Query psy9556
Match_columns 62
No_of_seqs 101 out of 714
Neff 6.6
Searched_HMMs 46136
Date Fri Aug 16 22:39:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9556.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9556hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03028 Dynein_heavy: Dynein 99.7 5.3E-19 1.1E-23 128.9 2.2 60 1-60 648-707 (707)
2 PF05166 YcgL: YcgL domain; I 51.8 18 0.0004 20.3 2.4 12 33-44 36-47 (74)
3 COG3100 Uncharacterized protei 50.8 15 0.00033 21.8 2.0 14 19-32 10-23 (103)
4 KOG2925|consensus 46.1 9.2 0.0002 24.5 0.6 24 33-58 45-68 (167)
5 cd05792 S1_eIF1AD_like S1_eIF1 44.4 19 0.00042 20.2 1.7 23 37-59 25-47 (78)
6 PF13995 YebF: YebF-like prote 38.7 68 0.0015 18.6 3.4 38 2-41 44-81 (89)
7 PHA02782 hypothetical protein; 30.5 1.9E+02 0.0042 21.6 5.4 48 1-53 429-485 (503)
8 cd08684 C2A_Tac2-N C2 domain f 28.1 5 0.00011 23.9 -2.5 8 25-32 37-44 (103)
9 PF14709 DND1_DSRM: double str 26.0 96 0.0021 17.1 2.6 33 21-53 17-56 (80)
10 PF14952 zf-tcix: Putative tre 25.8 22 0.00048 18.1 -0.0 11 46-56 2-12 (44)
11 PRK10113 cell division modulat 24.9 27 0.00058 19.6 0.2 13 47-59 34-48 (80)
12 PF10287 DUF2401: Putative TOS 24.4 59 0.0013 22.1 1.8 33 21-53 82-130 (235)
13 PRK13680 hypothetical protein; 24.1 1.8E+02 0.0039 17.7 4.2 39 2-42 70-108 (117)
14 PRK02220 4-oxalocrotonate taut 23.6 59 0.0013 16.3 1.4 13 44-56 45-57 (61)
15 PF14260 zf-C4pol: C4-type zin 23.6 25 0.00054 18.8 -0.1 12 16-27 60-71 (73)
16 PF07351 DUF1480: Protein of u 23.4 42 0.00091 19.2 0.8 10 44-53 69-78 (80)
17 TIGR03488 cas_Cas5p CRISPR-ass 22.9 36 0.00078 22.6 0.5 11 16-26 196-206 (237)
18 PF09888 DUF2115: Uncharacteri 22.9 43 0.00093 21.2 0.8 15 16-30 134-148 (163)
19 COG3506 Uncharacterized conser 21.0 92 0.002 20.4 2.1 24 33-56 54-90 (189)
No 1
>PF03028 Dynein_heavy: Dynein heavy chain and region D6 of dynein motor; InterPro: IPR004273 Dynein is a multisubunit microtubule-dependent motor enzyme that acts as the force generating protein of eukaryotic cilia and flagella. The cytoplasmic isoform of dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein is composed of a number of ATP-binding large subunits, intermediate size subunits and small subunits (see IPR001372 from INTERPRO). This family represents the C-terminal region of dynein heavy chain. The dynein heavy chain also exhibits ATPase activity and microtubule binding ability and acts as a motor for the movement of organelles and vesicles along microtubules. ; GO: 0003777 microtubule motor activity, 0007018 microtubule-based movement, 0030286 dynein complex; PDB: 3VKG_A 3VKH_C 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=99.74 E-value=5.3e-19 Score=128.93 Aligned_cols=60 Identities=42% Similarity=0.873 Sum_probs=42.3
Q ss_pred CceEEEEeeecCCCCCCCeEEeeceeeccCCCcceEEEEEecCCCCCchheeeheeeccc
Q psy9556 1 MPVIYIYAINTTAGKDPKLYECPIYRKPQRTDLKYVGSIDFETDNNPRHWTLRGVALLCD 60 (62)
Q Consensus 1 ~Pvi~~~p~~~~~~~~~~~Y~cPvY~t~~R~~~~~v~~~~L~t~~~p~~Wi~rGvAll~~ 60 (62)
||++|++|++.......+.|+||||+|+.|+++|||++++||+++++++||+|||||+||
T Consensus 648 ~pv~~~~~~~~~~~~~~~~y~~PvY~~~~R~~~~~v~~l~l~~~~~~~~Wi~rGvAl~lq 707 (707)
T PF03028_consen 648 MPVIWLKPVQASPQSSDNSYECPVYKTSSREGLNFVFSLPLPTDEDPDHWILRGVALLLQ 707 (707)
T ss_dssp EEEE-EE-----TTCGGCSEEEEEESSTT--S--EEEEEEE-B-T-HHHHHTTT-EEES-
T ss_pred CceeEeccccccccCCCCEEECCceecCcCCCCeEEEEEEcCCCCCHHHHHHHhHHHhcC
Confidence 699999999875566778999999999999999999999999999999999999999997
No 2
>PF05166 YcgL: YcgL domain; InterPro: IPR007840 This family of proteins formerly called DUF709 includes the Escherichia coli gene ycgL. Homologues of YcgL are found in gammaproteobacteria. The structure of this protein shows a novel alpha/beta/alpha sandwich structure []. The proteins in this entry are functionally uncharacterised.; PDB: 2H7A_A.
