Query 024389
Match_columns 268
No_of_seqs 107 out of 219
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 04:12:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024389.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024389hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14144 DOG1: Seed dormancy c 100.0 1E-34 2.2E-39 223.1 6.6 80 32-112 1-80 (80)
2 PF13801 Metal_resist: Heavy-m 97.0 0.0088 1.9E-07 46.6 10.0 84 142-238 41-124 (125)
3 PRK12750 cpxP periplasmic repr 97.0 0.035 7.6E-07 48.4 14.1 110 142-266 52-169 (170)
4 COG3678 CpxP P pilus assembly/ 96.2 0.068 1.5E-06 46.4 10.9 89 142-246 57-145 (160)
5 PRK10455 periplasmic protein; 95.0 0.36 7.7E-06 41.8 10.8 85 142-243 56-141 (161)
6 PRK12751 cpxP periplasmic stre 94.0 1.3 2.8E-05 38.5 12.0 95 142-253 56-151 (162)
7 PRK10363 cpxP periplasmic repr 93.4 0.7 1.5E-05 40.5 9.3 83 142-241 50-133 (166)
8 PF07813 LTXXQ: LTXXQ motif fa 93.1 0.71 1.5E-05 35.1 8.0 80 142-240 14-96 (100)
9 PF11239 DUF3040: Protein of u 46.6 19 0.0004 27.4 2.5 30 142-171 2-31 (82)
10 PF11459 DUF2893: Protein of u 37.9 83 0.0018 23.8 4.8 41 208-248 21-61 (69)
11 PRK14563 ribosome modulation f 37.4 8.4 0.00018 28.0 -0.6 15 88-103 33-47 (55)
12 KOG2202 U2 snRNP splicing fact 33.7 48 0.001 31.1 3.5 47 16-66 75-121 (260)
13 PF14644 DUF4456: Domain of un 33.7 49 0.0011 29.5 3.5 45 12-57 90-134 (208)
14 PF13586 DDE_Tnp_1_2: Transpos 32.0 21 0.00045 27.0 0.8 20 83-102 43-62 (88)
15 COG3130 Rmf Ribosome modulatio 31.4 16 0.00034 26.2 -0.0 17 88-104 32-48 (55)
16 PF05531 NPV_P10: Nucleopolyhe 24.3 3.3E+02 0.0072 20.9 6.7 63 154-234 5-67 (75)
17 PF00589 Phage_integrase: Phag 24.2 30 0.00065 27.7 0.4 21 93-113 28-48 (173)
18 PF04957 RMF: Ribosome modulat 23.9 14 0.00031 26.8 -1.4 14 89-102 33-46 (55)
19 PF03371 PRP38: PRP38 family; 22.9 81 0.0018 27.6 2.9 13 101-113 62-74 (172)
20 PLN02796 D-glycerate 3-kinase 21.6 1.7E+02 0.0036 28.6 5.0 43 23-69 278-320 (347)
21 PF09236 AHSP: Alpha-haemoglob 21.5 1.2E+02 0.0027 24.0 3.3 27 45-71 27-53 (89)
22 TIGR02302 aProt_lowcomp conser 21.5 2.6E+02 0.0057 30.6 6.8 18 162-179 522-539 (851)
23 COG4240 Predicted kinase [Gene 20.3 2.8E+02 0.006 26.3 5.9 52 22-78 229-280 (300)
No 1
>PF14144 DOG1: Seed dormancy control
Probab=100.00 E-value=1e-34 Score=223.14 Aligned_cols=80 Identities=33% Similarity=0.472 Sum_probs=76.5
Q ss_pred hchhhHHhccccCCCChhhHHHHHHHHHHhHHHHHHhhhhhhhcCCcccccCCCCCCchhhHHHhhcCCCchhHHHHHHh
Q 024389 32 KTLLPLIHKSLSSSSSQTLLYSHVDLLLHHFLSYYDALDSAATQGNLPELLYPSWRNSLEVPFLFLGDLHPYLFTNLVRS 111 (268)
Q Consensus 32 ~~l~eLr~a~~~~~~sd~~L~~LV~~~l~Hy~~yy~~K~~aA~~~DV~~l~sp~W~splEr~fLWiGG~RPS~ll~Ll~s 111 (268)
|++.|||++++++..+|.+|+.||+++++||++||+.|+.||+ +|||++|+|+|+||+||||+||||||||++|+|||+
T Consensus 1 ~~l~eLr~al~~~~~~~~~L~~lV~~~~~Hy~~y~~~K~~aa~-~DV~~~~s~~W~sp~Er~flWiGG~RPS~~~~ll~s 79 (80)
T PF14144_consen 1 RQLNELRAALQSHADSDDELRSLVDKVMSHYDEYYRAKSAAAK-ADVFHLLSPPWKSPLERCFLWIGGWRPSELFKLLYS 79 (80)
T ss_pred CcHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh-cchHHHhCCCCCCHHHHHHHHHhcCCHHHHHHHHhc
Confidence 5789999999888558999999999999999999999999999 999999999999999999999999999999999997
Q ss_pred h
Q 024389 112 F 112 (268)
Q Consensus 112 ~ 112 (268)
+
T Consensus 80 ~ 80 (80)
T PF14144_consen 80 Q 80 (80)
T ss_pred C
