Query psy4661
Match_columns 59
No_of_seqs 114 out of 1046
Neff 7.4
Searched_HMMs 46136
Date Fri Aug 16 22:33:05 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4661.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4661hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0164|consensus 99.5 8.4E-14 1.8E-18 98.6 6.9 58 1-58 668-726 (1001)
2 COG5022 Myosin heavy chain [Cy 99.5 9.8E-14 2.1E-18 102.5 7.3 58 1-58 718-775 (1463)
3 KOG0162|consensus 99.4 4.7E-13 1E-17 95.2 6.7 57 1-57 668-725 (1106)
4 KOG0161|consensus 99.4 5.9E-13 1.3E-17 100.7 6.8 57 2-58 747-803 (1930)
5 PTZ00014 myosin-A; Provisional 99.4 9.7E-13 2.1E-17 94.1 7.5 55 1-55 747-804 (821)
6 KOG0160|consensus 99.0 6.1E-10 1.3E-14 80.2 6.7 57 1-57 646-702 (862)
7 KOG0163|consensus 98.5 2.7E-07 5.8E-12 66.9 5.7 52 1-52 747-837 (1259)
8 PF00612 IQ: IQ calmodulin-bin 98.3 2.2E-06 4.8E-11 35.7 3.6 20 29-48 2-21 (21)
9 cd01384 MYSc_type_XI Myosin mo 98.3 3.9E-07 8.4E-12 64.6 1.7 26 1-26 648-673 (674)
10 cd01386 MYSc_type_XVIII Myosin 98.0 2.2E-06 4.8E-11 61.7 0.6 23 1-23 745-767 (767)
11 cd01378 MYSc_type_I Myosin mot 97.9 2.6E-06 5.7E-11 60.5 0.9 23 1-23 651-674 (674)
12 smart00242 MYSc Myosin. Large 97.9 3.1E-06 6.8E-11 60.0 1.2 24 1-24 654-677 (677)
13 cd01383 MYSc_type_VIII Myosin 97.9 2.8E-06 6.2E-11 60.4 0.8 23 1-23 655-677 (677)
14 cd01377 MYSc_type_II Myosin mo 97.9 3.3E-06 7.2E-11 60.1 0.8 23 1-23 671-693 (693)
15 cd01382 MYSc_type_VI Myosin mo 97.9 5.5E-06 1.2E-10 59.2 1.8 22 1-22 694-715 (717)
16 cd01380 MYSc_type_V Myosin mot 97.9 4.3E-06 9.3E-11 59.5 0.8 23 1-23 669-691 (691)
17 smart00015 IQ Short calmodulin 97.9 3.2E-05 7E-10 33.5 3.3 22 27-48 2-23 (26)
18 cd01387 MYSc_type_XV Myosin mo 97.9 4.7E-06 1E-10 59.2 0.8 23 1-23 655-677 (677)
19 cd01379 MYSc_type_III Myosin m 97.8 7.1E-06 1.5E-10 58.2 1.0 23 1-23 631-653 (653)
20 cd01381 MYSc_type_VII Myosin m 97.8 8.1E-06 1.7E-10 58.0 0.8 23 1-23 649-671 (671)
21 cd00124 MYSc Myosin motor doma 97.7 1.2E-05 2.5E-10 57.1 0.7 23 1-23 657-679 (679)
22 cd01385 MYSc_type_IX Myosin mo 97.3 0.00011 2.3E-09 52.6 1.6 23 1-23 666-688 (692)
23 KOG4427|consensus 91.5 0.7 1.5E-05 34.7 5.5 28 25-52 27-54 (1096)
24 KOG0942|consensus 87.3 1.2 2.7E-05 33.7 4.2 27 26-52 27-53 (1001)
25 KOG0160|consensus 82.4 2.9 6.2E-05 31.5 4.3 28 27-54 717-744 (862)
26 KOG0165|consensus 75.4 5 0.00011 30.4 3.7 24 28-51 943-966 (1023)
27 KOG0377|consensus 70.4 13 0.00028 26.7 4.6 30 20-49 9-38 (631)
28 PF15157 IQ-like: IQ-like 64.5 11 0.00023 21.1 2.7 20 27-46 46-65 (97)
29 PTZ00014 myosin-A; Provisional 59.1 25 0.00055 26.4 4.6 20 27-46 799-818 (821)
30 KOG1419|consensus 48.9 26 0.00057 25.7 3.2 24 20-43 328-355 (654)
31 KOG0520|consensus 48.1 42 0.00091 26.0 4.3 33 23-55 909-941 (975)
32 PF14202 TnpW: Transposon-enco 36.6 26 0.00055 16.2 1.2 21 2-22 5-29 (37)
33 PF07106 TBPIP: Tat binding pr 31.9 20 0.00044 21.2 0.5 10 4-13 53-62 (169)
