Query 032971
Match_columns 130
No_of_seqs 125 out of 188
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 08:11:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032971.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032971hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03222 rapid alkalinization 100.0 3.1E-31 6.7E-36 198.9 2.3 75 49-130 42-119 (119)
2 PLN03221 rapid alkalinization 100.0 1.1E-29 2.3E-34 194.2 3.9 61 63-130 77-137 (137)
3 PF05498 RALF: Rapid ALkaliniz 99.9 4.9E-27 1.1E-31 159.7 2.9 65 59-130 2-66 (66)
4 PF03954 Lectin_N: Hepatic lec 33.0 74 0.0016 25.0 3.9 42 4-46 31-72 (138)
5 PF15330 SIT: SHP2-interacting 30.3 1.4E+02 0.003 22.0 4.8 13 79-91 90-102 (107)
6 PF14851 FAM176: FAM176 family 25.8 1.7E+02 0.0038 23.0 4.9 10 16-25 33-42 (153)
7 PRK06742 flagellar motor prote 21.3 97 0.0021 24.9 2.8 37 10-49 13-49 (225)
8 PF13677 MotB_plug: Membrane M 19.2 1.7E+02 0.0037 19.0 3.2 11 36-46 41-51 (58)
9 PF12729 4HB_MCP_1: Four helix 17.5 2.6E+02 0.0056 19.1 3.9 13 13-25 12-24 (181)
10 PF08358 Flexi_CP_N: Carlaviru 17.2 70 0.0015 21.2 0.9 9 112-120 38-46 (52)
No 1
>PLN03222 rapid alkalinization factor 23-like protein; Provisional
Probab=99.96 E-value=3.1e-31 Score=198.90 Aligned_cols=75 Identities=47% Similarity=0.772 Sum_probs=64.9
Q ss_pred cCccccccccc---ccCCCCCccccccccccccccceeccccccCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCcc
Q 032971 49 EWPMLSMSFDE---EEGEGPEGEGGRRSLFWQRMKYYISYGALSANRIPCPPRSGRSYYTPNCYKARGPVHPYTRGCSVI 125 (130)
Q Consensus 49 ~~~~~~~~~~~---~ee~~~~se~~RR~L~~~~~~~YIsYgAL~rd~vPC~pr~G~SYy~~nC~kp~~pANPYsRGCs~i 125 (130)
++-+++.+|.+ |||.+||||++||+|+ +++|||||||++|++||+ ++|+||| ||+ +++|+|||+|||++|
T Consensus 42 ~C~Gsi~EC~~~~~e~e~~mdSe~sRR~L~---~~rYISYgALrrd~vPCs-rrG~SYy--nC~-~~~~ANPY~RGCs~I 114 (119)
T PLN03222 42 KCNGTIAECSLSTAEEEFEMDSEINRRILA---TTKYISYGALRRNTVPCS-RRGASYY--NCR-RGAQANPYSRGCSAI 114 (119)
T ss_pred cCCCCHHHhhcccccchhccccHHHHHHHh---hcCeecHHHhcCCCCCCC-CCCCCcc--ccC-CCCCCCCCCCCchhh
Confidence 35577878754 3344899999999998 469999999999999999 5799999 996 478999999999999
Q ss_pred cccCC
Q 032971 126 TRCRR 130 (130)
Q Consensus 126 tRCRR 130 (130)
|||||
T Consensus 115 TrCrR 119 (119)
T PLN03222 115 TRCRR 119 (119)
T ss_pred ccccC
Confidence 99997
No 2
>PLN03221 rapid alkalinization factor 23; Provisional
Probab=99.96 E-value=1.1e-29 Score=194.17 Aligned_cols=61 Identities=56% Similarity=1.012 Sum_probs=56.1
Q ss_pred CCCCccccccccccccccceeccccccCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCcccccCC
Q 032971 63 EGPEGEGGRRSLFWQRMKYYISYGALSANRIPCPPRSGRSYYTPNCYKARGPVHPYTRGCSVITRCRR 130 (130)
Q Consensus 63 ~~~~se~~RR~L~~~~~~~YIsYgAL~rd~vPC~pr~G~SYy~~nC~kp~~pANPYsRGCs~itRCRR 130 (130)
.+||||++||+|+ +++||||+||++|++||+ ++|+||| ||++ ++|+|||+|||++||||||
T Consensus 77 ~~MdSE~sRR~L~---~~rYISYgALrrd~vPCs-rrG~SYy--nC~~-~~pANPY~RGCs~ITRCrR 137 (137)
T PLN03221 77 FEMDSEINRRILA---TRRYISYGALRRNTIPCS-RRGASYY--NCRR-GAQANPYSRGCSAITRCRR 137 (137)
T ss_pred hhcccHHHHHHHh---cCCccCHHHhccCCCCCC-CCCCCcc--ccCC-CCCCCCCCCCcccccccCC
Confidence 3899999999998 468999999999999999 5699999 9974 7899999999999999997
No 3
>PF05498 RALF: Rapid ALkalinization Factor (RALF) ; InterPro: IPR008801 RALF, a 5 kDa ubiquitous polypeptide in plants, arrests root growth and development.