Confidence 4
No 2
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=97.02 E-value=0.0088 Score=46.59 Aligned_cols=84 Identities=14% Similarity=0.178 Sum_probs=68.7
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPALIGRIKKVQSGFVGRIAEDWVAFERQSDEELKGVIGEAMKEEMDDMVSVFVDANRLR 221 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~lQ~slad~~~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~l~qAD~LR 221 (268)
+||++|..+|..+.......-..+-+.+......+......+ +... .++...++++...-.+....|
T Consensus 41 ~Lt~eQ~~~l~~~~~~~~~~~~~~r~~~~~~r~~l~~ll~~~--------~~D~-----~~i~a~~~~~~~~~~~l~~~~ 107 (125)
T PF13801_consen 41 NLTPEQQAKLRALMDEFRQEMRALRQELRAARQELRALLAAP--------PPDE-----AAIEALLEEIREAQAELRQER 107 (125)
T ss_dssp -TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCS--------SS-H-----HHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC--------CCCH-----HHHHHHHHHHHHHHHHHHHHH
Confidence 699999999999999999999999999999999998876542 1111 455566778888888889999
Q ss_pred HHHHHHHHhhcCHHHHH
Q 024389 222 KSVIAEIVGALSVYQAA 238 (268)
Q Consensus 222 ~~TL~~v~~iLTp~QAA 238 (268)
.+++.++..+|||.|=+
T Consensus 108 ~~~~~~~~~~LtpeQR~ 124 (125)
T PF13801_consen 108 LEHLLEIRAVLTPEQRA 124 (125)
T ss_dssp HHHHHHHHHTT-GGGHH
T ss_pred HHHHHHHHHcCCHHHhC
Confidence 99999999999999855
No 3
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=96.95 E-value=0.035 Score=48.43 Aligned_cols=110 Identities=14% Similarity=0.097 Sum_probs=66.8
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHH--------HHHHHHHHHhhhhhhhhhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHH
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPA--------LIGRIKKVQSGFVGRIAEDWVAFERQSDEELKGVIGEAMKEEMDDMVSV 213 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~a--------Ls~~ma~lQ~slad~~~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~ 213 (268)
+||++|...|..|+...+.+=.+ ..+.|....+.+.+.+.++ .+.. +++....+.+...
T Consensus 52 ~LTdeQk~qik~i~~~~r~~~k~~~~~~r~~~~~~m~a~~~~~~~Ll~a~-----~FDe--------aavral~~~~~~~ 118 (170)
T PRK12750 52 DLTDAQKEQLKEMREANRAEMKAKYSGNREQSHAEMKAHHAKVQALVLAD-----DFDE--------AAANDLAKQMVEK 118 (170)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHhcC-----CCCH--------HHHHHHHHHHHHH
Confidence 59999999999999887765444 3444554554444444321 0111 1222222222222
Q ss_pred HHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhhhhhhhhhhhhhccCC
Q 024389 214 FVDANRLRKSVIAEIVGALSVYQAALFLEGLAQFLVGLRDREVLGELNRSKIP 266 (268)
Q Consensus 214 l~qAD~LR~~TL~~v~~iLTp~QAA~fL~A~~e~~~~lr~~~~~~~~~~~~~~ 266 (268)
-.+.---|.++.++++.||||-|=+.|-.-..+......+.+ +..++++.|
T Consensus 119 ~~e~~v~~~~~~~~~~~vLTpEQRak~~e~~~~r~~~~~~~~--~~~~~~~~~ 169 (170)
T PRK12750 119 QVERRVKMLEKRHQMLSILTPEQKAKFQELQQERMQECQDKM--HKRMKKHAS 169 (170)
T ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHH--HHhccCCCC
Confidence 223333467789999999999999999988777777666665 444444443
No 4
>COG3678 CpxP P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]
Probab=96.23 E-value=0.068 Score=46.37 Aligned_cols=89 Identities=19% Similarity=0.160 Sum_probs=62.7
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPALIGRIKKVQSGFVGRIAEDWVAFERQSDEELKGVIGEAMKEEMDDMVSVFVDANRLR 221 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~lQ~slad~~~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~l~qAD~LR 221 (268)