Probab=51.81 E-value=18 Score=20.25 Aligned_cols=12 Identities=8% Similarity=0.393 Sum_probs=7.2
Q ss_pred cceEEEEEecCC
Q psy9556 33 LKYVGSIDFETD 44 (62)
Q Consensus 33 ~~~v~~~~L~t~ 44 (62)
..||+.++|..+
T Consensus 36 p~~vm~l~L~~~ 47 (74)
T PF05166_consen 36 PQFVMELNLTPE 47 (74)
T ss_dssp EEEEEEE-SSS-
T ss_pred CeEEEEecCCCC
Confidence 368888887654
No 3
>COG3100 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=50.82 E-value=15 Score=21.82 Aligned_cols=14 Identities=29% Similarity=0.790 Sum_probs=11.1
Q ss_pred eEEeeceeeccCCC
Q psy9556 19 LYECPIYRKPQRTD 32 (62)
Q Consensus 19 ~Y~cPvY~t~~R~~ 32 (62)
.--|-+|+.+.|.|
T Consensus 10 ~mlCaIYkS~kk~~ 23 (103)
T COG3100 10 SMLCAIYKSPKKDG 23 (103)
T ss_pred eeeeeeeecCcCCc
Confidence 35699999998875
No 4
>KOG2925|consensus
Probab=46.14 E-value=9.2 Score=24.54 Aligned_cols=24 Identities=17% Similarity=0.243 Sum_probs=17.4
Q ss_pred cceEEEEEecCCCCCchheeeheeec
Q psy9556 33 LKYVGSIDFETDNNPRHWTLRGVALL 58 (62)
Q Consensus 33 ~~~v~~~~L~t~~~p~~Wi~rGvAll 58 (62)
-+|+.+ +|++-..+.||.||--++
T Consensus 45 q~~lvs--mP~KfRksiWiRRg~Fvv 68 (167)
T KOG2925|consen 45 QNSLVS--MPAKFRKSIWIRRGSFVV 68 (167)
T ss_pred ceeeee--CCHhhhhceEEeeCCEEE
Confidence 456554 788878889999986544
No 5
>cd05792 S1_eIF1AD_like S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors.
Probab=44.43 E-value=19 Score=20.24 Aligned_cols=23 Identities=22% Similarity=0.287 Sum_probs=17.9
Q ss_pred EEEEecCCCCCchheeeheeecc
Q psy9556 37 GSIDFETDNNPRHWTLRGVALLC 59 (62)
Q Consensus 37 ~~~~L~t~~~p~~Wi~rGvAll~ 59 (62)
+.+.||+.-....||+||--.+.
T Consensus 25 ~l~~iP~KfRk~iWIkrGd~VlV 47 (78)
T cd05792 25 YLVSMPTKFRKNIWIKRGDFVLV 47 (78)
T ss_pred EEEEechhhcccEEEEeCCEEEE
Confidence 44668888888999999876654
No 6
>PF13995 YebF: YebF-like protein; PDB: 2LQV_A 2XGL_A 4AEQ_A.
