Query psy14851
Match_columns 217
No_of_seqs 113 out of 128
Neff 4.7
Searched_HMMs 46136
Date Fri Aug 16 22:22:52 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14851.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14851hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1826|consensus 99.8 2.1E-20 4.5E-25 195.1 2.4 158 44-213 1860-2185(2724)
2 PF14228 MOR2-PAG1_mid: Cell m 99.2 2.1E-11 4.5E-16 126.4 8.4 165 4-182 525-710 (1120)
3 KOG1826|consensus 97.8 1.6E-05 3.6E-10 85.7 3.5 88 23-123 2016-2105(2724)
4 KOG1825|consensus 97.2 0.00066 1.4E-08 74.5 6.5 164 4-181 1226-1410(2206)
5 KOG2171|consensus 76.3 6.2 0.00013 42.3 6.3 145 4-151 102-248 (1075)
6 cd08816 CARD_RIG-I_1 Caspase a 61.0 7 0.00015 30.3 2.2 39 98-136 23-62 (89)
7 TIGR02511 type_III_tyeA type I 52.9 35 0.00076 25.4 4.8 61 76-138 19-79 (79)
8 CHL00130 rbcS ribulose-1,5-bis 36.1 11 0.00025 31.4 -0.1 38 3-48 62-102 (138)
9 smart00549 TAFH TAF homology. 33.3 39 0.00085 26.4 2.4 48 107-154 9-56 (92)
10 PRK04976 torD chaperone protei 31.0 2.5E+02 0.0054 23.9 7.3 44 93-136 152-195 (202)
11 KOG0953|consensus 28.6 1.6E+02 0.0036 30.3 6.4 58 59-120 574-641 (700)
12 PF07531 TAFH: NHR1 homology t 27.1 44 0.00096 26.2 1.8 44 107-151 10-54 (96)
13 COG4451 RbcS Ribulose bisphosp 25.4 23 0.00051 29.1 0.0 35 3-45 67-102 (127)
14 cd00307 RuBisCO_small_like Rib 21.2 27 0.00059 26.6 -0.4 33 3-43 45-78 (84)
15 PRK11187 replication initiatio 20.5 51 0.0011 28.7 1.1 32 109-141 9-40 (182)
16 TIGR01951 nusB transcription a 20.1 1.8E+02 0.0039 22.4 4.1 44 6-71 85-128 (129)
No 1
>KOG1826|consensus
Probab=99.79 E-value=2.1e-20 Score=195.06 Aligned_cols=158 Identities=28% Similarity=0.390 Sum_probs=144.0
Q ss_pred eeeecceeeeecCCchHHHHHHHHHHhhcCCCCcHHHHHHHHhccccCchHHHHHHHHhhhccchhhhhhcccCCcchhh
Q psy14851 44 LIVYGCICLCIPANNTIFIKSISETLAKNEPHLTLEFLEECISGFKQSTIVLKHLCLEYMTPWLPNLVKFCKQSDEGKRQ 123 (217)
Q Consensus 44 ~~~l~s~~l~VP~d~t~FVv~IS~~LA~~~PeLTleFL~E~~~g~e~~s~~~k~lcL~YMsPWL~NL~~fv~~~de~g~~ 123 (217)
+..+++-|+|+|.+++-|++.+|+.||.++||+|++|+.|+|+|+.++..|-+++|+.||+||+.|+.+|+...|++++.