+||++|..+|..+...-+ .+..+-+..-...+-+.+.++ ..+ ++++....+.++..-.+.+.+|
T Consensus 57 ~lT~~Qrqqi~~i~~~~~---~a~~~~~~~~r~~l~~li~a~--------~~D-----~aka~a~~~~m~~~~~~~~~~r 120 (160)
T COG3678 57 DLTRAQRQQIRDLMQAQR---RAQREQLRSKRRALHELIAAD--------QFD-----EAKARAQAEKMENQRQALRELR 120 (160)
T ss_pred cccHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhcC--------CcC-----HHHHHHHHHHHHHHHHHHHHHH
Confidence 499999999999988776 444444444444444433221 111 1355677888888899999999
Q ss_pred HHHHHHHHhhcCHHHHHHHHHHHHH
Q 024389 222 KSVIAEIVGALSVYQAALFLEGLAQ 246 (268)
Q Consensus 222 ~~TL~~v~~iLTp~QAA~fL~A~~e 246 (268)
.++-.++..||||.|.+.|=--.++
T Consensus 121 ~k~~~~m~~vLTPEQr~~l~~~~~~ 145 (160)
T COG3678 121 VKSDNQMYQVLTPEQRAKLQELLAQ 145 (160)
T ss_pred HHHHHHHHHhcCHHHHHHHHHHHHH
Confidence 9999999999999999876554443
No 5
>PRK10455 periplasmic protein; Reviewed
Probab=95.00 E-value=0.36 Score=41.83 Aligned_cols=85 Identities=14% Similarity=0.015 Sum_probs=52.5
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHHHH-HHHHHHHhhhhhhhhhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPALI-GRIKKVQSGFVGRIAEDWVAFERQSDEELKGVIGEAMKEEMDDMVSVFVDANRL 220 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~aLs-~~ma~lQ~slad~~~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~l~qAD~L 220 (268)
+||++|..+|..|-+..+..-...+ ++.+.++.- +.+ ++- -++++...++.+...-.+.-..
T Consensus 56 ~LT~~Qrqqir~im~~~r~~~~~~~~~~r~~l~~l----i~a--------d~F-----Deaavra~~~k~~~~~~~~~~~ 118 (161)
T PRK10455 56 NLTDAQKQQIRDIMKAQRDQMKRPPLEERRAMHDI----IAS--------DTF-----DKAKAEAQITKMEAQRKARMLA 118 (161)
T ss_pred CCCHHHHHHHHHHHHHHHHhhccccHHHHHHHHHH----Hcc--------Ccc-----CHHHHHHHHHHHHHHHHHHHHH
Confidence 4999999999999877665533322 222222211 111 110 0133444455555555555567
Q ss_pred HHHHHHHHHhhcCHHHHHHHHHH
Q 024389 221 RKSVIAEIVGALSVYQAALFLEG 243 (268)
Q Consensus 221 R~~TL~~v~~iLTp~QAA~fL~A 243 (268)
|.++-.+|+.||||-|-+.|=.-
T Consensus 119 ~~~~~~qiy~vLTPEQr~q~~~~ 141 (161)
T PRK10455 119 HMETQNKIYNVLTPEQKKQFNAN 141 (161)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHH
Confidence 88999999999999999987643
No 6
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=94.03 E-value=1.3 Score=38.52 Aligned_cols=95 Identities=12% Similarity=0.144 Sum_probs=57.5
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHHH-HHHHHHHHhhhhhhhhhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPAL-IGRIKKVQSGFVGRIAEDWVAFERQSDEELKGVIGEAMKEEMDDMVSVFVDANRL 220 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~aL-s~~ma~lQ~slad~~~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~l~qAD~L 220 (268)
+||++|...|-.+-...+...+.. -.+++.++. .+.+ ..+.. +++...++.+...-.+----
T Consensus 56 ~LTd~QR~qmr~im~~~r~~~~~~~~~~~~~m~~----Li~A-----d~FDe--------aAvra~~~kma~~~~e~~v~ 118 (162)
T PRK12751 56 NLTEQQRQQMRDLMRQSHQSQPRLDLEDREAMHK----LITA-----DKFDE--------AAVRAQAEKMSQNQIERHVE 118 (162)
T ss_pred CCCHHHHHHHHHHHHHhhhcccchhHHHHHHHHH----HHhc-----CCCCH--------HHHHHHHHHHHHHHHHHHHH
Confidence 599999999999988877753211 112222222 2211 10111 33333444444444444457
Q ss_pred HHHHHHHHHhhcCHHHHHHHHHHHHHHHHhhhh
Q 024389 221 RKSVIAEIVGALSVYQAALFLEGLAQFLVGLRD 253 (268)
Q Consensus 221 R~~TL~~v~~iLTp~QAA~fL~A~~e~~~~lr~ 253 (268)
+.++..+++.+|||-|-+.|=.-.-+-...+|.