Probab=38.72 E-value=68 Score=18.61 Aligned_cols=38 Identities=24% Similarity=0.427 Sum_probs=23.8
Q ss_pred ceEEEEeeecCCCCCCCeEEeeceeeccCCCcceEEEEEe
Q psy9556 2 PVIYIYAINTTAGKDPKLYECPIYRKPQRTDLKYVGSIDF 41 (62)
Q Consensus 2 Pvi~~~p~~~~~~~~~~~Y~cPvY~t~~R~~~~~v~~~~L 41 (62)
||++|.+... ....+.|.-|+=....+++..|...++-
T Consensus 44 PV~wvn~~~i--~~~~~~~~VpltvrG~k~d~~Y~v~vdC 81 (89)
T PF13995_consen 44 PVAWVNANDI--TGDDDTYQVPLTVRGPKGDKHYQVMVDC 81 (89)
T ss_dssp -EEE--GGG---CCCTTEEEEEEEECSSS-EEEEEEEEET
T ss_pred CeEEEccccc--cccCCeEEEEEEEEcCCCcEEEEEEEEc
Confidence 8888887554 3567899999877666666677766654
No 7
>PHA02782 hypothetical protein; Provisional
Probab=30.51 E-value=1.9e+02 Score=21.65 Aligned_cols=48 Identities=19% Similarity=0.427 Sum_probs=29.9
Q ss_pred CceEEEEeeecCCCCCCCeEEeeceeeccCCC---cceEEEEEecC------CCCCchheee
Q psy9556 1 MPVIYIYAINTTAGKDPKLYECPIYRKPQRTD---LKYVGSIDFET------DNNPRHWTLR 53 (62)
Q Consensus 1 ~Pvi~~~p~~~~~~~~~~~Y~cPvY~t~~R~~---~~~v~~~~L~t------~~~p~~Wi~r 53 (62)
|||.||.- ++ .+=.|.|=+-.--+.+. -.||..++... .+.|+-|+.+
T Consensus 429 LPV~HFC~-eK----~kIkYt~KfieVy~~G~l~~~GYVCaIKVErFCCAVFAe~PeSW~Vk 485 (503)
T PHA02782 429 LRVVHFCE-KK----EDIKYACRFIKVYKPGEETTSTYVCAIKVERCCCAVFADWPESWYMD 485 (503)
T ss_pred CCeeEeec-cC----CccceEEEEEEEecCCcccceeEEEEEEecceeEEEEcCCCceeEEc
Confidence 79999973 21 22347775444333332 25888888763 5678889876
No 8
>cd08684 C2A_Tac2-N C2 domain first repeat found in Tac2-N (Tandem C2 protein in Nucleus). Tac2-N contains two C2 domains and a short C-terminus including a WHXL motif, which are key in stabilizing transport vesicles to the plasma membrane by binding to a plasma membrane. However unlike the usual carboxyl-terminal-type (C-type) tandem C2 proteins, it lacks a transmembrane domain, a Slp-homology domain, and a Munc13-1-interacting domain. Homology search analysis indicate that no known protein motifs are located in its N-terminus, making Tac2-N a novel class of Ca2+-independent, C-type tandem C2 proteins. The C2 domain was first identified in PKC. C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arrangements: Type I and Type II, distinguished by a circular permutation involving their N- and C-terminal beta strands. Many C2 domains are Ca2+-dependent membrane-targeting modules that bind a wide variety of substances including bind phospholipids, inositol polyphos
Probab=28.06 E-value=5 Score=23.85 Aligned_cols=8 Identities=0% Similarity=0.451 Sum_probs=6.2
Q ss_pred eeeccCCC
Q psy9556 25 YRKPQRTD 32 (62)
Q Consensus 25 Y~t~~R~~ 32 (62)
+||+.|+|
T Consensus 37 ~KsS~rrg 44 (103)
T cd08684 37 FKSSAKEG 44 (103)
T ss_pred ccchhhcC
Confidence 57888887
No 9
>PF14709 DND1_DSRM: double strand RNA binding domain from DEAD END PROTEIN 1
Probab=26.00 E-value=96 Score=17.07 Aligned_cols=33 Identities=9% Similarity=0.089 Sum_probs=22.2
Q ss_pred EeeceeeccCCC----cceEEEEEecCCCCC---chheee
Q psy9556 21 ECPIYRKPQRTD----LKYVGSIDFETDNNP---RHWTLR 53 (62)
Q Consensus 21 ~cPvY~t~~R~~----~~~v~~~~L~t~~~p---~~Wi~r 53 (62)
.-|+|......| ..|++.|.+|....+ ..|+.-
T Consensus 17 ~~P~y~l~~~~Gp~~~~~F~ykV~i~~~~~~~~~~~~~~~ 56 (80)
T PF14709_consen 17 GPPVYELVSESGPDHRKLFLYKVVIPGLEYPFEGSIECFG 56 (80)