34 COG4072 Uncharacterized protei 29.5 25 0.00054 21.3 0.6 15 1-15 77-91 (161)
35 PF04852 DUF640: Protein of un 29.3 23 0.00049 21.1 0.4 7 3-9 60-66 (132)
36 PF03719 Ribosomal_S5_C: Ribos 21.1 43 0.00094 17.6 0.5 12 3-14 4-15 (74)
37 KOG2128|consensus 20.9 1.6E+02 0.0036 23.9 3.6 24 28-51 592-615 (1401)
No 1
>KOG0164|consensus
Probab=99.49 E-value=8.4e-14 Score=98.62 Aligned_cols=58 Identities=29% Similarity=0.513 Sum_probs=55.0
Q ss_pred Ccccccceeecc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy4661 1 MVKWSHCTVFFR-AGVLGQMEELRDDRLGKIVGWMQSYMRGYLSRKEYKKIQEQRYCDR 58 (59)
Q Consensus 1 ~~q~G~TKVF~r-~~~~~~LE~~r~~~l~~~~~~iQ~~~rg~~~r~~~~~~~~~~~~~~ 58 (59)
|+.+|+||||+| +.+++.||+.|..++..+++.||+.||||++|.+|+++++....|+
T Consensus 668 d~a~G~TKIFIRsPrTLF~lEe~r~~~l~~lvtllQK~~RG~~~R~ry~rmka~~~ii~ 726 (1001)
T KOG0164|consen 668 DVAFGRTKIFIRSPRTLFALEEQRAERLPSLVTLLQKAWRGWLARQRYRRMKASATIIR 726 (1001)
T ss_pred hhhcCceeEEEecchhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578999999999 5899999999999999999999999999999999999999988775
No 2
>COG5022 Myosin heavy chain [Cytoskeleton]
Probab=99.49 E-value=9.8e-14 Score=102.46 Aligned_cols=58 Identities=29% Similarity=0.481 Sum_probs=54.4
Q ss_pred CcccccceeecccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELRDDRLGKIVGWMQSYMRGYLSRKEYKKIQEQRYCDR 58 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r~~~l~~~~~~iQ~~~rg~~~r~~~~~~~~~~~~~~ 58 (59)
+||+|.||||||+|+++.||++|+..+..+++.||+.|||++.|++|....+...+++
T Consensus 718 ~YqiG~TKvFfKagvL~~LE~~Rd~~~~~~~~~iq~aiR~~~~rrr~~~~~k~i~~~~ 775 (1463)
T COG5022 718 KYQIGNTKVFFKAGVLAALEDMRDAKLDNIATRIQRAIRGRYLRRRYLQALKRIKKIQ 775 (1463)
T ss_pred heeccceeEEeeCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4999999999999999999999999999999999999999999999999888776654
No 3
>KOG0162|consensus
Probab=99.42 E-value=4.7e-13 Score=95.16 Aligned_cols=57 Identities=21% Similarity=0.362 Sum_probs=53.6
Q ss_pred Ccccccceeecc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy4661 1 MVKWSHCTVFFR-AGVLGQMEELRDDRLGKIVGWMQSYMRGYLSRKEYKKIQEQRYCD 57 (59)
Q Consensus 1 ~~q~G~TKVF~r-~~~~~~LE~~r~~~l~~~~~~iQ~~~rg~~~r~~~~~~~~~~~~~ 57 (59)
+||+|.||||+| +..++.||++|+.....++..||++||.|++|++|.++++...-+
T Consensus 668 qyQmG~tkVFiKnPEsLF~LEemRer~~d~~A~~IQkAWRrfv~rrky~k~ree~t~l 725 (1106)
T KOG0162|consen 668 QYQMGVTKVFIKNPESLFLLEEMRERKWDGMARRIQKAWRRFVARRKYEKMREEATKL 725 (1106)
T ss_pred HhhccceeEEecChHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 699999999999 689999999999999999999999999999999999999877654
No 4
>KOG0161|consensus
Probab=99.41 E-value=5.9e-13 Score=100.68 Aligned_cols=57 Identities=44% Similarity=0.763 Sum_probs=55.1
Q ss_pred cccccceeecccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy4661 2 VKWSHCTVFFRAGVLGQMEELRDDRLGKIVGWMQSYMRGYLSRKEYKKIQEQRYCDR 58 (59)
Q Consensus 2 ~q~G~TKVF~r~~~~~~LE~~r~~~l~~~~~~iQ~~~rg~~~r~~~~~~~~~~~~~~ 58 (59)
|.+|.||||||.|+++.||++|+..++.+++.+|+.||||++|+.|.+...+..|+.
