~~~~-----~~~~~~~~ 290 (299)
-+||+||.+ |+||-...- -|.-++||
T Consensus 87 ~~l~~Yl~~k~r~GVv~~~~~~~~~~~dlYl~P 119 (119)
T PF07744_consen 87 QKLVDYLKSKQRAGVVSVGNSPSGQVKDLYLFP 119 (119)
T ss_dssp HHTHHHHHHHTEEEEEEE--TT--S-EEEEEE-
T ss_pred HHHHHHHhhCCEEEEEecCCCCCCceeEEEEcC
Confidence 469999986 689977664 46666666
No 3
>COG3088 CcmH Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]
Probab=23.55 E-value=40 Score=30.36 Aligned_cols=20 Identities=45% Similarity=0.966 Sum_probs=15.6
Q ss_pred hhHhHHHhhhhcceeEEEeeee
Q psy3878 264 YMKLINYFVSRYGVYSMTLYKT 285 (299)
Q Consensus 264 R~~~~~~~~~~~~~~~~~~~~~ 285 (299)
...+|+|+|.|||-+ .+||-
T Consensus 80 ~~qIid~mVaRYG~F--Vly~P 99 (153)
T COG3088 80 DQQIIDYMVARYGEF--VLYKP 99 (153)
T ss_pred HHHHHHHHHHhhcce--eeecC
Confidence 456899999999975 46664
No 4
>PF08861 DUF1828: Domain of unknown function DUF1828; InterPro: IPR014960 These proteins are functionally uncharacterised.
Probab=22.56 E-value=47 Score=26.03 Aligned_cols=19 Identities=26% Similarity=0.516 Sum_probs=16.8
Q ss_pred cccchhHhHHHhhhhccee
Q psy3878 260 RTRLYMKLINYFVSRYGVY 278 (299)
Q Consensus 260 RS~rR~~~~~~~~~~~~~~ 278 (299)
|+.+|.++|+-.+..|||-
T Consensus 43 ~s~~R~~~l~~il~~~gv~ 61 (90)
T PF08861_consen 43 RSKKRKKILNSILNGFGVE 61 (90)
T ss_pred cchHHHHHHHHHHHHcCcc
Confidence 6679999999999999974
No 5
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=22.04 E-value=47 Score=28.86 Aligned_cols=19 Identities=26% Similarity=0.835 Sum_probs=14.3
Q ss_pred hHhHHHhhhhcceeEEEeeee
Q psy3878 265 MKLINYFVSRYGVYSMTLYKT 285 (299)
Q Consensus 265 ~~~~~~~~~~~~~~~~~~~~~ 285 (299)
-.++.|||.|||-|- ||+.
T Consensus 77 ~eI~~~~v~RYG~~V--ly~P 95 (126)
T TIGR03147 77 QQIIDFMTARFGDFV--LYNP 95 (126)
T ss_pred HHHHHHHHHhcCCeE--EecC
Confidence 357899999999764 5553
No 6
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=21.60 E-value=43 Score=29.30 Aligned_cols=14 Identities=50% Similarity=1.186 Sum_probs=11.4
Q ss_pred HhHHHhhhhcceeE
Q psy3878 266 KLINYFVSRYGVYS 279 (299)
Q Consensus 266 ~~~~~~~~~~~~~~ 279 (299)
.+++|||.|||-+-
T Consensus 78 eI~~~~v~rYG~~V 91 (148)
T PF03918_consen 78 EIIDYFVERYGEFV 91 (148)
T ss_dssp HHHHHHHHHHTTT-
T ss_pred HHHHHHHHhcCcce
Confidence 47899999999764
No 7
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=20.57 E-value=52 Score=28.60 Aligned_cols=19 Identities=26% Similarity=0.749 Sum_probs=14.3
Q ss_pred hHhHHHhhhhcceeEEEeeee
Q psy3878 265 MKLINYFVSRYGVYSMTLYKT 285 (299)
Q Consensus 265 ~~~~~~~~~~~~~~~~~~~~~ 285 (299)
-.++.|||.|||-|- ||+.