T Consensus 1860 ~~~i~~~~lcip~~n~v~lk~~~q~L~~n~ph~~leflee~~sg~~~s~~eishLcl~yvspw~~~lveF~ksndd~krl 1939 (2724)
T KOG1826|consen 1860 LHDITLYDLCIPRFNPVSLKIYFQVLHENPPHYKLEFLEELFSGKFNSVYEISHLCLVYVSPWTGVLVEFTKSNDDEKRL 1939 (2724)
T ss_pred eeeeeeccccccCCCceeehhHHHHHhcCCCcceeehhhhhhhhhhhhHHHHHHHHHHHhchhhHhHHHHHhccCchhhe
Confidence 45788899999999999999999999999999999999999999999999999999999999999999999975555443
Q ss_pred hHH-----------------------------------------------------------------------------
Q psy14851 124 QRV----------------------------------------------------------------------------- 126 (217)
Q Consensus 124 ~rv----------------------------------------------------------------------------- 126 (217)
+ +
T Consensus 1940 ~-~ss~~~~~I~~~~~~~qmype~qaki~gs~~~~~~vlnnf~~~s~~~glgs~~lelva~t~l~l~s~nvk~vS~nlI~ 2018 (2724)
T KOG1826|consen 1940 I-FSSPKYLEIVKMFYYAQMYPESQAKIDGSSSTSSPVLNNFVKQSKERGLGSCHLELVALTGLFLESKNVKNVSYNLIA 2018 (2724)
T ss_pred e-ecchHHHHHHHHHHHHHhChHhhhcccCccchhhHHHHHHHHhhhhccccchhhHHHHHHHHhhcccchhhhHHHHHH
Confidence 3 2
Q ss_pred --------------------------------------------------------------------------------
Q psy14851 127 -------------------------------------------------------------------------------- 126 (217)
Q Consensus 127 -------------------------------------------------------------------------------- 126 (217)
T Consensus 2019 ~~c~~~d~~~t~p~~s~Eq~v~wD~~t~L~r~~~mlS~sn~~~~a~~~pYl~h~ltfli~tg~~sl~~~t~~L~i~v~~a 2098 (2724)
T KOG1826|consen 2019 ATCASFDLNFTHPHRSPEQYVPWDTTTFLGRIGKMLSESNPELTAYMFPYLLHALTFLIPTGICSLSYWTPNLYIHVYLA 2098 (2724)
T ss_pred HHHHHhccccCCCCCCHhHhCCcccHHHHHHHHHHHcccChhhHHHHHHHHHhheeeeecccceeeeeccCcceeeeeec
Confidence
Q ss_pred ---------HHHHHHHhhhhhccccccHHHHHHHhhhhhhcchhhhhccccchhHHHHHHHHHhh--CCCCccccccccc
Q psy14851 127 ---------LGIMTKLIELTIKEVEMYPSIQAKIWGSIGQVHLIRSACQVYLIVCVLIRYQVDLI--GRPDQVYLSGLRD 195 (217)
Q Consensus 127 ---------~~iiR~LI~LTi~e~~~~~~iq~~IW~~l~~~~~L~~~~~~~~i~~vldE~i~~al--gs~~~e~~~~~~~ 195 (217)
++++|+|||||++|.++...|.+++|+.+..++++ ....++|++.||+ |+++++|.+.
T Consensus 2099 l~~~~~~~~Se~~~~liRLSv~Efs~pkfYL~fg~s~lks~~~l--------tfr~~~~~~s~a~~~~s~~~~~l~a--- 2167 (2724)
T KOG1826|consen 2099 LDEEGPENISEIFRILIRLSVREFSFPKFYLQFGWSLLKSDGRL--------TFRIVDEVISHALERDSENRDWLKA--- 2167 (2724)
T ss_pred ccccCchhHHHHHHHHHhhccccccchHHHHHHHHHHHHhccee--------eeeeehhcccccccccchhhhhHHH---
Confidence 99999999999999999999999999999999999 8899999999999 6677666653
Q ss_pred ccccCcceeecccccccc
Q psy14851 196 GLPGIGTRDQEPRLITRR 213 (217)
Q Consensus 196 il~~~~Tv~i~g~ii~Rl 213 (217)
+++.+||.++...+|.|+
T Consensus 2168 l~tv~pt~ev~~~ai~ki 2185 (2724)
T KOG1826|consen 2168 LLTVLPTTEVANNAIQKI 2185 (2724)
T ss_pred HHhhcchHHHHHHHHHHH
Confidence 999999999999888764
No 2
>PF14228 MOR2-PAG1_mid: Cell morphogenesis central region
Probab=99.22 E-value=2.1e-11 Score=126.44 Aligned_cols=165 Identities=19% Similarity=0.225 Sum_probs=135.8
Q ss_pred hhhhhhhhhccCCCchhHHHHHHHHhHhhcccCCCCcccceeeecceee--------------------eecCCchHHHH
Q psy14851 4 EVIVEWVCMRDIPDCDWLNTWTSLAKNFAFCYNPALQPRALIVYGCICL--------------------CIPANNTIFIK 63 (217)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~n~~~~~~a~~~l~s~~l--------------------~VP~d~t~FVv 63 (217)
.+++|+.+.+++|.|+. -+...|+.+..-+.+..++..|+.+|...+. ..|.-...+..