T Consensus 747 yriG~tKvFfkaGvla~LEe~Rd~~ls~ii~~fQA~~Rg~l~r~~~~kr~~~~~ai~ 803 (1930)
T KOG0161|consen 747 YRIGHTKVFFKAGVLAHLEEMRDEKLSQIITLFQAAIRGYLARKEFKKRLQQLDAIK 803 (1930)
T ss_pred EeecceeeeehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 789999999999999999999999999999999999999999999999999988874
No 5
>PTZ00014 myosin-A; Provisional
Probab=99.41 E-value=9.7e-13 Score=94.13 Aligned_cols=55 Identities=9% Similarity=0.233 Sum_probs=49.2
Q ss_pred CcccccceeecccchHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELRDDRLG---KIVGWMQSYMRGYLSRKEYKKIQEQRY 55 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r~~~l~---~~~~~iQ~~~rg~~~r~~~~~~~~~~~ 55 (59)
+|++|+||||||++++..||+.++.++. .+++.||++||||++|++|.+.+.+..
T Consensus 747 ~~~iGkTKVFlr~~~~~~Le~~~~~~~~~~~~~~~~iq~~~r~~~~r~~~~~~~~~~~ 804 (821)
T PTZ00014 747 SYAIGKTMVFLKKDAAKELTQIQREKLAAWEPLVSVLEALILKIKKKRKVRKNIKSLV 804 (821)
T ss_pred cEEecCCeEEEcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5999999999999999999998888864 688899999999999999999876543
No 6
>KOG0160|consensus
Probab=99.05 E-value=6.1e-10 Score=80.20 Aligned_cols=57 Identities=26% Similarity=0.457 Sum_probs=53.7
Q ss_pred CcccccceeecccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELRDDRLGKIVGWMQSYMRGYLSRKEYKKIQEQRYCD 57 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r~~~l~~~~~~iQ~~~rg~~~r~~~~~~~~~~~~~ 57 (59)
.||+|+||||++.|....||..|...+..+++.||+.+|+|+.|+.|..++.....+
T Consensus 646 ~yq~g~tkif~r~gq~~~le~~R~~vl~~~~~~iq~~~r~~~~r~~f~~~r~~~~~~ 702 (862)
T KOG0160|consen 646 LYQIGKTKIFLRAGQIAVLEARRSDVLSAAKVLIQRQIRGYLARKKFLQLRSAVIII 702 (862)
T ss_pred ceeeeeeeeeeccchhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 389999999999999999999999999999999999999999999999998877654
No 7
>KOG0163|consensus
Probab=98.51 E-value=2.7e-07 Score=66.85 Aligned_cols=52 Identities=29% Similarity=0.456 Sum_probs=40.3
Q ss_pred CcccccceeecccchHHHHHH-HHHH---H-----------------------------------HHHHHHHHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEE-LRDD---R-----------------------------------LGKIVGWMQSYMRGY 41 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~-~r~~---~-----------------------------------l~~~~~~iQ~~~rg~ 41 (59)
||++|.|||||++|-....++ ++.+ . -...++++|+++|||
T Consensus 747 DfkFGlTKVFFr~GKFaEFDqiMksDPe~m~~lv~kVn~WLv~sRWkk~q~~a~sVIKLkNkI~yRae~v~k~Q~~~Rg~ 826 (1259)
T KOG0163|consen 747 DFKFGLTKVFFRPGKFAEFDQIMKSDPETMLELVAKVNKWLVRSRWKKSQYGALSVIKLKNKIIYRAECVLKAQRIARGY 826 (1259)
T ss_pred cccccceeEeecCcchHHHHHHHhcCHHHHHHHHHHHHHHHHHhHHHHhhhhhhheeehhhHHHHHHHHHHHHHHHHHHH
Confidence 689999999999998877665 2222 0 115678999999999
Q ss_pred HHHHHHHHHHH
Q psy4661 42 LSRKEYKKIQE 52 (59)
Q Consensus 42 ~~r~~~~~~~~ 52 (59)
++|++|.+...