T Consensus 119 ~~~~~~qmy~lLTPEQra~l~~~~e~r~~~~~~ 151 (162)
T PRK12751 119 MAKVRNQMYNLLTPEQKEALNKKHQERIEKLQQ 151 (162)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHh
Confidence 788999999999999999987766665555543
No 7
>PRK10363 cpxP periplasmic repressor CpxP; Reviewed
Probab=93.45 E-value=0.7 Score=40.47 Aligned_cols=83 Identities=13% Similarity=0.153 Sum_probs=50.3
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHHHHH-HHHHHHhhhhhhhhhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPALIG-RIKKVQSGFVGRIAEDWVAFERQSDEELKGVIGEAMKEEMDDMVSVFVDANRL 220 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~aLs~-~ma~lQ~slad~~~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~l~qAD~L 220 (268)
+||++|...|-+|.+.-+.+.+.++. +++.++ +.+.++ .+ + . +++....+.+...=.+.-=-
T Consensus 50 dLTdaQRqQmRdLm~~~r~~~~~~~~~er~amh----~LI~ad-----~F-D---E----aavra~a~kma~~~~e~~Ve 112 (166)
T PRK10363 50 SLTEHQRQQMRDLMQQARHEQPPVNVSEMETMH----RLVTAE-----NF-D---E----NAVRAQAEKMAQEQVARQVE 112 (166)
T ss_pred CCCHHHHHHHHHHHHHHHhcccccCHHHHHHHH----HHHhcC-----CC-C---H----HHHHHHHHHHHHHHHHHHHH
Confidence 49999999999999888876555542 233333 111111 01 1 1 22333333333333333335
Q ss_pred HHHHHHHHHhhcCHHHHHHHH
Q 024389 221 RKSVIAEIVGALSVYQAALFL 241 (268)
Q Consensus 221 R~~TL~~v~~iLTp~QAA~fL 241 (268)
|.++=++|+.||||-|-+.|=
T Consensus 113 m~k~~nqmy~lLTPEQKaq~~ 133 (166)
T PRK10363 113 MAKVRNQMYRLLTPEQQAVLN 133 (166)
T ss_pred HHHHHHHHHHhCCHHHHHHHH
Confidence 778889999999999999983
No 8
>PF07813 LTXXQ: LTXXQ motif family protein; InterPro: IPR012899 This five residue motif is found in a number of bacterial proteins bearing similarity to the protein CpxP (P32158 from SWISSPROT). This is a periplasmic protein that aids in combating extracytoplasmic protein-mediated toxicity, and may also be involved in the response to alkaline pH []. Another member of this family, Spy (P77754 from SWISSPROT) is also a periplasmic protein that may be involved in the response to stress []. The homology between CpxP and Spy may indicate that these two proteins are functionally related []. The motif is found repeated twice in many members of this entry. ; GO: 0042597 periplasmic space; PDB: 3ITF_B 3QZC_B 3OEO_D 3O39_A.