T Consensus 525 ~vlaev~~~~~~~~~~~-~~LL~L~Lfklg~~~~eIR~~A~qLL~~Le~R~~~~s~~~~~~~f~~si~s~l~~vYk~aQ~ 603 (1120)
T PF14228_consen 525 TVLAEVFSEREYPPCPF-WELLNLVLFKLGDESSEIRSKAMQLLRALEERFFSSSGSEKSGDFRESISSKLPAVYKKAQF 603 (1120)
T ss_pred HHHHHHHHcCCCCCCCH-HHhHHHHHHhhcCCcHHHHHHHHHHHHHHHHHhhcccccccccceehhccCCcHHHHHHHHH
Confidence 47999999999999988 4789999999999999999999998875332 13444467788
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhc-cccCchHHHHHHHHhhhccchhhhhhcccCCcchhhhHHHHHHHHHhhhhhcccc
Q psy14851 64 SISETLAKNEPHLTLEFLEECISG-FKQSTIVLKHLCLEYMTPWLPNLVKFCKQSDEGKRQQRVLGIMTKLIELTIKEVE 142 (217)
Q Consensus 64 ~IS~~LA~~~PeLTleFL~E~~~g-~e~~s~~~k~lcL~YMsPWL~NL~~fv~~~de~g~~~rv~~iiR~LI~LTi~e~~ 142 (217)
.||++||+.+|+||+.++.|++.- ++......|...|.||.||+.|+. .+. .++.|. ...++..|..+|++..+
T Consensus 604 eLS~~LA~~hPELs~~ifSEi~~R~~~~~~~~~rr~mL~~LlPWvqnle-L~~-~~~~g~---s~~vL~nL~~iT~k~~d 678 (1120)
T PF14228_consen 604 ELSKRLAKQHPELSFPIFSEISQRFFNAVPPDARRDMLAYLLPWVQNLE-LVS-LPESGW---SEMVLNNLFYITIKFGD 678 (1120)
T ss_pred HHHHHHHHhChhhHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHhhce-ecc-cCCCCc---HHHHHHHHHHHHHHhcc
Confidence 999999999999999999999864 566666777789999999999985 333 223331 34489999999999999
Q ss_pred ccHHHHHHHhhhhhhcchhhhhccccchhHHHHHHHHHhh
Q psy14851 143 MYPSIQAKIWGSIGQVHLIRSACQVYLIVCVLIRYQVDLI 182 (217)
Q Consensus 143 ~~~~iq~~IW~~l~~~~~L~~~~~~~~i~~vldE~i~~al 182 (217)
-++---+.+|..||.... | +..+|+=++..+|
T Consensus 679 ~~~~Eve~lW~~L~~~~~--N------~~~il~FLi~~~l 710 (1120)
T PF14228_consen 679 DHPNEVEALWIALASNPQ--N------IRVILDFLIELGL 710 (1120)
T ss_pred ccHHHHHHHHHHHhcCcc--c------HHHHHHHHHHHhh
Confidence 999999999999997654 3 7888888888888
No 3
>KOG1826|consensus
Probab=97.77 E-value=1.6e-05 Score=85.75 Aligned_cols=88 Identities=22% Similarity=0.335 Sum_probs=74.9
Q ss_pred HHHHHHhHhhccc-CCCCcccceeeecceeeeecCCchHHHHHHHHHHhhcCCCCcHHHHHHHHhccccCchHHHHHHHH
Q psy14851 23 TWTSLAKNFAFCY-NPALQPRALIVYGCICLCIPANNTIFIKSISETLAKNEPHLTLEFLEECISGFKQSTIVLKHLCLE 101 (217)
Q Consensus 23 ~~~~l~~~~~~~~-n~~~~~~a~~~l~s~~l~VP~d~t~FVv~IS~~LA~~~PeLTleFL~E~~~g~e~~s~~~k~lcL~ 101 (217)
--++.|+.|.-+. +|. -++|.|+|.|+++|...+-+.||.+.|++|.+.+.|.|++++ +.++.-+++|+
T Consensus 2016 lI~~~c~~~d~~~t~p~---------~s~Eq~v~wD~~t~L~r~~~mlS~sn~~~~a~~~pYl~h~lt-fli~tg~~sl~ 2085 (2724)
T KOG1826|consen 2016 LIAATCASFDLNFTHPH---------RSPEQYVPWDTTTFLGRIGKMLSESNPELTAYMFPYLLHALT-FLIPTGICSLS 2085 (2724)
T ss_pred HHHHHHHHhccccCCCC---------CCHhHhCCcccHHHHHHHHHHHcccChhhHHHHHHHHHhhee-eeecccceeee
Confidence 3456666665554 222 468899999999999999999999999999999999999997 99999999999
Q ss_pred hhhccchhhhhhccc-CCcchhh
Q psy14851 102 YMTPWLPNLVKFCKQ-SDEGKRQ 123 (217)
Q Consensus 102 YMsPWL~NL~~fv~~-~de~g~~ 123 (217)
| |+||||.++|. .+++|++
T Consensus 2086 ~---~t~~L~i~v~~al~~~~~~ 2105 (2724)
T KOG1826|consen 2086 Y---WTPNLYIHVYLALDEEGPE 2105 (2724)
T ss_pred e---ccCcceeeeeecccccCch
Confidence 9 99999999994 6666654
No 4
>KOG1825|consensus
Probab=97.19 E-value=0.00066 Score=74.51 Aligned_cols=164 Identities=24% Similarity=0.295 Sum_probs=128.2
Q ss_pred hhhhhhhhhccCCCchhHHHHHHHHhHhhcccCCCCcccceeeecceee--------------------eecCCchHHHH
Q psy14851 4 EVIVEWVCMRDIPDCDWLNTWTSLAKNFAFCYNPALQPRALIVYGCICL--------------------CIPANNTIFIK 63 (217)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~n~~~~~~a~~~l~s~~l--------------------~VP~d~t~FVv 63 (217)
-+++|++.++|+|+||. .+...||.|..-+.|.+++..|+.|+++-.. .++.-+-.|+.