T Consensus 827 L~rkr~~~ri~ 837 (1259)
T KOG0163|consen 827 LARKRHRPRIA 837 (1259)
T ss_pred HHHhhhchHHH
Confidence 99999987543
No 8
>PF00612 IQ: IQ calmodulin-binding motif; InterPro: IPR000048 The IQ motif is an extremely basic unit of about 23 amino acids, whose conserved core usually fits the consensus A-x(3)-I-Q-x(2)-F-R-x(4)-K-K. The IQ motif, which can be present in one or more copies, serves as a binding site for different EF-hand proteins including the essential and regulatory myosin light chains, calmodulin (CaM), and CaM-like proteins [, ].Many IQ motifs are protein kinase C (PKC) phosphorylation sites [, ]. Resolution of the 3D structure of scallop myosin has shown that the IQ motif forms a basic amphipathic helix []. Some proteins known to contain an IQ motif are listed below: A number of conventional and unconventional myosins. Neuromodulin (GAP-43). This protein is associated with nerve growth. It is a major component of the motile "growth cones" that form the tips of elongating axons. Neurogranin (NG/p17). Acts as a "third messenger" substrate of protein kinase C-mediated molecular cascades during synaptic development and remodeling. Sperm surface protein Sp17. Ras GTPase-activating-like protein IQGAP1. IQGAP1 contains 4 IQ motifs. This entry covers the entire IQ motif.; GO: 0005515 protein binding; PDB: 2DFS_A 2IX7_C 1OE9_A 1W7J_A 1W7I_A 1KQM_A 1KK7_A 1WDC_A 1DFL_A 1B7T_A ....
Probab=98.28 E-value=2.2e-06 Score=35.68 Aligned_cols=20 Identities=60% Similarity=0.898 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy4661 29 KIVGWMQSYMRGYLSRKEYK 48 (59)
Q Consensus 29 ~~~~~iQ~~~rg~~~r~~~~ 48 (59)
.+++.||+.||||++|+.|+
T Consensus 2 ~aai~iQ~~~R~~~~Rk~~k 21 (21)
T PF00612_consen 2 KAAIIIQSYWRGYLARKRYK 21 (21)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhcC
Confidence 57889999999999999985
No 9
>cd01384 MYSc_type_XI Myosin motor domain, plant-specific type XI myosin, involved in organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new act
Probab=98.26 E-value=3.9e-07 Score=64.64 Aligned_cols=26 Identities=23% Similarity=0.437 Sum_probs=24.4
Q ss_pred CcccccceeecccchHHHHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELRDDR 26 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r~~~ 26 (59)
+|++|+||||||+++++.||+.|++.
T Consensus 648 ~~~~GktkVFlr~~~~~~LE~~R~~~ 673 (674)
T cd01384 648 GYQIGKTKVFLRAGQMAELDARRTEV 673 (674)
T ss_pred CEEecCeeEEEcCCHHHHHHHHHHhc
Confidence 59999999999999999999999875
No 10
>cd01386 MYSc_type_XVIII Myosin motor domain, type XVIII myosins. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new actin subunit. The release of Pi causes the
Probab=97.96 E-value=2.2e-06 Score=61.66 Aligned_cols=23 Identities=48% Similarity=0.794 Sum_probs=21.3
Q ss_pred CcccccceeecccchHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELR 23 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r 23 (59)
+|++|+||||||.++++.||+.|
T Consensus 745 ~~~iGkTKVFlr~~~~~~LE~~R 767 (767)
T cd01386 745 SYRIGHSQVFFRAGVLSRLEAQR 767 (767)
T ss_pred eEEeecceEEecccHHHHHhccC
Confidence 59999999999999999999865
No 11
>cd01378 MYSc_type_I Myosin motor domain, type I myosins. Myosin I generates movement at the leading edge in cell motility, and class I myosins have been implicated in phagocytosis and vesicle transport. Myosin I, an unconventional myosin, does not form dimers. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 picon
Probab=97.95 E-value=2.6e-06 Score=60.46 Aligned_cols=23 Identities=26% Similarity=0.407 Sum_probs=20.8
Q ss_pred Ccccccceeecccc-hHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAG-VLGQMEELR 23 (59)
Q Consensus 1 ~~q~G~TKVF~r~~-~~~~LE~~r 23 (59)
+|++|+||||||+| +++.||+.|
T Consensus 651 ~~~~GkTkVFlr~~~~l~~le~~R 674 (674)
T cd01378 651 EYQMGKTKIFIRNPETLFALEEMR 674 (674)
T ss_pred cEEecCceEEEeCchhHHHHHhcC
Confidence 59999999999986 899999875
No 12
>smart00242 MYSc Myosin. Large ATPases. ATPase; molecular motor. Muscle contraction consists of a cyclical interaction between myosin and actin. The core of the myosin structure is similar in fold to that of kinesin.