Probab=93.08 E-value=0.71 Score=35.11 Aligned_cols=80 Identities=15% Similarity=0.216 Sum_probs=45.8
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHHH---HHHHHHHHhhhhhhhhhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHHHHHHH
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPAL---IGRIKKVQSGFVGRIAEDWVAFERQSDEELKGVIGEAMKEEMDDMVSVFVDAN 218 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~aL---s~~ma~lQ~slad~~~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~l~qAD 218 (268)
+||++|...+..|....+..-..+ .+.+.++.. +.. + . ..+ ..+ ..++.+...-.+.-
T Consensus 14 ~LT~eQ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~---~~~-----------~--~-~~~-~~~-~~~~~~~~~~~~~~ 74 (100)
T PF07813_consen 14 NLTDEQKAKWRAIRQAMKAKMKPLKAMREQLRALRD---PSF-----------D--E-AAP-EAL-AAMAEMMELRAEMM 74 (100)
T ss_dssp --THHHHHHHHHHHHHHCTTS------HHHHHHHHH---SS---------------H-HHH-HHH-H--HHCHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhhcccHHHHHHhcc---ccC-----------C--h-hHH-HHH-HHHHHHHHHHHHHH
Confidence 499999999999999888877777 222222222 000 0 0 011 111 12244455555566
Q ss_pred HHHHHHHHHHHhhcCHHHHHHH
Q 024389 219 RLRKSVIAEIVGALSVYQAALF 240 (268)
Q Consensus 219 ~LR~~TL~~v~~iLTp~QAA~f 240 (268)
..|..+...+..||||-|=+.|
T Consensus 75 ~~~~~~~~~~~~vLt~eQk~~~ 96 (100)
T PF07813_consen 75 EERAKAQHALYAVLTPEQKEKF 96 (100)
T ss_dssp HHHHHHHHHHHTTS-HHHHHHH
T ss_pred HHHHHHHHHHHhcCCHHHHHHH
Confidence 6788999999999999998776
No 9
>PF11239 DUF3040: Protein of unknown function (DUF3040); InterPro: IPR021401 Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=46.62 E-value=19 Score=27.43 Aligned_cols=30 Identities=23% Similarity=0.379 Sum_probs=28.3
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPALIGRIKK 171 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~ 171 (268)
||||+..+.++++++....+.+.+...|..
T Consensus 2 ~LSe~E~r~L~eiEr~L~~~DP~fa~~l~~ 31 (82)
T PF11239_consen 2 PLSEHEQRRLEEIERQLRADDPRFAARLRS 31 (82)
T ss_pred CCCHHHHHHHHHHHHHHHhcCcHHHHHhcc
Confidence 599999999999999999999999999988
No 10
>PF11459 DUF2893: Protein of unknwon function (DUF2893); InterPro: IPR021561 This is a bacterial family of uncharacterised proteins.
Probab=37.88 E-value=83 Score=23.78 Aligned_cols=41 Identities=15% Similarity=0.175 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHH
Q 024389 208 DDMVSVFVDANRLRKSVIAEIVGALSVYQAALFLEGLAQFL 248 (268)
Q Consensus 208 ~~L~~~l~qAD~LR~~TL~~v~~iLTp~QAA~fL~A~~e~~ 248 (268)
+....++.-..+||-+.|+++.+--|-.++.+-++.+|+.+
T Consensus 21 e~a~~l~egL~nLrp~~lq~LL~~C~svKvkRLfl~lA~~~ 61 (69)
T PF11459_consen 21 EEADELMEGLRNLRPRVLQELLEHCTSVKVKRLFLYLAERA 61 (69)
T ss_pred HHHHHHHHHHhhcCHHHHHHHHHHCccHHHHHHHHHHHHHc
Confidence 44556677778899999999999999999999999888865
No 11
>PRK14563 ribosome modulation factor; Provisional
Probab=37.39 E-value=8.4 Score=27.95 Aligned_cols=15 Identities=13% Similarity=0.062 Sum_probs=10.3
Q ss_pred CchhhHHHhhcCCCch
Q 024389 88 NSLEVPFLFLGDLHPY 103 (268)
Q Consensus 88 splEr~fLWiGG~RPS 103 (268)
++--+. .||||||--
T Consensus 33 ~~~~r~-~Wl~GWReg 47 (55)
T PRK14563 33 TLDARS-QWLGGWREA 47 (55)
T ss_pred CcHHHH-HHHHHHHHH
Confidence 444445 899999843
No 12
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=33.70 E-value=48 Score=31.09 Aligned_cols=47 Identities=15% Similarity=0.105 Sum_probs=34.2
Q ss_pred hHHHHHHHHHHHHHhhhchhhHHhccccCCCChhhHHHHHHHHHHhHHHHH
Q 024389 16 TLAFKDYYTNWFNTLQKTLLPLIHKSLSSSSSQTLLYSHVDLLLHHFLSYY 66 (268)
Q Consensus 16 ~~~F~~~Y~~W~~eq~~~l~eLr~a~~~~~~sd~~L~~LV~~~l~Hy~~yy 66 (268)
...|+.||++|+.|+.....|+..-- ..++-=..+|..|.-+|..--
T Consensus 75 q~~~defyEd~f~E~~~kygEiee~~----Vc~Nl~~hl~GNVYV~f~~Ee 121 (260)
T KOG2202|consen 75 QRHEDEFYEDVFTELEDKYGEIEELN----VCDNLGDHLVGNVYVKFRSEE 121 (260)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhh----hhcccchhhhhhhhhhcccHH
Confidence 36799999999999998888886642 223334467888887776543
No 13
>PF14644 DUF4456: Domain of unknown function (DUF4456)
Probab=33.69 E-value=49 Score=29.47 Aligned_cols=45 Identities=13% Similarity=0.099 Sum_probs=36.1
Q ss_pred cchhhHHHHHHHHHHHHHhhhchhhHHhccccCCCChhhHHHHHHH
Q 024389 12 KKSQTLAFKDYYTNWFNTLQKTLLPLIHKSLSSSSSQTLLYSHVDL 57 (268)
Q Consensus 12 ~~~~~~~F~~~Y~~W~~eq~~~l~eLr~a~~~~~~sd~~L~~LV~~ 57 (268)
-+.....|...|..|...-+.+...||-.+ .|+....+|..|++.
