Query psy5147
Match_columns 158
No_of_seqs 54 out of 56
Neff 2.9
Searched_HMMs 46136
Date Fri Aug 16 18:30:19 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5147.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5147hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3813|consensus 100.0 7.1E-59 1.5E-63 424.2 9.0 134 15-150 246-379 (640)
2 PF05033 Pre-SET: Pre-SET moti 86.8 0.5 1.1E-05 33.5 2.0 19 80-98 48-67 (103)
3 smart00468 PreSET N-terminal t 86.4 0.35 7.5E-06 34.5 1.1 24 75-98 46-70 (98)
4 PF03638 TCR: Tesmin/TSO1-like 83.4 0.76 1.7E-05 30.2 1.6 39 76-121 1-40 (42)
5 KOG1171|consensus 68.1 2 4.3E-05 39.7 0.5 48 73-127 212-260 (406)
6 PF13167 GTP-bdg_N: GTP-bindin 51.2 13 0.00028 27.7 2.2 35 32-66 55-89 (95)
7 smart00417 H4 Histone H4. 45.7 36 0.00079 24.5 3.7 27 44-70 14-40 (74)
8 cd00076 H4 Histone H4, one of 43.4 26 0.00056 25.8 2.7 27 44-70 14-40 (85)
9 PTZ00015 histone H4; Provision 40.7 30 0.00066 26.4 2.8 27 44-70 31-57 (102)
10 PLN00035 histone H4; Provision 39.8 32 0.00069 26.4 2.8 28 44-71 30-57 (103)
11 COG0233 Frr Ribosome recycling 35.2 33 0.00072 28.9 2.5 56 17-74 79-135 (187)
12 PF12010 DUF3502: Domain of un 33.4 32 0.00069 26.2 1.9 28 48-75 105-132 (134)
13 KOG1079|consensus 32.6 20 0.00044 35.7 0.9 25 80-104 541-565 (739)
14 KOG2044|consensus 30.4 24 0.00051 36.0 1.0 74 1-82 55-145 (931)
15 PF03206 NifW: Nitrogen fixati 27.1 54 0.0012 25.0 2.2 20 124-143 23-42 (105)
16 PRK14102 nifW nitrogenase stab 26.2 48 0.001 25.6 1.8 21 124-144 23-43 (105)
17 PRK00810 nifW nitrogenase stab 26.2 60 0.0013 25.2 2.4 21 124-144 27-47 (113)
18 PF03128 CXCXC: CXCXC repeat; 23.1 37 0.0008 17.5 0.5 7 88-94 5-11 (14)
19 PF01765 RRF: Ribosome recycli 22.2 90 0.002 24.5 2.7 50 22-75 64-116 (165)
20 smart00576 BTP Bromodomain tra 21.6 1.1E+02 0.0024 21.2 2.8 21 51-71 14-34 (77)
21 PF09350 DUF1992: Domain of un 20.9 1.4E+02 0.0029 21.0 3.1 34 25-60 19-52 (71)
22 PF09494 Slx4: Slx4 endonuclea 20.9 1.8E+02 0.0039 19.6 3.7 34 39-72 20-53 (64)
23 cd00520 RRF Ribosome recycling 20.1 1.3E+02 0.0028 24.3 3.3 51 22-74 78-129 (179)
No 1
>KOG3813|consensus
Probab=100.00 E-value=7.1e-59 Score=424.18 Aligned_cols=134 Identities=50% Similarity=0.969 Sum_probs=120.9
Q ss_pred CCcccccccccCCCCCCCcccCccccccCCCHHHHHHHHHHcCCcccChhhHHHHHHHHhhcccccCCCCCcccCCCccc
Q psy5147 15 SNAFDRDVYTSGIGPVPALQCGVAVDLRPVKIRQRRAMLRAAGVDKIDPTEKNQCKQIRISREFCGCACEGYCDPEICAC 94 (158)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~e~d~~~flqPv~~k~RraLLrasGVk~Id~~Ek~el~~iR~SRe~CGC~C~g~C~PeTC~C 94 (158)
+...+.|+...+.+| +.+.....+|||||+|+||||||||||+|||++||.+|++||.|||+|||+|++||+||||+|
T Consensus 246 ~ev~e~d~~~~~~~d--d~~da~~v~Lqpip~rrRraLLkaSGVrkIDaeEK~elralRnSReeCGCsCr~~CdPETCaC 323 (640)
T KOG3813|consen 246 GEVIEPDSDEDRDYD--DYADASNVSLQPIPQRRRRALLKASGVRKIDAEEKDELRALRNSREECGCSCRGVCDPETCAC 323 (640)
T ss_pred cCccCccccCCCchh--hhhhhhccccCCCCHHHHHHHHHhccccccchhhHHHHHHHHhhHHhhCCcccceeChhhcch
Confidence 344455555544443 444445688999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCcccccCCCCCCcccccCccCCCCCccccChHHHHHHHHHHHHHhhccccCCc
Q psy5147 95 ALAGIKCQVDRQNFPCGCSRDCCANPKGRIEFNPVRVHSHYIQTIMRMKAQKKDDD 150 (158)
Q Consensus 95 s~aGIkCQVDr~~FPCgCt~~~C~Np~GR~EFn~~rVrtH~~~TlmRL~~e~~~~~ 150 (158)
|+|||||||||+.|||||++++|+||.||+||||+|||||||||||||+||++.+.