Probab=97.94 E-value=3.1e-06 Score=60.02 Aligned_cols=24 Identities=38% Similarity=0.673 Sum_probs=22.4
Q ss_pred CcccccceeecccchHHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELRD 24 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r~ 24 (59)
+|++|+||||||+++++.||+.|+
T Consensus 654 ~~~iGkTkVFlk~~~~~~Le~~R~ 677 (677)
T smart00242 654 EYQLGKTKVFLRPGQLAELEELRE 677 (677)
T ss_pred cEEecCceEeECccHHHHHHhhcC
Confidence 599999999999999999999885
No 13
>cd01383 MYSc_type_VIII Myosin motor domain, plant-specific type VIII myosins, a subgroup which has been associated with endocytosis, cytokinesis, cell-to-cell coupling and gating at plasmodesmata. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates f
Probab=97.93 E-value=2.8e-06 Score=60.36 Aligned_cols=23 Identities=35% Similarity=0.693 Sum_probs=21.3
Q ss_pred CcccccceeecccchHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELR 23 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r 23 (59)
+|++|+||||||.++++.||+.|
T Consensus 655 ~~~~GkTKVFlr~~~~~~LE~~r 677 (677)
T cd01383 655 MYQVGYTKLFFRTGQIGALEDTR 677 (677)
T ss_pred cEEeccceEEecCcHHHHHhhcC
Confidence 59999999999999999999865
No 14
>cd01377 MYSc_type_II Myosin motor domain, type II myosins. Myosin II mediates cortical contraction in cell motility, and is the motor in smooth and skeletal muscle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydro
Probab=97.91 E-value=3.3e-06 Score=60.12 Aligned_cols=23 Identities=52% Similarity=0.983 Sum_probs=21.4
Q ss_pred CcccccceeecccchHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELR 23 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r 23 (59)
+|++|+||||||++++..||+.|
T Consensus 671 ~~~~G~TKVFlk~~~~~~LE~~R 693 (693)
T cd01377 671 QYRFGHTKVFFRAGVLAHLEEMR 693 (693)
T ss_pred cEEecCCeEeECccHHHHHhhcC
Confidence 59999999999999999999865
No 15
>cd01382 MYSc_type_VI Myosin motor domain, type VI myosins. Myosin VI is a monomeric myosin, which moves towards the minus-end of actin filaments, in contrast to most other myosins. It has been implicated in endocytosis, secretion, and cell migration. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the minus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of
Probab=97.90 E-value=5.5e-06 Score=59.23 Aligned_cols=22 Identities=27% Similarity=0.623 Sum_probs=20.6
Q ss_pred CcccccceeecccchHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEEL 22 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~ 22 (59)
+|++|+||||||+|+++.||++
T Consensus 694 ~~~~GkTKVFlr~g~~~~le~~ 715 (717)
T cd01382 694 DYKFGLTKVFFRPGKFAEFDQI 715 (717)
T ss_pred cEEecceeEEecccHHHHHHHH
Confidence 5999999999999999999975
No 16
>cd01380 MYSc_type_V Myosin motor domain, type V myosins. Myosins V transport a variety of intracellular cargo processively along actin filaments, such as membraneous organelles and mRNA. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an act
Probab=97.87 E-value=4.3e-06 Score=59.54 Aligned_cols=23 Identities=35% Similarity=0.703 Sum_probs=21.3
Q ss_pred CcccccceeecccchHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELR 23 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r 23 (59)
+|++|+||||||++++..||+.|
T Consensus 669 ~~~~G~tkVFlk~~~~~~LE~~R 691 (691)
T cd01380 669 KYQFGKTKIFFRAGQVAFLEKLR 691 (691)
T ss_pred cEEecCceEEECcCHHHHHhhcC
Confidence 59999999999999999999865
No 17
>smart00015 IQ Short calmodulin-binding motif containing conserved Ile and Gln residues. Calmodulin-binding motif.
Probab=97.86 E-value=3.2e-05 Score=33.54 Aligned_cols=22 Identities=45% Similarity=0.685 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy4661 27 LGKIVGWMQSYMRGYLSRKEYK 48 (59)
Q Consensus 27 l~~~~~~iQ~~~rg~~~r~~~~ 48 (59)
...+++.||+.||||++|+.|.