T ss_pred CCCeEEEEeccCCCccEEEEEEEEEcCCCCCCcceEEEcc
Confidence 457888765555 469999999987654 345543
No 10
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=25.79 E-value=22 Score=18.14 Aligned_cols=11 Identities=36% Similarity=0.450 Sum_probs=7.8
Q ss_pred CCchheeehee
Q psy9556 46 NPRHWTLRGVA 56 (62)
Q Consensus 46 ~p~~Wi~rGvA 56 (62)
...+|++||+-
T Consensus 2 ~l~k~TlRGir 12 (44)
T PF14952_consen 2 DLGKPTLRGIR 12 (44)
T ss_pred CcchhhHhccc
Confidence 35678888863
No 11
>PRK10113 cell division modulator; Provisional
Probab=24.90 E-value=27 Score=19.63 Aligned_cols=13 Identities=46% Similarity=0.866 Sum_probs=8.9
Q ss_pred Cchheeeh--eeecc
Q psy9556 47 PRHWTLRG--VALLC 59 (62)
Q Consensus 47 p~~Wi~rG--vAll~ 59 (62)
.+-|++|| ||.++
T Consensus 34 rDVW~LrGKYVAFvl 48 (80)
T PRK10113 34 RDVWMLRGKYVAFVL 48 (80)
T ss_pred hhhheeccceEEEEE
Confidence 45699998 55544
No 12
>PF10287 DUF2401: Putative TOS1-like glycosyl hydrolase (DUF2401); InterPro: IPR018805 This entry represents a family of proteins conserved primarily in fungi. One member is annotated putatively as OPEL, a house-keeping protein, but this could not be confirmed. It contains 5 highly conserved cysteines two of which form a characteristic CGC sequence motif.
Probab=24.39 E-value=59 Score=22.05 Aligned_cols=33 Identities=21% Similarity=0.552 Sum_probs=22.6
Q ss_pred Eeeceee--ccCCC-----cceEEEEEecCC---------CCCchheee
Q psy9556 21 ECPIYRK--PQRTD-----LKYVGSIDFETD---------NNPRHWTLR 53 (62)
Q Consensus 21 ~cPvY~t--~~R~~-----~~~v~~~~L~t~---------~~p~~Wi~r 53 (62)
.|.+|+. +...| .-|+|.+.+|+. +-|..|+|-
T Consensus 82 ~CG~yR~g~~AyhGf~G~~K~Flfef~MP~~~~~~~~~~~DmPAIWlLN 130 (235)
T PF10287_consen 82 DCGYYRPGIPAYHGFGGTTKMFLFEFSMPHETDGGSGFNYDMPAIWLLN 130 (235)
T ss_pred CcccCcCCchhhccCCCCceEEEEEEECCCCcCCCCCCCCCcChhHhcc
Confidence 7888874 33333 359999999983 236789773
No 13
>PRK13680 hypothetical protein; Provisional
Probab=24.08 E-value=1.8e+02 Score=17.74 Aligned_cols=39 Identities=15% Similarity=0.389 Sum_probs=27.6
Q ss_pred ceEEEEeeecCCCCCCCeEEeeceeeccCCCcceEEEEEec
Q psy9556 2 PVIYIYAINTTAGKDPKLYECPIYRKPQRTDLKYVGSIDFE 42 (62)
Q Consensus 2 Pvi~~~p~~~~~~~~~~~Y~cPvY~t~~R~~~~~v~~~~L~ 42 (62)
||+||.+... ....+.|+-|+=....+++..|-..++-.
T Consensus 70 PVaWin~~~i--tg~~~~~~VPltVRG~k~d~~Y~V~vdC~ 108 (117)
T PRK13680 70 PVAWVNVQDI--TGKDDKWQVPLTVRGKSADIHYQVVVDCK 108 (117)
T ss_pred CeEEEccccc--ccccceEEEEEEEecccCceEEEEEEEcc
Confidence 7888887544 34667899999887777776676555543
No 14
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=23.59 E-value=59 Score=16.29 Aligned_cols=13 Identities=15% Similarity=0.434 Sum_probs=9.9
Q ss_pred CCCCchheeehee
Q psy9556 44 DNNPRHWTLRGVA 56 (62)
Q Consensus 44 ~~~p~~Wi~rGvA 56 (62)
+.++++|-..|.-
T Consensus 45 e~~~~~~~~gG~~ 57 (61)
T PRK02220 45 EMSKNHYAVGGKR 57 (61)
T ss_pred EeChhHeEECCEE
Confidence 5677889988864
No 15
>PF14260 zf-C4pol: C4-type zinc-finger of DNA polymerase delta
Probab=23.55 E-value=25 Score=18.75 Aligned_cols=12 Identities=17% Similarity=0.761 Sum_probs=8.9
Q ss_pred CCCeEEeeceee
Q psy9556 16 DPKLYECPIYRK 27 (62)
Q Consensus 16 ~~~~Y~cPvY~t 27 (62)
.-..++||||..