T Consensus 324 SqaGIkCQvDr~~fPCgC~rEgCgNp~GRveFNp~rVrthyihTimrl~lEQk~gs 379 (640)
T KOG3813|consen 324 SQAGIKCQVDRGEFPCGCFREGCGNPEGRVEFNPERVRTHYIHTIMRLRLEQKTGS 379 (640)
T ss_pred hccCceEeecCcccccccchhhcCCCccceecCHHHHHHHHHHHHHHhhhhhhhcc
Confidence 99999999999999999999999999999999999999999999999999998764
No 2
>PF05033 Pre-SET: Pre-SET motif; InterPro: IPR007728 This region is found in a number of histone lysine methyltransferases (HMTase), N-terminal to the SET domain; it is generally described as the pre-SET domain. Histone lysine methylation is part of the histone code that regulated chromatin function and epigenetic control of gene function. Histone lysine methyltransferases (HMTase) differ both in their substrate specificity for the various acceptor lysines as well as in their product specificity for the number of methyl groups (one, two, or three) they transfer. With just one exception [], the HMTases belong to SET family that can be classified according to the sequences surrounding the SET domain [, ]. Structural studies on the human SET7/9, a mono-methylase, have revealed the molecular basis for the specificity of the enzyme for the histone-target and the roles of the invariant residues in the SET domain in determining the methylation specificities []. The pre-SET domain, as found in the SUV39 SET family, contains nine invariant cysteine residues that are grouped into two segments separated by a region of variable length. These 9 cysteines coordinate 3 zinc ions to form a triangular cluster, where each of the zinc ions is coordinated by 4 four cysteines to give a tetrahedral configuration. The function of this domain is structural, holding together 2 long segments of random coils and stabilising the SET domain. The C-terminal region including the post-SET domain is disordered when not interacting with a histone tail and in the absence of zinc. The three conserved cysteines in the post-SET domain form a zinc-binding site [] when coupled to a fourth conserved cysteine in the knot-like structure close to the SET domain active site []. The structured post-SET region brings in the C-terminal residues that participate in S-adenosylmethine-binding and histone tail interactions. The three conserved cysteine residues are essential for HMTase activity, as replacement with serine abolishes HMTase activity []. ; GO: 0008270 zinc ion binding, 0018024 histone-lysine N-methyltransferase activity, 0034968 histone lysine methylation, 0005634 nucleus; PDB: 3K5K_A 2O8J_D 3RJW_B 1ML9_A 1PEG_B 1MVH_A 1MVX_A 3BO5_A 2RFI_B 3MO5_B ....
Probab=86.75 E-value=0.5 Score=33.52 Aligned_cols=19 Identities=42% Similarity=1.261 Sum_probs=13.5
Q ss_pred cCCCCCcc-cCCCcccccCC
Q psy5147 80 GCACEGYC-DPEICACALAG 98 (158)
Q Consensus 80 GC~C~g~C-~PeTC~Cs~aG 98 (158)
||+|.+.| ++..|+|....