Probab=99.93 E-value=4.9e-27 Score=159.67 Aligned_cols=65 Identities=58% Similarity=1.035 Sum_probs=57.7
Q ss_pred cccCCCCCccccccccccccccceeccccccCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCcccccCC
Q 032971 59 EEEGEGPEGEGGRRSLFWQRMKYYISYGALSANRIPCPPRSGRSYYTPNCYKARGPVHPYTRGCSVITRCRR 130 (130)
Q Consensus 59 ~~ee~~~~se~~RR~L~~~~~~~YIsYgAL~rd~vPC~pr~G~SYy~~nC~kp~~pANPYsRGCs~itRCRR 130 (130)
||+++.|+++++||+|++ ++|||||||++|.+||+ .+|.||| ||. +++|||||+|||++||||||
T Consensus 2 ee~~~~~~s~~~~R~~a~---~~yIsYgaL~~~~~pc~-~~g~~~~--~c~-~~~paNpY~RGC~~~~rCrr 66 (66)
T PF05498_consen 2 EEEEVVMESEASRRILAA---RRYISYGALRRDRVPCS-PRGCSYY--NCC-PRQPANPYSRGCSKITRCRR 66 (66)
T ss_pred hhHHhhhhhHHHHHHHhc---CCeecchhccCCCCCCC-cccCCCc--ccC-CCCCCCCCCCCCCccccCCC
Confidence 345569999999999984 49999999999999999 4699999 884 57999999999999999997
No 4
>PF03954 Lectin_N: Hepatic lectin, N-terminal domain; InterPro: IPR005640 Animal lectins display a wide variety of architectures. They are classified according to the carbohydrate-recognition domain (CRD) of which there are two main types, S-type and C-type. C-type lectins display a wide range of specificities. They require Ca2+ for their activity They are found predominantly but not exclusively in vertebrates. This entry presents N-terminal domain, which is found in C-type lectins.; GO: 0005529 sugar binding, 0016020 membrane
Probab=32.99 E-value=74 Score=24.99 Aligned_cols=42 Identities=21% Similarity=0.254 Sum_probs=25.1
Q ss_pred chhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhHHhhhhc
Q 032971 4 APATVKLLKFGIGLMLMHMISMNLLHVEAQVAVDESRLELMSD 46 (130)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~aq~~vd~~~~~~~~~ 46 (130)
+.+-|.||..|+.+.|++.|.++.. =.+|+..|-.+|+..-.
T Consensus 31 s~~~l~LlsLgl~~LLLV~IcVigs-Q~~qlq~dl~tLretfs 72 (138)
T PF03954_consen 31 SGPRLLLLSLGLSLLLLVVICVIGS-QNSQLQRDLRTLRETFS 72 (138)
T ss_pred ccchHHHHHHHHHHHHHHHHHhhcC-ccHHHHHHHHHHHHHHh
Confidence 3455677777777777777666543 34566667555544433
No 5
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=30.27 E-value=1.4e+02 Score=21.98 Aligned_cols=13 Identities=15% Similarity=0.273 Sum_probs=8.1
Q ss_pred ccceeccccccCC
Q 032971 79 MKYYISYGALSAN 91 (130)
Q Consensus 79 ~~~YIsYgAL~rd 91 (130)
.+.-|.|.+|..+
T Consensus 90 ~~e~~~YASL~~~ 102 (107)
T PF15330_consen 90 PEEQMCYASLDLS 102 (107)
T ss_pred cccceeeeeeccc
Confidence 3456777777554
No 6
>PF14851 FAM176: FAM176 family
Probab=25.85 E-value=1.7e+02 Score=23.01 Aligned_cols=10 Identities=30% Similarity=0.544 Sum_probs=4.0
Q ss_pred HHHHHHHHHh
Q 032971 16 GLMLMHMISM 25 (130)
Q Consensus 16 ~~~~~~~~~~ 25 (130)
+|.|++|++.