T Consensus 90 ~~~i~~~f~~~~~~~~~~k~~h~~~LrP~L-ghP~~~~eL~~L~~~ 134 (208)
T PF14644_consen 90 MKAIQEEFEQQQKQWEQQKDQHEQQLRPNL-GHPDNRQELESLCER 134 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCcC-CCCCCHHHHHHHHHH
Confidence 355667899999999999999999998765 555677788887754
No 14
>PF13586 DDE_Tnp_1_2: Transposase DDE domain
Probab=32.00 E-value=21 Score=27.03 Aligned_cols=20 Identities=20% Similarity=0.214 Sum_probs=16.2
Q ss_pred CCCCCCchhhHHHhhcCCCc
Q 024389 83 YPSWRNSLEVPFLFLGDLHP 102 (268)
Q Consensus 83 sp~W~splEr~fLWiGG~RP 102 (268)
-.+.+.-.|++|-||.+||-
T Consensus 43 ~~~~Rw~VEr~f~wlk~~Rr 62 (88)
T PF13586_consen 43 LYKRRWVVERTFAWLKRFRR 62 (88)
T ss_pred hhccceehhhhhHHHHHcCc
Confidence 34556679999999999985
No 15
>COG3130 Rmf Ribosome modulation factor [Translation, ribosomal structure and biogenesis]
Probab=31.42 E-value=16 Score=26.22 Aligned_cols=17 Identities=18% Similarity=0.288 Sum_probs=12.6
Q ss_pred CchhhHHHhhcCCCchh
Q 024389 88 NSLEVPFLFLGDLHPYL 104 (268)
Q Consensus 88 splEr~fLWiGG~RPS~ 104 (268)
+.++.--.|+||||--.
T Consensus 32 q~~~~Rs~WLgGWRea~ 48 (55)
T COG3130 32 QTLNQRSQWLGGWREAM 48 (55)
T ss_pred cCchHHHHHHHHHHHHh
Confidence 45566678999999653
No 16
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=24.33 E-value=3.3e+02 Score=20.91 Aligned_cols=63 Identities=14% Similarity=0.175 Sum_probs=36.4
Q ss_pred HHHHHHHhHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 024389 154 IECGLRLMVPALIGRIKKVQSGFVGRIAEDWVAFERQSDEELKGVIGEAMKEEMDDMVSVFVDANRLRKSVIAEIVGALS 233 (268)
Q Consensus 154 Lq~~t~~~E~aLs~~ma~lQ~slad~~~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~l~qAD~LR~~TL~~v~~iLT 233 (268)
+=.-+++.-.++++++..+|..+.+.-.. + ..+ ..+.+|+.++..-+..=+. ++..|.+||+
T Consensus 5 ILl~Ir~dIk~vd~KVdaLq~~V~~l~~~--~-----------~~v-~~l~~klDa~~~~l~~l~~----~V~~I~~iL~ 66 (75)
T PF05531_consen 5 ILLVIRQDIKAVDDKVDALQTQVDDLESN--L-----------PDV-TELNKKLDAQSAQLTTLNT----KVNEIQDILN 66 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhc--C-----------Cch-HHHHHHHHHHHHHHHHHHH----HHHHHHHHhC
Confidence 33456777788888888888888554321 0 011 2334455444444433332 6777888888
Q ss_pred H
Q 024389 234 V 234 (268)
Q Consensus 234 p 234 (268)
|
T Consensus 67 ~ 67 (75)
T PF05531_consen 67 P 67 (75)
T ss_pred C
Confidence 5
No 17
>PF00589 Phage_integrase: Phage integrase family; InterPro: IPR002104 Phage integrase proteins cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment [, ]. The catalytic site residues in CRE recombinase (P06956 from SWISSPROT) are Arg-173, His-289, Arg-292 and Tyr-324.; GO: 0003677 DNA binding, 0006310 DNA recombination, 0015074 DNA integration; PDB: 1A0P_A 1Z1G_B 1Z19_A 1AE9_A 1Z1B_A 1P7D_B 2A3V_C 1Q3V_E 1Q3U_A 1OUQ_F ....