T Consensus 48 ~C~C~~~C~~~~~C~C~~~~ 67 (103)
T PF05033_consen 48 GCDCSGDCSNPSNCECLQRN 67 (103)
T ss_dssp ----SSSSTCTTTSHHHCCT
T ss_pred cCccCCCCCCCCCCcCcccc
Confidence 99999999 99999998766
No 3
>smart00468 PreSET N-terminal to some SET domains. A Cys-rich putative Zn2+-binding domain that occurs N-terminal to some SET domains. Function is unknown. Unpublished.
Probab=86.36 E-value=0.35 Score=34.51 Aligned_cols=24 Identities=33% Similarity=0.963 Sum_probs=20.0
Q ss_pred hcccccCCCCCcccCCC-cccccCC
Q psy5147 75 SREFCGCACEGYCDPEI-CACALAG 98 (158)
Q Consensus 75 SRe~CGC~C~g~C~PeT-C~Cs~aG 98 (158)
..-.-||+|.+.|.+.+ |+|.+..
T Consensus 46 ~~~~~gC~C~~~C~~~~~C~C~~~~ 70 (98)
T smart00468 46 PSPLVGCSCSGDCSSSNKCECARKN 70 (98)
T ss_pred CCCCCCCcCCCCCCCCCcCCcHhhc
Confidence 33567999999999999 9998754
No 4
>PF03638 TCR: Tesmin/TSO1-like CXC domain, cysteine-rich domain; InterPro: IPR005172 This entry includes proteins that have two copies of a cysteine rich motif as follows: C-X-C-X4-C-X3-YC-X-C-X6-C-X3-C-X-C-X2-C. The family includes Tesmin Q9Y4I5 from SWISSPROT [] and TSO1 Q9LE32 from SWISSPROT []. This group of proteins is called a CXC domain in [].
Probab=83.40 E-value=0.76 Score=30.20 Aligned_cols=39 Identities=33% Similarity=0.867 Sum_probs=32.3
Q ss_pred cccccCCCC-CcccCCCcccccCCcccccCCCCCCcccccCccCCCC
Q psy5147 76 REFCGCACE-GYCDPEICACALAGIKCQVDRQNFPCGCSRDCCANPK 121 (158)
Q Consensus 76 Re~CGC~C~-g~C~PeTC~Cs~aGIkCQVDr~~FPCgCt~~~C~Np~ 121 (158)
|+.-||.|+ ..|.---|+|..+|+.|-.. |.| .+|.|..
T Consensus 1 ~~~~gC~Ckks~Clk~YC~Cf~~g~~C~~~-----C~C--~~C~N~~ 40 (42)
T PF03638_consen 1 KKKKGCNCKKSKCLKLYCECFQAGRFCTPN-----CKC--QNCKNTE 40 (42)
T ss_pred CCCCCCcccCcChhhhhCHHHHCcCcCCCC-----ccc--CCCCCcC
Confidence 356799997 79999999999999999753 777 6888864
No 5
>KOG1171|consensus
Probab=68.14 E-value=2 Score=39.70 Aligned_cols=48 Identities=31% Similarity=0.746 Sum_probs=38.4
Q ss_pred HhhcccccCCCCC-cccCCCcccccCCcccccCCCCCCcccccCccCCCCCccccC
Q psy5147 73 RISREFCGCACEG-YCDPEICACALAGIKCQVDRQNFPCGCSRDCCANPKGRIEFN 127 (158)
Q Consensus 73 R~SRe~CGC~C~g-~C~PeTC~Cs~aGIkCQVDr~~FPCgCt~~~C~Np~GR~EFn 127 (158)
-..|-.=||+|+. -|.+--|+|.++||.|-.- |-| .+|-|-+|+.+-.