T Consensus 1226 ~~L~~v~~~~~~p~~d~-~~Ll~L~L~~lv~~~~~ir~~A~~lle~l~tk~f~~t~~~~~~~~~a~~t~~l~~~~q~~~~ 1304 (2206)
T KOG1825|consen 1226 SVLAEVYMRQDIPKCDI-QRLLSLCLYKLVDNNESIRLDALQLLETLHTKLFAETGIMGFKEFLAAVTGTLYLSPQQFQS 1304 (2206)
T ss_pred HHHHHHHHhcCCccccH-HHHHHHHHHHhcCchHHHHHHHHHHHHhhhccccCcccccccccHHHhccCccCCccHHHHH
Confidence 36899999999999999 9999999999999999999999999988763 67788889999
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhcccc-CchHHHHHHHHhhhccchhhhhhcccCCcchhhhHHHHHHHHHhhhhhcccc
Q psy14851 64 SISETLAKNEPHLTLEFLEECISGFKQ-STIVLKHLCLEYMTPWLPNLVKFCKQSDEGKRQQRVLGIMTKLIELTIKEVE 142 (217)
Q Consensus 64 ~IS~~LA~~~PeLTleFL~E~~~g~e~-~s~~~k~lcL~YMsPWL~NL~~fv~~~de~g~~~rv~~iiR~LI~LTi~e~~ 142 (217)
.++.++++-.|.+--.....++..+-. ...-..+-.|-.|.+|..|+-. ....++.-.. .+...|+..|+...+
T Consensus 1305 s~~~~~~~~~~~~~~~~c~~~~~~~~~a~~r~~~~~~l~~l~~~~~~~~~-~k~~~~~~S~----~~l~dl~~vt~~~~~ 1379 (2206)
T KOG1825|consen 1305 SLSAKLAKIDPELSQLLCLVIINRYLDAVDRFAQHQVLLCLAAWIHNLNF-LKLLDSGWSE----SLLEDLYYVTIRHED 1379 (2206)
T ss_pred HHHHHHhhhchhhhhhhHHHHhcCcccccccchhHHHHHHHHHHHhhhhh-hhccCcccch----hhhhhhheehhhccC
Confidence 999999999999888777777765333 3344445555566668888853 2222232222 377889999999999
Q ss_pred ccHHHHHHHhhhhhhcchhhhhccccchhHHHHHHHHHh
Q psy14851 143 MYPSIQAKIWGSIGQVHLIRSACQVYLIVCVLIRYQVDL 181 (217)
Q Consensus 143 ~~~~iq~~IW~~l~~~~~L~~~~~~~~i~~vldE~i~~a 181 (217)
.+|-...+.|+.++.-..- ++.++.=.+...
T Consensus 1380 ~~p~eie~lW~S~a~t~~~--------iN~~~yl~~~~~ 1410 (2206)
T KOG1825|consen 1380 QLPNEIEKLWSSLALTNRN--------INPVLYLLITKS 1410 (2206)
T ss_pred CCcchHhhcccchhhcccc--------cchhhhhhHhhc
Confidence 9999999999999987776 555554444433
No 5
>KOG2171|consensus
Probab=76.25 E-value=6.2 Score=42.28 Aligned_cols=145 Identities=14% Similarity=0.190 Sum_probs=85.1
Q ss_pred hhhhhhhhhccCCCchhHHHHHHHHhHhhcccCCCCcccceeeecceeeeecCCchHHHHHHHHHHhhcCCCCcHHHHHH
Q psy14851 4 EVIVEWVCMRDIPDCDWLNTWTSLAKNFAFCYNPALQPRALIVYGCICLCIPANNTIFIKSISETLAKNEPHLTLEFLEE 83 (217)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~n~~~~~~a~~~l~s~~l~VP~d~t~FVv~IS~~LA~~~PeLTleFL~E 83 (217)
+|++|++ +.++|+ .| .+...+--..+-+.||++|--|+.++.+-.-.++.....|+..+-.-+.++.-.=..-..-.