T Consensus 2 ~~~aa~~IQa~~Rg~~~r~~y~ 23 (26)
T smart00015 2 LTRAAIIIQAAWRGYLARKRYK 23 (26)
T ss_pred HHHHHHHHHHHHHHHHHHHhhh
Confidence 3578899999999999999984
No 18
>cd01387 MYSc_type_XV Myosin motor domain, type XV myosins. In vertebrates, myosin XV appears to be expressed in sensory tissue and play a role in hearing. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis caus
Probab=97.86 E-value=4.7e-06 Score=59.24 Aligned_cols=23 Identities=17% Similarity=0.387 Sum_probs=21.3
Q ss_pred CcccccceeecccchHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELR 23 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r 23 (59)
+|++|+||||||+++...||+.|
T Consensus 655 ~~~iG~TkVFlk~~~~~~LE~~r 677 (677)
T cd01387 655 MYRVGASKLFLKEHLHQLLESMR 677 (677)
T ss_pred cEEecceeEEEcCCHHHHHHhcC
Confidence 59999999999999999999875
No 19
>cd01379 MYSc_type_III Myosin motor domain, type III myosins. Myosin III has been shown to play a role in the vision process in insects and in hearing in mammals. Myosin III, an unconventional myosin, does not form dimers. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the
Probab=97.80 E-value=7.1e-06 Score=58.18 Aligned_cols=23 Identities=17% Similarity=0.200 Sum_probs=21.2
Q ss_pred CcccccceeecccchHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELR 23 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r 23 (59)
+|++|+||||||.+.++.||.+|
T Consensus 631 ~~~~GktkvFlk~~~~~~le~~~ 653 (653)
T cd01379 631 NWALGKTKVFLKYYHVEQLNLMR 653 (653)
T ss_pred CEEecceEEEEecCHHHHHHhcC
Confidence 59999999999999999999864
No 20
>cd01381 MYSc_type_VII Myosin motor domain, type VII myosins. Myosins in this group have been associated with functions in sensory systems such as vision and hearing. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydr
Probab=97.76 E-value=8.1e-06 Score=58.04 Aligned_cols=23 Identities=17% Similarity=0.107 Sum_probs=21.2
Q ss_pred CcccccceeecccchHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELR 23 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r 23 (59)
+|++|+||||||++.+..||+.|
T Consensus 649 ~~~~G~TkVFlr~~~~~~LE~~r 671 (671)
T cd01381 649 DWQLGKTKVFLKDHHDLLLEQER 671 (671)
T ss_pred cEEeccceEEECcCHHHHHhhcC
Confidence 59999999999999999999865
No 21
>cd00124 MYSc Myosin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new actin subunit. The release of Pi causes the head to pivot and move the fila
Probab=97.69 E-value=1.2e-05 Score=57.13 Aligned_cols=23 Identities=26% Similarity=0.527 Sum_probs=21.1
Q ss_pred CcccccceeecccchHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELR 23 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r 23 (59)
+|++|+||||||++++..||+.|
T Consensus 657 ~~~vGkTkVFlr~~~~~~LE~~r 679 (679)
T cd00124 657 EWQVGKTKVFLKEGQLSELEKMR 679 (679)
T ss_pred CEEecCCeEEECcCHHHHHhccC
Confidence 59999999999999999999764
No 22
>cd01385 MYSc_type_IX Myosin motor domain, type IX myosins. Myosin IX is a processive single-headed motor, which might play a role in signalling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the hea
Probab=97.32 E-value=0.00011 Score=52.63 Aligned_cols=23 Identities=13% Similarity=0.186 Sum_probs=20.9
Q ss_pred CcccccceeecccchHHHHHHHH
Q psy4661 1 MVKWSHCTVFFRAGVLGQMEELR 23 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~~~~LE~~r 23 (59)
+|++|+||||||++....||+.-
T Consensus 666 ~~~iGkTkVFlr~~~~~~Le~~~ 688 (692)
T cd01385 666 NYQIGKTKIFMRETEKQALDETL 688 (692)
T ss_pred cEEeeCceEEEcccHHHHHHHHH
Confidence 59999999999999999999854
No 23
>KOG4427|consensus
Probab=91.46 E-value=0.7 Score=34.68 Aligned_cols=28 Identities=25% Similarity=0.305 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy4661 25 DRLGKIVGWMQSYMRGYLSRKEYKKIQE 52 (59)
Q Consensus 25 ~~l~~~~~~iQ~~~rg~~~r~~~~~~~~ 52 (59)
.+-+.++..||+.+|||++|++++.-..