T Consensus 212 ~sa~hkkGC~CkkSgClKkYCECyQa~vlCS~n-----CkC--~~CkN~~g~~~s~ 260 (406)
T KOG1171|consen 212 ASARHKKGCNCKKSGCLKKYCECYQAGVLCSSN-----CKC--QGCKNNFGYKDSK 260 (406)
T ss_pred hhhhhcCCCCCccccchHHHHHHHhcCCCcccc-----ccC--cCCccchhhcccc
Confidence 3355667999985 9999999999999999654 444 6999988887654
No 6
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=51.20 E-value=13 Score=27.70 Aligned_cols=35 Identities=29% Similarity=0.310 Sum_probs=29.9
Q ss_pred CcccCccccccCCCHHHHHHHHHHcCCcccChhhH
Q psy5147 32 ALQCGVAVDLRPVKIRQRRAMLRAAGVDKIDPTEK 66 (158)
Q Consensus 32 ~~e~d~~~flqPv~~k~RraLLrasGVk~Id~~Ek 66 (158)
+.+.|--.|-.+|++.|.|-|-++-||+.||+.+.
T Consensus 55 ~~~~d~vvfd~~Lsp~Q~rNLe~~~~~~V~DRt~L 89 (95)
T PF13167_consen 55 ELDADLVVFDNELSPSQQRNLEKALGVKVIDRTQL 89 (95)
T ss_pred hcCCCEEEECCCCCHHHHHHHHHHHCCeeeccccH
Confidence 35666677889999999999999999999999653
No 7
>smart00417 H4 Histone H4.
Probab=45.69 E-value=36 Score=24.52 Aligned_cols=27 Identities=19% Similarity=0.298 Sum_probs=19.1
Q ss_pred CCHHHHHHHHHHcCCcccChhhHHHHH
Q psy5147 44 VKIRQRRAMLRAAGVDKIDPTEKNQCK 70 (158)
Q Consensus 44 v~~k~RraLLrasGVk~Id~~Ek~el~ 70 (158)
||---=+.|+|.+||++|..+-..++.
T Consensus 14 I~k~~IrRLaRr~GvkRIS~~~y~elr 40 (74)
T smart00417 14 ITKPAIRRLARRGGVKRISGLIYDETR 40 (74)
T ss_pred CCHHHHHHHHHHcCcchhhHHHHHHHH
Confidence 444445668999999999976555443
No 8
>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution
Probab=43.40 E-value=26 Score=25.80 Aligned_cols=27 Identities=19% Similarity=0.316 Sum_probs=19.2
Q ss_pred CCHHHHHHHHHHcCCcccChhhHHHHH
Q psy5147 44 VKIRQRRAMLRAAGVDKIDPTEKNQCK 70 (158)
Q Consensus 44 v~~k~RraLLrasGVk~Id~~Ek~el~ 70 (158)
||---=+.|+|.+||++|..+-..++.
T Consensus 14 i~k~~I~RLarr~GvkRIS~d~y~e~~ 40 (85)
T cd00076 14 ITKPAIRRLARRGGVKRISGGVYDEVR 40 (85)
T ss_pred CCHHHHHHHHHHcCcchhhHHHHHHHH
Confidence 444445678999999999976555543
No 9
>PTZ00015 histone H4; Provisional
Probab=40.69 E-value=30 Score=26.40 Aligned_cols=27 Identities=19% Similarity=0.303 Sum_probs=19.6
Q ss_pred CCHHHHHHHHHHcCCcccChhhHHHHH
Q psy5147 44 VKIRQRRAMLRAAGVDKIDPTEKNQCK 70 (158)
Q Consensus 44 v~~k~RraLLrasGVk~Id~~Ek~el~ 70 (158)
||---=+.|+|.+||++|..+-..++.
T Consensus 31 I~k~~IrRLarr~GvkRIS~d~y~e~r 57 (102)
T PTZ00015 31 ITKGAIRRLARRGGVKRISGDIYEEVR 57 (102)
T ss_pred CCHHHHHHHHHHcCCccchHHHHHHHH
Confidence 444455678899999999987655553
No 10
>PLN00035 histone H4; Provisional
Probab=39.82 E-value=32 Score=26.42 Aligned_cols=28 Identities=18% Similarity=0.260 Sum_probs=20.3
Q ss_pred CCHHHHHHHHHHcCCcccChhhHHHHHH
Q psy5147 44 VKIRQRRAMLRAAGVDKIDPTEKNQCKQ 71 (158)
Q Consensus 44 v~~k~RraLLrasGVk~Id~~Ek~el~~ 71 (158)
||.--=+.|+|.+||++|..+-..++..