T Consensus 102 dviAeia-~~~l~e-~W-Pell~~L~q~~~S~~~~~rE~al~il~s~~~~~~~~~~~~~~~l~~lf~q~~~d~s~~vr~~ 178 (1075)
T KOG2171|consen 102 DVIAEIA-RNDLPE-KW-PELLQFLFQSTKSPNPSLRESALLILSSLPETFGNTLQPHLDDLLRLFSQTMTDPSSPVRVA 178 (1075)
T ss_pred HHHHHHH-Hhcccc-ch-HHHHHHHHHHhcCCCcchhHHHHHHHHhhhhhhccccchhHHHHHHHHHHhccCCcchHHHH
Confidence 5788877 678888 77 55555555667799999999999999999889998888666665555554422222212222
Q ss_pred HHhccccCchH--HHHHHHHhhhccchhhhhhcccCCcchhhhHHHHHHHHHhhhhhccccccHHHHHHH
Q psy14851 84 CISGFKQSTIV--LKHLCLEYMTPWLPNLVKFCKQSDEGKRQQRVLGIMTKLIELTIKEVEMYPSIQAKI 151 (217)
Q Consensus 84 ~~~g~e~~s~~--~k~lcL~YMsPWL~NL~~fv~~~de~g~~~rv~~iiR~LI~LTi~e~~~~~~iq~~I 151 (217)
...++-.+... ....-..-+.+-||++-.-....-..|.......++..|+++...+|.+..-+...|
T Consensus 179 a~rA~~a~~~~~~~~~~~~~~~~~llP~~l~vl~~~i~~~d~~~a~~~l~~l~El~e~~pk~l~~~l~~i 248 (1075)
T KOG2171|consen 179 AVRALGAFAEYLENNKSEVDKFRDLLPSLLNVLQEVIQDGDDDAAKSALEALIELLESEPKLLRPHLSQI 248 (1075)
T ss_pred HHHHHHHHHHHhccchHHHHHHHHHhHHHHHHhHhhhhccchHHHHHHHHHHHHHHhhchHHHHHHHHHH
Confidence 22222221000 111222334556666654333222222232367788999999988887644444333
No 6
>cd08816 CARD_RIG-I_1 Caspase activation and recruitment domain found in RIG-I, first repeat. Caspase activation and recruitment domain (CARD) found in RIG-I (Retinoic acid Inducible Gene I, also known as Ddx58), first repeat. RIG-I is a cytoplasmic RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. RIG-I contains two N-terminal CARD domains and a C-terminal RNA helicase. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, RIG-I recognizes different sets of viruses compared to MDA5, a related RNA helicase. RIG-I associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction doma
Probab=61.03 E-value=7 Score=30.30 Aligned_cols=39 Identities=21% Similarity=0.319 Sum_probs=25.1
Q ss_pred HHHHhhhccchh-hhhhcccCCcchhhhHHHHHHHHHhhh
Q psy14851 98 LCLEYMTPWLPN-LVKFCKQSDEGKRQQRVLGIMTKLIEL 136 (217)
Q Consensus 98 lcL~YMsPWL~N-L~~fv~~~de~g~~~rv~~iiR~LI~L 136 (217)
..+.||+||+++ +.+++...+++|+..-..-.++.|..+
T Consensus 23 yIl~~m~~~~~~e~v~~I~aEe~kg~~~AaqlfL~~l~~l 62 (89)
T cd08816 23 YILGFMTTWLEDEEVERILSEEEKGVTSAAQLFLDYVLKL 62 (89)
T ss_pred HHHHHHHHhcCHHHHHHHHHHhccChHHHHHHHHHHHHHH
Confidence 457899999987 455555555566654255555665543
No 7
>TIGR02511 type_III_tyeA type III secretion effector delivery regulator, TyeA family. Members of this family include both small proteins, about 90 amino acids, in which this model covers the whole, and longer proteins of about 360 residues which match in the C-terminal region. The longer proteins (HrpJ) have N-terminal regions that match Pfam model pfam07201. Members of this family belong to bacterial type III secretion systems, and include TyeA from the well-studied Yersinia systems. TyeA appears involved in calcium-responsive regulation of the delivery of type III effectors.