T Consensus 60 ~C~s~DCpV~Y~ 71 (73)
T PF14260_consen 60 ECDSLDCPVFYE 71 (73)
T ss_pred cccCCCCCccee
Confidence 345689999975
No 16
>PF07351 DUF1480: Protein of unknown function (DUF1480); InterPro: IPR009950 This family consists of several hypothetical Enterobacterial proteins of around 80 residues in length. The function of this family is unknown.
Probab=23.36 E-value=42 Score=19.16 Aligned_cols=10 Identities=30% Similarity=0.886 Sum_probs=7.4
Q ss_pred CCCCchheee
Q psy9556 44 DNNPRHWTLR 53 (62)
Q Consensus 44 ~~~p~~Wi~r 53 (62)
++..++||+|
T Consensus 69 D~q~d~Wvmr 78 (80)
T PF07351_consen 69 DKQQDAWVMR 78 (80)
T ss_pred cccCceeEEE
Confidence 4556789987
No 17
>TIGR03488 cas_Cas5p CRISPR-associated protein, Cas5p family. CC Members of this protein family are cas, or CRISPR-associated, proteins. The two sequences in the alignment seed are found within cas gene clusters that are adjacent to CRISPR DNA repeats in two members of the order Bacteroidales, Porphyromonas gingivalis W83 and Bacteroides forsythus ATCC 43037. This cas protein family is unique to the Pgingi (Porphyromonas gingivalis) subtype, but shows some sequence similarity to genes of the Cas5 type (see TIGR02593).
Probab=22.93 E-value=36 Score=22.56 Aligned_cols=11 Identities=45% Similarity=0.655 Sum_probs=5.8
Q ss_pred CCCeEEeecee
Q psy9556 16 DPKLYECPIYR 26 (62)
Q Consensus 16 ~~~~Y~cPvY~ 26 (62)
-.+-|+||+-.
T Consensus 196 ~~g~y~~~i~m 206 (237)
T TIGR03488 196 FEGNYECPIKM 206 (237)
T ss_pred eccceEeeEec
Confidence 34556666543
No 18
>PF09888 DUF2115: Uncharacterized protein conserved in archaea (DUF2115); InterPro: IPR019215 This entry represents various hypothetical archaeal proteins, has no known function.
Probab=22.89 E-value=43 Score=21.19 Aligned_cols=15 Identities=27% Similarity=0.547 Sum_probs=10.7
Q ss_pred CCCeEEeeceeeccC
Q psy9556 16 DPKLYECPIYRKPQR 30 (62)
Q Consensus 16 ~~~~Y~cPvY~t~~R 30 (62)
..+.|.|||=-.+..
T Consensus 134 ~~g~YYCPVKdkq~d 148 (163)
T PF09888_consen 134 KNGNYYCPVKDKQKD 148 (163)
T ss_pred ECCEEeCccchhhcC
Confidence 467999998665544
No 19
>COG3506 Uncharacterized conserved protein [Function unknown]
Probab=20.97 E-value=92 Score=20.40 Aligned_cols=24 Identities=13% Similarity=0.466 Sum_probs=17.2
Q ss_pred cceEEEEEecC-------------CCCCchheeehee
Q psy9556 33 LKYVGSIDFET-------------DNNPRHWTLRGVA 56 (62)
Q Consensus 33 ~~~v~~~~L~t-------------~~~p~~Wi~rGvA 56 (62)
.+|.+++++.- ..+..|||+.|.-
T Consensus 54 ~dFta~vkV~g~Y~~LyDQaGlmirlde~hWiKagIE 90 (189)
T COG3506 54 GDFTATVKVKGAYKQLYDQAGLMIRLDEQHWIKAGIE 90 (189)
T ss_pred CCeEEEEEEEeeHHHHHhhcCeEEEEccCCeeEeeeE
Confidence 57888888764 2346899998753
Done!