T Consensus 30 ipk~~IrRLARr~GvkRIS~~ay~elr~ 57 (103)
T PLN00035 30 ITKPAIRRLARRGGVKRISGLIYEETRG 57 (103)
T ss_pred CCHHHHHHHHHHcCcccchHHHHHHHHH
Confidence 4444456688999999999876665543
No 11
>COG0233 Frr Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=35.24 E-value=33 Score=28.89 Aligned_cols=56 Identities=23% Similarity=0.387 Sum_probs=37.3
Q ss_pred cccccccccCCCCCCCcccCccc-cccCCCHHHHHHHHHHcCCcccChhhHHHHHHHHh
Q psy5147 17 AFDRDVYTSGIGPVPALQCGVAV-DLRPVKIRQRRAMLRAAGVDKIDPTEKNQCKQIRI 74 (158)
Q Consensus 17 ~~~~~~~~~~~~~~~~~e~d~~~-flqPv~~k~RraLLrasGVk~Id~~Ek~el~~iR~ 74 (158)
+-+.-.+.|+.|=.+..+-.... .|.|++..+|+.|.|.+ +++-.+.|-++++||.
T Consensus 79 ~IekaI~~snLglnP~~dG~~IRv~~P~lTeErRkelvK~~--k~~~EeakvaiRniRr 135 (187)
T COG0233 79 AIEKAILASNLGLNPNNDGNVIRVPLPPLTEERRKELVKVA--KKYAEEAKVAVRNIRR 135 (187)
T ss_pred HHHHHHHHcCCCCCcCcCCCeEEecCCCCCHHHHHHHHHHH--HHHHHHHHHHHHHHHH
Confidence 34455667888865544433333 77889999999998875 5556666667777774
No 12
>PF12010 DUF3502: Domain of unknown function (DUF3502); InterPro: IPR022627 This domain is about 140 amino acids in length and is functionally uncharacterised. It is found in bacteria C-terminal to PF01547 from PFAM.
Probab=33.37 E-value=32 Score=26.22 Aligned_cols=28 Identities=25% Similarity=0.312 Sum_probs=22.7
Q ss_pred HHHHHHHHcCCcccChhhHHHHHHHHhh
Q psy5147 48 QRRAMLRAAGVDKIDPTEKNQCKQIRIS 75 (158)
Q Consensus 48 ~RraLLrasGVk~Id~~Ek~el~~iR~S 75 (158)
+=++-|++||+.+|-.|=+.|+.+.+.+
T Consensus 105 ~~~~kLk~AGidkV~~E~QkQlda~~~~ 132 (134)
T PF12010_consen 105 EFNEKLKAAGIDKVIAELQKQLDAFLAA 132 (134)
T ss_pred HHHHHHHHhChHHHHHHHHHHHHHHHHh
Confidence 4466789999999998888899887654
No 13
>KOG1079|consensus
Probab=32.56 E-value=20 Score=35.65 Aligned_cols=25 Identities=40% Similarity=1.071 Sum_probs=18.3
Q ss_pred cCCCCCcccCCCcccccCCcccccC
Q psy5147 80 GCACEGYCDPEICACALAGIKCQVD 104 (158)
Q Consensus 80 GC~C~g~C~PeTC~Cs~aGIkCQVD 104 (158)
||.|++.|+.-.|+|-+|+=.|-=|
T Consensus 541 GC~Ck~QC~tkqCpC~~A~rECdPd 565 (739)
T KOG1079|consen 541 GCRCKAQCNTKQCPCYLAVRECDPD 565 (739)
T ss_pred CCCcccccccCcCchhhhccccCch
Confidence 6667777888888888887777543
No 14
>KOG2044|consensus
Probab=30.38 E-value=24 Score=35.98 Aligned_cols=74 Identities=28% Similarity=0.432 Sum_probs=39.9
Q ss_pred CCcccccc-cCCCCCCCcccccccccCCCCCCCcccCccc-cccC----------CCHH-----HHHHHHHHcCCcccCh
Q psy5147 1 MSGIIHTC-KPSRSPSNAFDRDVYTSGIGPVPALQCGVAV-DLRP----------VKIR-----QRRAMLRAAGVDKIDP 63 (158)
Q Consensus 1 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~e~d~~~-flqP----------v~~k-----~RraLLrasGVk~Id~ 63 (158)
|.||||+| +|.--|+..-++|.+.. +.+ =.|-.+ ..+| |.++ ||-.-.|+| |-..