T Consensus 27 rrr~~aa~~iq~~lrsyl~Rkk~~~~I~ 54 (1096)
T KOG4427|consen 27 RRREAAALFIQRVLRSYLVRKKAQIEIQ 54 (1096)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788999999999999999886544
No 24
>KOG0942|consensus
Probab=87.33 E-value=1.2 Score=33.66 Aligned_cols=27 Identities=26% Similarity=0.298 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy4661 26 RLGKIVGWMQSYMRGYLSRKEYKKIQE 52 (59)
Q Consensus 26 ~l~~~~~~iQ~~~rg~~~r~~~~~~~~ 52 (59)
+-++.++.+|+.||||..|++.+..-+
T Consensus 27 k~e~~av~vQs~~Rg~~~r~~~~~~~R 53 (1001)
T KOG0942|consen 27 KQEKNAVKVQSFWRGFRVRHNQKLLFR 53 (1001)
T ss_pred HHhccchHHHHHHHHHHHHHHHHHHHH
Confidence 456778899999999999998765433
No 25
>KOG0160|consensus
Probab=82.43 E-value=2.9 Score=31.50 Aligned_cols=28 Identities=21% Similarity=0.297 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy4661 27 LGKIVGWMQSYMRGYLSRKEYKKIQEQR 54 (59)
Q Consensus 27 l~~~~~~iQ~~~rg~~~r~~~~~~~~~~ 54 (59)
...+++.+|+.+|++..|++|...+...
T Consensus 717 ~~~aai~~q~~~r~~~~r~~y~~~~~~~ 744 (862)
T KOG0160|consen 717 REAAAIGIQKECRSYLNRRRYRALIPAS 744 (862)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 3444556666666666666666655544
No 26
>KOG0165|consensus
Probab=75.42 E-value=5 Score=30.37 Aligned_cols=24 Identities=21% Similarity=0.454 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy4661 28 GKIVGWMQSYMRGYLSRKEYKKIQ 51 (59)
Q Consensus 28 ~~~~~~iQ~~~rg~~~r~~~~~~~ 51 (59)
.+.++.||.+.||+.+|++|+.-.
T Consensus 943 Kkaavviqkmirgfiarrkfqmei 966 (1023)
T KOG0165|consen 943 KKAAVVIQKMIRGFIARRKFQMEI 966 (1023)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 367788999999999999998743
No 27
>KOG0377|consensus
Probab=70.35 E-value=13 Score=26.73 Aligned_cols=30 Identities=27% Similarity=0.297 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy4661 20 EELRDDRLGKIVGWMQSYMRGYLSRKEYKK 49 (59)
Q Consensus 20 E~~r~~~l~~~~~~iQ~~~rg~~~r~~~~~ 49 (59)
|-.++..--++|+.||++.|+|.+|..-++
T Consensus 9 ~~~~s~raikaAilIQkWYRr~~ARle~rr 38 (631)
T KOG0377|consen 9 ELKKSTRAIKAAILIQKWYRRYEARLEARR 38 (631)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566667788889999999999887554
No 28
>PF15157 IQ-like: IQ-like
Probab=64.48 E-value=11 Score=21.11 Aligned_cols=20 Identities=35% Similarity=0.473 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy4661 27 LGKIVGWMQSYMRGYLSRKE 46 (59)
Q Consensus 27 l~~~~~~iQ~~~rg~~~r~~ 46 (59)
++.-+.+||+.||-|+.|.-
T Consensus 46 Leskvkiiqrawre~lq~qd 65 (97)
T PF15157_consen 46 LESKVKIIQRAWREYLQRQD 65 (97)
T ss_pred hhHHHHHHHHHHHHHHHhcC
Confidence 34556679999999998865
No 29
>PTZ00014 myosin-A; Provisional
Probab=59.13 E-value=25 Score=26.43 Aligned_cols=20 Identities=25% Similarity=0.052 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy4661 27 LGKIVGWMQSYMRGYLSRKE 46 (59)
Q Consensus 27 l~~~~~~iQ~~~rg~~~r~~ 46 (59)
...+++.||+.+|+|+.++.
T Consensus 799 ~~~~~~~iQ~~~R~~l~~~~ 818 (821)
T PTZ00014 799 NIKSLVRIQAHLRRHLVIAE 818 (821)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 35678899999999998864
No 30
>KOG1419|consensus
Probab=48.94 E-value=26 Score=25.68 Aligned_cols=24 Identities=21% Similarity=0.299 Sum_probs=18.0
Q ss_pred HHHHHHHHH----HHHHHHHHHHHHHHH
Q psy4661 20 EELRDDRLG----KIVGWMQSYMRGYLS 43 (59)
Q Consensus 20 E~~r~~~l~----~~~~~iQ~~~rg~~~ 43 (59)
|+.|.++.+ -+|..||+.||.|.+
T Consensus 328 eq~RQKHf~rrr~pAA~LIQc~WR~yaa 355 (654)
T KOG1419|consen 328 EQHRQKHFNRRRNPAASLIQCAWRYYAA 355 (654)
T ss_pred HHHHHHHHHhhcchHHHHHHHHHHHHhc
Confidence 356666554 678999999998875
No 31
>KOG0520|consensus
Probab=48.08 E-value=42 Score=25.97 Aligned_cols=33 Identities=21% Similarity=0.329 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy4661 23 RDDRLGKIVGWMQSYMRGYLSRKEYKKIQEQRY 55 (59)
Q Consensus 23 r~~~l~~~~~~iQ~~~rg~~~r~~~~~~~~~~~ 55 (59)
-+.++.++++.||+.+|-+.++..|+++.....