Probab=52.94 E-value=35 Score=25.41 Aligned_cols=61 Identities=21% Similarity=0.232 Sum_probs=43.9
Q ss_pred CcHHHHHHHHhccccCchHHHHHHHHhhhccchhhhhhcccCCcchhhhHHHHHHHHHhhhhh
Q psy14851 76 LTLEFLEECISGFKQSTIVLKHLCLEYMTPWLPNLVKFCKQSDEGKRQQRVLGIMTKLIELTI 138 (217)
Q Consensus 76 LTleFL~E~~~g~e~~s~~~k~lcL~YMsPWL~NL~~fv~~~de~g~~~rv~~iiR~LI~LTi 138 (217)
++.+=+......+.-.+.++++..|.-+.|-..+|..-+| +|++.+++ +.+.++.+++.++
T Consensus 19 l~~~~l~~l~~~l~~~~~~~qv~fl~~l~~l~~~lP~~lf-~D~eqR~~-~L~~~~~~~d~ai 79 (79)
T TIGR02511 19 LGPDWIEQLANALGLPELEHRVAFLQGLKRLLRLLPIALF-SDEEQRQN-LLQALQEAIDEAI 79 (79)
T ss_pred CCHHHHHHHHHHccCccHHHHHHHHHHHHHHHHHCCHHHh-CCHHHHHH-HHHHHHHHHHhhC
Confidence 4444455555555555667777888888888888888777 45777777 9999999998764
No 8
>CHL00130 rbcS ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed
Probab=36.06 E-value=11 Score=31.36 Aligned_cols=38 Identities=24% Similarity=0.286 Sum_probs=31.4
Q ss_pred chhhhhh-hhhccCCCchhHHHHHHHHhHhhcccCCCCcc--cceeeec
Q psy14851 3 QEVIVEW-VCMRDIPDCDWLNTWTSLAKNFAFCYNPALQP--RALIVYG 48 (217)
Q Consensus 3 ~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~n~~~~~--~a~~~l~ 48 (217)
..|+.|+ +|++.+|++-. |=-+||..++.|. -++||.-
T Consensus 62 ~~Vl~Ei~~CrkayP~~yI--------Rl~gFDn~rq~Q~~~~sFiV~r 102 (138)
T CHL00130 62 AAVMFEINECRKQKPNGYI--------KVNAFDASRGVESCVLSFIVNR 102 (138)
T ss_pred HHHHHHHHHHHHHCCCcEE--------EEEEeeCCCcEEEeEEEEEEeC
Confidence 4688887 79999999876 6779999999999 7777654
No 9
>smart00549 TAFH TAF homology. Domain in Drosophila nervy, CBFA2T1, human TAF105, human TAF130, and Drosophila TAF110. Also known as nervy homology region 1 (NHR1).
Probab=33.29 E-value=39 Score=26.42 Aligned_cols=48 Identities=19% Similarity=0.281 Sum_probs=32.9
Q ss_pred chhhhhhcccCCcchhhhHHHHHHHHHhhhhhccccccHHHHHHHhhh
Q psy14851 107 LPNLVKFCKQSDEGKRQQRVLGIMTKLIELTIKEVEMYPSIQAKIWGS 154 (217)
Q Consensus 107 L~NL~~fv~~~de~g~~~rv~~iiR~LI~LTi~e~~~~~~iq~~IW~~ 154 (217)
+.+|-+|-...+..+...||+.+|..|++-++.-.||+..+|+.+=+.
T Consensus 9 L~tLi~ls~~~~qpe~~~~Vr~LV~~L~~~~i~~EeF~~~Lq~~lns~ 56 (92)
T smart00549 9 LTTLIQLSNDISQPEVAERVRTLVLGLVNGTITAEEFTSRLQEALNSP 56 (92)
T ss_pred HHHHHHHhcCCCcchHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHcCC
Confidence 445554433222122335699999999999999999999988765443
No 10
>PRK04976 torD chaperone protein TorD; Validated
Probab=30.98 E-value=2.5e+02 Score=23.86 Aligned_cols=44 Identities=16% Similarity=0.253 Sum_probs=32.3
Q ss_pred hHHHHHHHHhhhccchhhhhhcccCCcchhhhHHHHHHHHHhhh
Q psy14851 93 IVLKHLCLEYMTPWLPNLVKFCKQSDEGKRQQRVLGIMTKLIEL 136 (217)
Q Consensus 93 ~~~k~lcL~YMsPWL~NL~~fv~~~de~g~~~rv~~iiR~LI~L 136 (217)
..|+...=.++.||++-...-+......+-.+-++.+++.++..