T Consensus 55 MNGIIHPC~HPEdkPaP~tedEm~~a-vFe----yiDrlf~mvRPRkLLymAIDGVAPRAKMNQQRsRRFRaa---Keaa 126 (931)
T KOG2044|consen 55 MNGIIHPCTHPEDKPAPETEDEMFVA-VFE----YIDRLFSMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRAA---KEAA 126 (931)
T ss_pred cCcccccCCCCCCCCCCccHHHHHHH-HHH----HHHHHHHhccchheeEEeecccCchhhhhHHHHHHHhhh---hHHH
Confidence 88999999 46666666555544321 000 000000 1112 2222 444456666 3334
Q ss_pred hhHHHHHHHHhhcccccCC
Q psy5147 64 TEKNQCKQIRISREFCGCA 82 (158)
Q Consensus 64 ~Ek~el~~iR~SRe~CGC~ 82 (158)
+...+.+.||...+.-|+-
T Consensus 127 e~~~e~e~~ree~~~~G~~ 145 (931)
T KOG2044|consen 127 EKEAEIERLREEFEAEGKF 145 (931)
T ss_pred HHHHHHHHHHHHHHhcCCc
Confidence 4445779999999887764
No 15
>PF03206 NifW: Nitrogen fixation protein NifW; InterPro: IPR004893 Nitrogenase is a complex metalloenzyme composed of two proteins designated the Fe-protein and the MoFe-protein. Apart from these two proteins, a number of accessory proteins are essential for the maturation and assembly of nitrogenase. Even though experimental evidence suggests that these accessory proteins are required for nitrogenase activity, the exact roles played by many of these proteins in the functions of nitrogenase are unclear []. Using yeast two-hybrid screening it has been shown that NifW can interact with itself as well as NifZ. ; GO: 0009399 nitrogen fixation
Probab=27.12 E-value=54 Score=25.05 Aligned_cols=20 Identities=15% Similarity=0.448 Sum_probs=17.9
Q ss_pred cccChHHHHHHHHHHHHHhh
Q psy5147 124 IEFNPVRVHSHYIQTIMRMK 143 (158)
Q Consensus 124 ~EFn~~rVrtH~~~TlmRL~ 143 (158)
|+|||..|+...+|.|-|..
T Consensus 23 V~YDp~vv~V~RLHILkrF~ 42 (105)
T PF03206_consen 23 VPYDPKVVNVNRLHILKRFG 42 (105)
T ss_pred CCcchhHHHHhhHHHHHHHH
Confidence 68999999999999998764
No 16
>PRK14102 nifW nitrogenase stabilizing/protective protein; Provisional
Probab=26.18 E-value=48 Score=25.58 Aligned_cols=21 Identities=10% Similarity=0.414 Sum_probs=18.5
Q ss_pred cccChHHHHHHHHHHHHHhhc
Q psy5147 124 IEFNPVRVHSHYIQTIMRMKA 144 (158)
Q Consensus 124 ~EFn~~rVrtH~~~TlmRL~~ 144 (158)
|.|||..|+-.++|.|-|...
T Consensus 23 v~YDp~vvnV~RLHILkrf~q 43 (105)
T PRK14102 23 LPYDPTVVNVNRLHILKQFSQ 43 (105)
T ss_pred CCCCcchhhHHHHHHHHHHHH
Confidence 689999999999999988753
No 17
>PRK00810 nifW nitrogenase stabilizing/protective protein; Provisional
Probab=26.18 E-value=60 Score=25.24 Aligned_cols=21 Identities=19% Similarity=0.434 Sum_probs=18.5
Q ss_pred cccChHHHHHHHHHHHHHhhc
Q psy5147 124 IEFNPVRVHSHYIQTIMRMKA 144 (158)
Q Consensus 124 ~EFn~~rVrtH~~~TlmRL~~ 144 (158)
|.|||..|+.+.+|.|-|...