Probab=24.21 E-value=30 Score=27.66 Aligned_cols=21 Identities=19% Similarity=0.183 Sum_probs=14.9
Q ss_pred HHHhhcCCCchhHHHHHHhhh
Q 024389 93 PFLFLGDLHPYLFTNLVRSFL 113 (268)
Q Consensus 93 ~fLWiGG~RPS~ll~Ll~s~l 113 (268)
.+++.+|+||+++.+|=...+
T Consensus 28 ~l~~~tG~R~~El~~l~~~~v 48 (173)
T PF00589_consen 28 LLLLYTGLRPSELLRLRWDDV 48 (173)
T ss_dssp HHHHHHT--HHHHHT-BGGGE
T ss_pred HHHHHHccchhhhhhhhhhhh
Confidence 478889999999999877665
No 18
>PF04957 RMF: Ribosome modulation factor; InterPro: IPR007040 This entry contains ribosome modulation factors (RMF). They associate with 70s ribosomes and converts them to a dimeric form (100S ribosomes) which appear during the transition from the exponential growth phase to the stationary phase of Escherichia colicells [, ]. It has been proposed that RMF mediates the formation of a 'storage ribosome', the 100S particle, in stationary phase by inactivating excess ribosomes to protect them from degradation and to maintain the required balance between the concentrations of ribosomes and protein synthesis factors in order to maintain translational elongation efficiency [, ]. ; PDB: 2JRM_A 3V24_V 3V22_V.
Probab=23.87 E-value=14 Score=26.76 Aligned_cols=14 Identities=14% Similarity=0.176 Sum_probs=10.5
Q ss_pred chhhHHHhhcCCCc
Q 024389 89 SLEVPFLFLGDLHP 102 (268)
Q Consensus 89 plEr~fLWiGG~RP 102 (268)
..+-.-.||||||=
T Consensus 33 ~~~~r~~Wl~GWre 46 (55)
T PF04957_consen 33 DGDARSQWLGGWRE 46 (55)
T ss_dssp SCHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHH
Confidence 44557799999983
No 19
>PF03371 PRP38: PRP38 family; InterPro: IPR005037 Members of this family are related to the pre mRNA splicing factor PRP38 from yeast [], therefore all the members of this family could be involved in splicing. This conserved region could be involved in RNA binding. The putative domain is about 180 amino acids in length. PRP38 is a unique component of the U4/U6.U5 tri-small nuclear ribonucleoprotein (snRNP) particle and is necessary for an essential step late in spliceosome maturation [].
Probab=22.92 E-value=81 Score=27.58 Aligned_cols=13 Identities=31% Similarity=0.439 Sum_probs=12.1
Q ss_pred CchhHHHHHHhhh
Q 024389 101 HPYLFTNLVRSFL 113 (268)
Q Consensus 101 RPS~ll~Ll~s~l 113 (268)
|||.+|=|++-++
T Consensus 62 ~Ps~f~CLL~KLl 74 (172)
T PF03371_consen 62 RPSPFFCLLYKLL 74 (172)
T ss_pred CCchHHHHHHHHH
Confidence 6999999999988
No 20
>PLN02796 D-glycerate 3-kinase
Probab=21.57 E-value=1.7e+02 Score=28.63 Aligned_cols=43 Identities=14% Similarity=0.189 Sum_probs=32.3
Q ss_pred HHHHHHHhhhchhhHHhccccCCCChhhHHHHHHHHHHhHHHHHHhh
Q 024389 23 YTNWFNTLQKTLLPLIHKSLSSSSSQTLLYSHVDLLLHHFLSYYDAL 69 (268)
Q Consensus 23 Y~~W~~eq~~~l~eLr~a~~~~~~sd~~L~~LV~~~l~Hy~~yy~~K 69 (268)
--+|-.+|++.+. ..... .++|+++...|+.+|=-|..||...