T Consensus 33 GLlLtLcllV 42 (153)
T PF14851_consen 33 GLLLTLCLLV 42 (153)
T ss_pred HHHHHHHHHH
Confidence 3334444433
No 7
>PRK06742 flagellar motor protein MotS; Reviewed
Probab=21.25 E-value=97 Score=24.89 Aligned_cols=37 Identities=19% Similarity=0.216 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhhhhhhhhhHHhhhhcccc
Q 032971 10 LLKFGIGLMLMHMISMNLLHVEAQVAVDESRLELMSDALE 49 (130)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~aq~~vd~~~~~~~~~~~~ 49 (130)
|++|+=+++||++++..+..++ + ||...++.+.+.+.
T Consensus 13 l~TyaDm~TLLL~FFVlL~s~S-~--vd~~k~~~~~~s~~ 49 (225)
T PRK06742 13 MTTFTDLTMLLLTFFVLLVATS-K--QDAVKLSKMLEKFS 49 (225)
T ss_pred hhhHHHHHHHHHHHHHHHHHHh-h--cCHHHHHHHHHHHH
Confidence 4455544444444444443233 4 67666666655544
No 8
>PF13677 MotB_plug: Membrane MotB of proton-channel complex MotA/MotB
Probab=19.20 E-value=1.7e+02 Score=18.98 Aligned_cols=11 Identities=27% Similarity=0.564 Sum_probs=5.2
Q ss_pred hhhhHHhhhhc
Q 032971 36 VDESRLELMSD 46 (130)
Q Consensus 36 vd~~~~~~~~~ 46 (130)
+|...++.+.+
T Consensus 41 ~d~~k~~~~~~ 51 (58)
T PF13677_consen 41 VDKEKFEEVAQ 51 (58)
T ss_pred CCHHHHHHHHH
Confidence 45445554443
No 9
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=17.55 E-value=2.6e+02 Score=19.06 Aligned_cols=13 Identities=23% Similarity=0.792 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHh
Q 032971 13 FGIGLMLMHMISM 25 (130)
Q Consensus 13 ~~~~~~~~~~~~~ 25 (130)
||+++.+++.+..
T Consensus 12 f~~~~~l~~~~~~ 24 (181)
T PF12729_consen 12 FGLIILLLLIVGI 24 (181)
T ss_pred HHHHHHHHHHHHH
Confidence 4444444444433
No 10
>PF08358 Flexi_CP_N: Carlavirus coat; InterPro: IPR013569 This domain is found together with the viral coat protein domain (IPR000052 from INTERPRO) in coat/capsid proteins of the plant infecting Carlavirus. It is required for genome encapsidation by forming ribonucleoprotein complexes along with TGB1 helicase and viral RNA. The N- and the C terminus of this coat protein can be exposed on the surface of the virus particle. The central core sequence may be important in maintaining correct tertiary structure of the coat protein and/or play a role in the interaction with the viral RNA. Coat proteins are often used to distinguish between Carlavirus isolates. In the coat protein amino acid sequences of definitive and tentative species of carlaviruses, there is a region of seven amino acids (GLGVPTE) that are conserved []. The complete coat protein (CP) sequences of 29 Indian Chrysanthemum virus B (CVB) isolates were highly heterogeneous, sharing nucleotide sequence identities of 74-98% [, ].
Probab=17.16 E-value=70 Score=21.17 Aligned_cols=9 Identities=44% Similarity=1.091 Sum_probs=0.0
Q ss_pred CCCCCCCCC
Q 032971 112 RGPVHPYTR 120 (130)
Q Consensus 112 ~~pANPYsR 120 (130)
+.++|||+|
T Consensus 38 ~d~tN~y~R 46 (52)
T PF08358_consen 38 GDPTNPYSR 46 (52)
T ss_pred CCcCcccCC
Done!