T Consensus 27 V~YDp~vvnV~RLHILKrF~~ 47 (113)
T PRK00810 27 VPYDPKVVNVARLHILKRMGQ 47 (113)
T ss_pred CCCCHHHHHHhHHHHHHHHHH
Confidence 689999999999999988653
No 18
>PF03128 CXCXC: CXCXC repeat; InterPro: IPR004153 This repeat contains the conserved pattern CXCXC where X can be any amino acid. The repeat is found in up to five copies in Vascular endothelial growth factor C []. In the salivary glands of the dipteran Chironomus tentans, a specific messenger ribonucleoprotein (mRNP) particle, the Balbiani ring (BR) granule, can be visualized during its assembly on the gene and during its nucleocytoplasmic transport. This repeat is found over 70 copies in the balbiani ring protein 3 (Q03376 from SWISSPROT). It is also found in some silk proteins [].
Probab=23.09 E-value=37 Score=17.53 Aligned_cols=7 Identities=29% Similarity=1.255 Sum_probs=5.0
Q ss_pred cCCCccc
Q psy5147 88 DPEICAC 94 (158)
Q Consensus 88 ~PeTC~C 94 (158)
+++||+|
T Consensus 5 n~~tC~C 11 (14)
T PF03128_consen 5 NDDTCQC 11 (14)
T ss_pred cCCCcCc
Confidence 5677777
No 19
>PF01765 RRF: Ribosome recycling factor; InterPro: IPR023584 The ribosome recycling factor or ribosome release factor (RRF) dissociates ribosomes from mRNA after termination of translation, and is essential for bacterial growth []. Thus ribosomes are 'recycled' and ready for another round of protein synthesis. This entry represents a domain found in ribosome recycling factors.; PDB: 3R8N_Y 1Y69_8 1ISE_A 1EK8_A 1DD5_A 1WIH_A 2Z4L_6 2QBE_6 2V46_Y 1EH1_A ....
Probab=22.20 E-value=90 Score=24.51 Aligned_cols=50 Identities=22% Similarity=0.322 Sum_probs=30.1
Q ss_pred ccccCCCCCCCcccCccc---cccCCCHHHHHHHHHHcCCcccChhhHHHHHHHHhh
Q psy5147 22 VYTSGIGPVPALQCGVAV---DLRPVKIRQRRAMLRAAGVDKIDPTEKNQCKQIRIS 75 (158)
Q Consensus 22 ~~~~~~~~~~~~e~d~~~---flqPv~~k~RraLLrasGVk~Id~~Ek~el~~iR~S 75 (158)
...|+.|-.. ..|... -+.|++...|.+|.+.+ +++-.+-|..++.+|..
T Consensus 64 I~~s~l~l~p--~~d~~~i~v~iP~~T~E~R~~l~k~~--k~~~E~~k~~iR~iR~~ 116 (165)
T PF01765_consen 64 IQKSNLNLNP--QNDGNTIRVPIPPPTEERRKELVKQA--KKIAEEAKVSIRNIRRD 116 (165)
T ss_dssp HHHTTSSSEE--EEETTEEEEE--SSSHHHHHHHHHHH--HHHHHHHHHHHHHHHHH
T ss_pred HHHCCCCCCc--ccCCcEEEEECCCCCHHHHHHHHHHH--HHHHHHHHHHHHHHHHH
Confidence 3456666433 233333 34556778888888876 45566677777877753
No 20
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=21.62 E-value=1.1e+02 Score=21.16 Aligned_cols=21 Identities=19% Similarity=0.365 Sum_probs=16.5
Q ss_pred HHHHHcCCcccChhhHHHHHH
Q psy5147 51 AMLRAAGVDKIDPTEKNQCKQ 71 (158)
Q Consensus 51 aLLrasGVk~Id~~Ek~el~~ 71 (158)
++|+++|+.++..+-.+.+..
T Consensus 14 qil~~~Gf~~~~~sale~ltd 34 (77)
T smart00576 14 QILESAGFDSFQESALETLTD 34 (77)
T ss_pred HHHHHcCccccCHHHHHHHHH
Confidence 689999999988886665543
No 21
>PF09350 DUF1992: Domain of unknown function (DUF1992); InterPro: IPR018961 This entry represents a family of proteins that may have a role in protein folding or as a chaperone. DnaJ is a member of the J-protein family, which are defined by the presence of a J domain that can regulate the activity of 70kDa heat-shock proteins []. Some of the proteins in this entry contain a J domain.