T Consensus 278 v~~WR~qQE~~l~---~~~~~-gMsde~v~~FV~~~mP~y~~y~~~l 320 (347)
T PLN02796 278 VYEWRLQAEIAMR---AKGKP-GMSDEEVADFVSRYMPAYKAYLPGL 320 (347)
T ss_pred HHHHHHHHHHHHH---HhCCC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 4467777776544 22222 4899999999999999999999877
No 21
>PF09236 AHSP: Alpha-haemoglobin stabilising protein; InterPro: IPR015317 Alpha-haemoglobin stabilising protein (AHSP) acts a molecular chaperone for free alpha-haemoglobin, preventing the harmful aggregation of alpha-haemoglobin during normal erythroid cell development: it specifically protects free alpha-haemoglobin from precipitation. AHSP adopts a helical secondary structure consisting of an elongated antiparallel three alpha-helix bundle []. ; GO: 0030492 hemoglobin binding, 0006457 protein folding, 0020027 hemoglobin metabolic process, 0030097 hemopoiesis, 0050821 protein stabilization; PDB: 1Y01_A 1XZY_A 3OVU_A 1W0A_A 3IA3_C 1Z8U_A 1W0B_A 1W09_A.
Probab=21.51 E-value=1.2e+02 Score=23.95 Aligned_cols=27 Identities=15% Similarity=0.311 Sum_probs=21.9
Q ss_pred CCChhhHHHHHHHHHHhHHHHHHhhhh
Q 024389 45 SSSQTLLYSHVDLLLHHFLSYYDALDS 71 (268)
Q Consensus 45 ~~sd~~L~~LV~~~l~Hy~~yy~~K~~ 71 (268)
..++..+..+|+.-++-|-+||+.+-.
T Consensus 27 ~i~ee~MvtvV~DwvnfYINYy~~~~~ 53 (89)
T PF09236_consen 27 LISEEAMVTVVNDWVNFYINYYKKQMT 53 (89)
T ss_dssp -S-HHHHHHHHHHHHHHHHHHHHTT--
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 468889999999999999999998863
No 22
>TIGR02302 aProt_lowcomp conserved hypothetical protein TIGR02302. Members of this family are long (~850 residue) bacterial proteins from the alpha Proteobacteria. Each has 2-3 predicted transmembrane helices near the N-terminus and a long C-terminal region that includes stretches of Gln/Gly-rich low complexity sequence, predicted by TMHMM to be outside the membrane. In Bradyrhizobium japonicum, two tandem reading frames are together homologous the single members found in other species; the cutoffs scores are set low enough that the longer scores above the trusted cutoff and the shorter above the noise cutoff for this model.
Probab=21.47 E-value=2.6e+02 Score=30.59 Aligned_cols=18 Identities=6% Similarity=-0.010 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHhhhhhh
Q 024389 162 VPALIGRIKKVQSGFVGR 179 (268)
Q Consensus 162 E~aLs~~ma~lQ~slad~ 179 (268)
+++|.+-|++|++.+-+-
T Consensus 522 deEI~~Lm~eLR~Am~~y 539 (851)
T TIGR02302 522 DEEIKQLTDKLRAAMQTY 539 (851)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 446666666666666664
No 23
>COG4240 Predicted kinase [General function prediction only]
Probab=20.31 E-value=2.8e+02 Score=26.32 Aligned_cols=52 Identities=15% Similarity=0.149 Sum_probs=39.9
Q ss_pred HHHHHHHHhhhchhhHHhccccCCCChhhHHHHHHHHHHhHHHHHHhhhhhhhcCCc
Q 024389 22 YYTNWFNTLQKTLLPLIHKSLSSSSSQTLLYSHVDLLLHHFLSYYDALDSAATQGNL 78 (268)
Q Consensus 22 ~Y~~W~~eq~~~l~eLr~a~~~~~~sd~~L~~LV~~~l~Hy~~yy~~K~~aA~~~DV 78 (268)
+.-.|--+|+ .+|+++.... ++|++....|+..|.-|.-|+...+..+. -|.
T Consensus 229 ~vy~WRlQqE---hkliAr~~kg-msdeqv~efvn~ymrsl~lylq~ls~~~a-l~~ 280 (300)
T COG4240 229 TVYAWRLQQE---HKLIARLAKG-MSDEQVSEFVNAYMRSLELYLQRLSEWIA-LDL 280 (300)
T ss_pred HHHHHHHHHH---HHHHHHHhcc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCC
Confidence 3446777665 3556665444 89999999999999999999999988877 553
Done!