T Consensus 152 ~~q~~Fl~~hL~~W~~~f~~~~~~~~~~~fY~~~a~ll~~fl~~ 195 (202)
T PRK04976 152 RQQLLFIQTALLSWLPEFAAKCTQYDSFGFYAALSQLLLAFVQL 195 (202)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH
Confidence 56677777899999998888777544444444588888888764
No 11
>KOG0953|consensus
Probab=28.61 E-value=1.6e+02 Score=30.28 Aligned_cols=58 Identities=26% Similarity=0.344 Sum_probs=40.9
Q ss_pred hHHHHHHHHHHhhcCCCCcHHHHHHHHhccccC---------chHHHHHHH-HhhhccchhhhhhcccCCcc
Q psy14851 59 TIFIKSISETLAKNEPHLTLEFLEECISGFKQS---------TIVLKHLCL-EYMTPWLPNLVKFCKQSDEG 120 (217)
Q Consensus 59 t~FVv~IS~~LA~~~PeLTleFL~E~~~g~e~~---------s~~~k~lcL-~YMsPWL~NL~~fv~~~de~ 120 (217)
+.++..+.++.|+++| ||+++++ +..+|.+. ..|+.+-.| .|| |+.|=+.-.+++.+.
T Consensus 574 ~~~f~kfa~~~s~~~~-l~~~~l~-~~~~~p~~~p~t~~~L~~LEs~h~il~lYm--WlS~Rfpd~fpd~~~ 641 (700)
T KOG0953|consen 574 CSAFLKFARQYSQNEP-LTFLWLK-FNLGWPNKIPKTIYELEDLESLHDILDLYM--WLSNRFPDMFPDAES 641 (700)
T ss_pred HHHHHHHHHHHhcCCc-ccHHHHH-HhhcCCCCCCccHHHHHHHHHHHHHHHHHH--HHHhhhhhhccChHH
Confidence 4567788889998887 8999999 77788762 344444333 354 999988877766443
No 12
>PF07531 TAFH: NHR1 homology to TAF; InterPro: IPR003894 The TAF homology (TAFH) or Nervy homology region 1 (NHR1) domain is a domain of 95-100 amino acids present in eukaryotic proteins of the MTG/ETO family and whereof the core ~75-80 residues occur in TAF proteins. The transcription initiation TFIID complex is composed of TATA binding protein (TBP) and a number of TBP-associated factors (TAFs). The TAFH/NHR1 domain is named after fruit fly TATA-box-associated factor 110 (TAF110), human TAF105 and TAF130, and the fruit fly protein Nervy, which is a homologue of human MTG8/ETO [, ]. The human eight twenty-one (ETO or MTG8) and related myeloid transforming gene products MTGR1 and MTG16 as well as the Nervy protein contain the NHR1-4 domains. The NHR1/TAFH domain occurs in the N-terminal part of these proteins, while a MYND-type zinc finger forms the NHR4 domain []. The TAFH/NHR1 domain can be involved in protein-protein interactions, e.g in MTG8/ETO with HSP90 and Gfi-1 []. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2P6V_A 2KNH_A 2PP4_A 2H7B_A.
Probab=27.15 E-value=44 Score=26.22 Aligned_cols=44 Identities=16% Similarity=0.320 Sum_probs=30.6
Q ss_pred chhhhhhccc-CCcchhhhHHHHHHHHHhhhhhccccccHHHHHHH
Q psy14851 107 LPNLVKFCKQ-SDEGKRQQRVLGIMTKLIELTIKEVEMYPSIQAKI 151 (217)
Q Consensus 107 L~NL~~fv~~-~de~g~~~rv~~iiR~LI~LTi~e~~~~~~iq~~I 151 (217)
+.+|.++... ...+-.+ +|+.+|..|++-+|.-.+|+..+|+..