T Consensus 77 ~eI~~~~v~RYG~~V--l~~P 95 (126)
T PRK10144 77 VEIIGWMTERYGDFV--RYNP 95 (126)
T ss_pred HHHHHHHHHhcCCeE--EecC
Confidence 357899999999764 5553
No 8
>PF10783 DUF2599: Protein of unknown function (DUF2599); InterPro: IPR019719 The function of the bacterial proteins in this entry is not known.
Probab=15.71 E-value=95 Score=25.58 Aligned_cols=19 Identities=32% Similarity=0.345 Sum_probs=16.3
Q ss_pred cCCC-CCCCCHHHHHHHHHh
Q psy3878 15 TEHP-GLRGTPLAMLAAQCN 33 (299)
Q Consensus 15 ~EeP-rlgsTPLAMLAAtCN 33 (299)
..|| |---.-..|+||-||
T Consensus 72 NLEP~RP~V~~~~~~a~~CN 91 (93)
T PF10783_consen 72 NLEPWRPDVSYEEMVAAGCN 91 (93)
T ss_pred cCCCCCCCCCHHHHHHhcCC
Confidence 4577 777889999999999
No 9
>TIGR01340 aconitase_mito aconitate hydratase, mitochondrial. This model represents mitochondrial forms of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase.
Probab=14.58 E-value=1.1e+02 Score=33.45 Aligned_cols=42 Identities=21% Similarity=0.377 Sum_probs=30.5
Q ss_pred CCCcccchhHhHHHhhhhcceeEEE--------eeeeeeeecCC-----CCCCcC
Q psy3878 257 PTPRTRLYMKLINYFVSRYGVYSMT--------LYKTSFVFPGR-----DSKTCN 298 (299)
Q Consensus 257 pspRS~rR~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~-----~~~~~~ 298 (299)
...|+..|++.+..|..+||+.-.- +---.|++||. ||.||+
T Consensus 106 a~~~N~e~~~~lr~~a~~~gi~~~~~g~GI~Hqv~~E~~a~PG~~ivGtDSHT~t 160 (745)
T TIGR01340 106 AIATNKEVFDFLESAGKKYGIGFWKPGSGIIHQIVLENYAFPGLMMLGTDSHTPN 160 (745)
T ss_pred HhHhHHHHHHHHHHHHHHCCCEEECCCCCeeceEchhhccCCCCeEEccCCCccc
Confidence 4468889999999999999984211 00112888875 999996
No 10
>cd01584 AcnA_Mitochondrial Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Mitochondrial aconitase A catalytic domain. Aconitase (also known as aconitate hydratase and citrate hydro-lyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediary product during the course of the reaction. In eukaryotes two isozymes of aconitase are known to exist: one found in the mitochondrial matrix and the other found in the cytoplasm. This is the mitochondrial form. The mitochondrial product is coded by a nuclear gene. Most members of this subfamily are mitochondrial but there are some bacterial members.
Probab=12.40 E-value=1.5e+02 Score=30.30 Aligned_cols=40 Identities=23% Similarity=0.350 Sum_probs=28.9
Q ss_pred CCcccchhHhHHHhhhhcceeEEEe---------eeeeeeecCC-----CCCCcC
Q psy3878 258 TPRTRLYMKLINYFVSRYGVYSMTL---------YKTSFVFPGR-----DSKTCN 298 (299)
Q Consensus 258 spRS~rR~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~-----~~~~~~ 298 (299)
-.|+..|++.|..|..+||++-... .. .|++||. ||.||.
T Consensus 50 ~~~n~~~~~~~r~~a~~~gi~~~~~g~GI~Hqv~~E-~~~~PG~~ivG~DSHT~t 103 (412)
T cd01584 50 KDINKEVYDFLASAGAKYGIGFWKPGSGIIHQIVLE-NYAFPGLLMIGTDSHTPN 103 (412)
T ss_pred hhhhHHHHHHHHHHHHHcCCeEECCCCCeeceEchh-hccCCCCeEEeccCCCCC
Confidence 3556679999999999999852211 11 2888875 999995
Done!