Probab=20.92 E-value=1.4e+02 Score=21.01 Aligned_cols=34 Identities=24% Similarity=0.280 Sum_probs=23.5
Q ss_pred cCCCCCCCcccCccccccCCCHHHHHHHHHHcCCcc
Q psy5147 25 SGIGPVPALQCGVAVDLRPVKIRQRRAMLRAAGVDK 60 (158)
Q Consensus 25 ~~~~~~~~~e~d~~~flqPv~~k~RraLLrasGVk~ 60 (158)
.|-|- -..+++....-|...+....+|+.+|+.=
T Consensus 19 pG~GK--PL~~~~~~~~~~~~~~~~~~iLk~~g~lP 52 (71)
T PF09350_consen 19 PGAGK--PLPLDDDNPYWPAEERMANRILKNAGYLP 52 (71)
T ss_pred CCCCC--CCCCCCCCcCCCHHHHHHHHhhcccCCCC
Confidence 45664 23344445566778888899999999963
No 22
>PF09494 Slx4: Slx4 endonuclease; InterPro: IPR018574 The Slx4 protein is a heteromeric structure-specific endonuclease found in fungi. Slx4 with Slx1 acts as a nuclease on branched DNA substrates, particularly simple-Y, 5'-flap, or replication fork structures by cleaving the strand bearing the 5' non-homologous arm at the branch junction and thus generating ligatable nicked products from 5'-flap or replication fork substrates [].
Probab=20.90 E-value=1.8e+02 Score=19.62 Aligned_cols=34 Identities=18% Similarity=0.330 Sum_probs=24.5
Q ss_pred ccccCCCHHHHHHHHHHcCCcccChhhHHHHHHH
Q psy5147 39 VDLRPVKIRQRRAMLRAAGVDKIDPTEKNQCKQI 72 (158)
Q Consensus 39 ~flqPv~~k~RraLLrasGVk~Id~~Ek~el~~i 72 (158)
...+||.-..=.+.|+++|+...++-....+++.
T Consensus 20 L~YePI~L~el~~~L~~~g~~~~~~~~~~~l~~~ 53 (64)
T PF09494_consen 20 LMYEPINLEELHAWLKASGIGFDRKVDPSKLKEW 53 (64)
T ss_pred HcCCCccHHHHHHHHHHcCCCccceeCHHHHHHH
Confidence 4679999999999999999943333344445444
No 23
>cd00520 RRF Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another round of protein synthesis. RRF is believed to bind the ribosome at the A-site in a manner that mimics tRNA, but the specific mechanisms remain unclear. RRF is essential for bacterial growth. It is not necessary for cell growth in archaea or eukaryotes, but is found in mitochondria or chloroplasts of some eukaryotic species.
Probab=20.09 E-value=1.3e+02 Score=24.28 Aligned_cols=51 Identities=25% Similarity=0.407 Sum_probs=30.9
Q ss_pred ccccCCCCCCCcccCccc-cccCCCHHHHHHHHHHcCCcccChhhHHHHHHHHh
Q psy5147 22 VYTSGIGPVPALQCGVAV-DLRPVKIRQRRAMLRAAGVDKIDPTEKNQCKQIRI 74 (158)
Q Consensus 22 ~~~~~~~~~~~~e~d~~~-flqPv~~k~RraLLrasGVk~Id~~Ek~el~~iR~ 74 (158)
...|+.|-.+..+-+... -+.|++...|..|.|.+ +++-.+.|..++.||.
T Consensus 78 I~~s~l~l~P~~dg~~iri~iP~lT~E~R~~lvK~~--k~~~E~~Kv~iRniR~ 129 (179)
T cd00520 78 ILNSDLGLNPNNDGAVIRVNLPPLTEERRKELVKDA--KKIAEEAKVAIRNIRR 129 (179)
T ss_pred HHHCCCCCCcCcCCCEEEecCCCCCHHHHHHHHHHH--HHHHHHHHHHHHHHHH
Confidence 345777764433222222 44567778888888875 4445556677777775
Done!