T Consensus 10 L~tLi~las~~~spev~~-~Vr~LV~~L~~~~i~~EeF~~~Lq~~l 54 (96)
T PF07531_consen 10 LNTLIQLASDKQSPEVGE-NVRELVQNLVDGKIEAEEFTSKLQEEL 54 (96)
T ss_dssp HHHHHHHHCCSC-CCHHH-HHHHHHHHHHTTSS-HHHHHHHHHHHC
T ss_pred HHHHHHHhcCCCChHHHH-HHHHHHHHHHcCCCCHHHHHHHHHHHh
Confidence 5566666553 2333344 499999999999999999888887643
No 13
>COG4451 RbcS Ribulose bisphosphate carboxylase small subunit [Energy production and conversion]
Probab=25.37 E-value=23 Score=29.07 Aligned_cols=35 Identities=23% Similarity=0.259 Sum_probs=26.6
Q ss_pred chhhhhh-hhhccCCCchhHHHHHHHHhHhhcccCCCCccccee
Q psy14851 3 QEVIVEW-VCMRDIPDCDWLNTWTSLAKNFAFCYNPALQPRALI 45 (217)
Q Consensus 3 ~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~n~~~~~~a~~ 45 (217)
.|||+|+ +|+.|.|++-. |-++||+...=|.-.+|
T Consensus 67 ~evlaele~Cr~dhp~eYI--------RliGfDp~gkrrv~sfI 102 (127)
T COG4451 67 GEVLAELEACRADHPGEYI--------RLIGFDPKGKRRVVSFI 102 (127)
T ss_pred HHHHHHHHHHHHhCCCCeE--------EEEEecCCCceEEEEEE
Confidence 4789998 89999999876 78899988864333333
No 14
>cd00307 RuBisCO_small_like Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits. This superfamily also contains specific proteins from cyanobacteria. CcmM plays a role in a CO2 concentrating mechanism, which cyanobacteria need to to overcome t
Probab=21.23 E-value=27 Score=26.59 Aligned_cols=33 Identities=9% Similarity=0.129 Sum_probs=24.1
Q ss_pred chhhhhh-hhhccCCCchhHHHHHHHHhHhhcccCCCCcccc
Q psy14851 3 QEVIVEW-VCMRDIPDCDWLNTWTSLAKNFAFCYNPALQPRA 43 (217)
Q Consensus 3 ~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~n~~~~~~a 43 (217)
.+|+.|+ +|++++|+.-. |=.+||++.+-|.=+
T Consensus 45 ~~Vl~el~~c~~~~p~~YV--------Rlig~D~~~q~~~~~ 78 (84)
T cd00307 45 AQVLAALEACLAEHPGEYV--------RLIGIDPKAKRRVLE 78 (84)
T ss_pred HHHHHHHHHHHHHCCCCeE--------EEEEEeCCccEEEEE
Confidence 4788887 79999999654 567888886544333
No 15
>PRK11187 replication initiation regulator SeqA; Provisional
Probab=20.53 E-value=51 Score=28.71 Aligned_cols=32 Identities=13% Similarity=0.306 Sum_probs=23.1
Q ss_pred hhhhhcccCCcchhhhHHHHHHHHHhhhhhccc
Q psy14851 109 NLVKFCKQSDEGKRQQRVLGIMTKLIELTIKEV 141 (217)
Q Consensus 109 NL~~fv~~~de~g~~~rv~~iiR~LI~LTi~e~ 141 (217)
-||+|+-..-+.-.|. .++|+|+|..|+...+
T Consensus 9 ELYryIAS~Tq~IGES-ASDILRRLL~l~~~~~ 40 (182)
T PRK11187 9 ELYRYIASHTQHIGES-ASDILRRLLKLSAESQ 40 (182)
T ss_pred HHHHHHHHccCccCCC-HHHHHHHHhCCCcccc
Confidence 4788888533333355 7999999999998654
No 16
>TIGR01951 nusB transcription antitermination factor NusB. A transcription antitermination complex active in many bacteria was designated N-utilization substance (Nus) in E. coli because of its interaction with phage lambda protein N. This model represents NusB. Other components are NusA and NusG. NusE is, in fact, ribosomal protein S10.
Probab=20.06 E-value=1.8e+02 Score=22.41 Aligned_cols=44 Identities=25% Similarity=0.280 Sum_probs=30.2
Q ss_pred hhhhhhhccCCCchhHHHHHHHHhHhhcccCCCCcccceeeecceeeeecCCchHHHHHHHHHHhh
Q psy14851 6 IVEWVCMRDIPDCDWLNTWTSLAKNFAFCYNPALQPRALIVYGCICLCIPANNTIFIKSISETLAK 71 (217)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~n~~~~~~a~~~l~s~~l~VP~d~t~FVv~IS~~LA~ 71 (217)
+.|...+.++|.---.++...+|+.+.-+. ...||..|-+++++
T Consensus 85 ~~el~~~~~~p~~avineaV~lak~~~~~~----------------------~~~fVNaVLr~i~r 128 (129)
T TIGR01951 85 AYELLYRPDVPYKVVINEAVELAKKFGDED----------------------SHKFVNGVLDKIAK 128 (129)
T ss_pred HHHHHhCCCCCCcchHHHHHHHHHHHCCCC----------------------chhhHHHHHHHHhh
Confidence 356666667888778888888887664222 23488888877765
Done!