T Consensus 909 ~~~r~~~A~~~VQsm~rs~~a~qqyrR~~~~~~ 941 (975)
T KOG0520|consen 909 TEERLTRAVVRVQSMFRSPKAQQQYRRLLLVYE 941 (975)
T ss_pred HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH
Confidence 345788999999999999999999998876543
No 32
>PF14202 TnpW: Transposon-encoded protein TnpW
Probab=36.61 E-value=26 Score=16.15 Aligned_cols=21 Identities=24% Similarity=0.230 Sum_probs=14.9
Q ss_pred cccccce----eecccchHHHHHHH
Q psy4661 2 VKWSHCT----VFFRAGVLGQMEEL 22 (59)
Q Consensus 2 ~q~G~TK----VF~r~~~~~~LE~~ 22 (59)
+++|+|- ++|.+..-+.+++.
T Consensus 5 ~kIG~Tty~V~~~F~~~s~et~~DK 29 (37)
T PF14202_consen 5 KKIGKTTYVVEVHFSETSKETMQDK 29 (37)
T ss_pred EEECCEEEEEEEEECCCccccHHHH
Confidence 5678774 88888777666653
No 33
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=31.94 E-value=20 Score=21.25 Aligned_cols=10 Identities=10% Similarity=0.571 Sum_probs=8.7
Q ss_pred cccceeeccc
Q psy4661 4 WSHCTVFFRA 13 (59)
Q Consensus 4 ~G~TKVF~r~ 13 (59)
+||+|||+-.
T Consensus 53 ~GKqkiY~~~ 62 (169)
T PF07106_consen 53 YGKQKIYFAN 62 (169)
T ss_pred ecceEEEeeC
Confidence 7999999984
No 34
>COG4072 Uncharacterized protein conserved in archaea [Function unknown]
Probab=29.50 E-value=25 Score=21.29 Aligned_cols=15 Identities=7% Similarity=0.096 Sum_probs=11.9
Q ss_pred Ccccccceeecccch
Q psy4661 1 MVKWSHCTVFFRAGV 15 (59)
Q Consensus 1 ~~q~G~TKVF~r~~~ 15 (59)
+|--|+|++|+|.|.
T Consensus 77 ey~drRt~~ylkkGd 91 (161)
T COG4072 77 EYPDRRTKTYLKKGD 91 (161)
T ss_pred eccCCcEEEEecCCC
Confidence 356789999999864
No 35
>PF04852 DUF640: Protein of unknown function (DUF640); InterPro: IPR006936 This conserved region is found in plant proteins including the resistance protein-like protein (O49468 from SWISSPROT).
Probab=29.35 E-value=23 Score=21.06 Aligned_cols=7 Identities=14% Similarity=0.434 Sum_probs=5.9
Q ss_pred cccccee
Q psy4661 3 KWSHCTV 9 (59)
Q Consensus 3 q~G~TKV 9 (59)
++|+|||
T Consensus 60 ~~GkTkV 66 (132)
T PF04852_consen 60 QFGKTKV 66 (132)
T ss_pred ccCCeee
Confidence 6899997
No 36
>PF03719 Ribosomal_S5_C: Ribosomal protein S5, C-terminal domain; InterPro: IPR005324 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This is a family of proteins related to the 30S ribosomal protein S5P from Sulfolobus acidocaldarius (O05641 from SWISSPROT). Ribosomal protein S5 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S5 is known to be important in the assembly and function of the 30S ribosomal subunit. Mutations in S5 have been shown to increase translational error frequencies.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2XZN_E 2XZM_E 2WDK_E 3KNJ_E 3HUY_E 2B9M_E 2Y18_E 1XMQ_E 1IBM_E 3TVF_H ....
Probab=21.06 E-value=43 Score=17.55 Aligned_cols=12 Identities=25% Similarity=0.609 Sum_probs=8.8
Q ss_pred ccccceeecccc
Q psy4661 3 KWSHCTVFFRAG 14 (59)
Q Consensus 3 q~G~TKVF~r~~ 14 (59)
++|.|+|++++.
T Consensus 4 k~g~~~V~l~Pa 15 (74)
T PF03719_consen 4 KFGATKVFLKPA 15 (74)
T ss_dssp EETTEEEEEEES
T ss_pred EEeeEEEEEEeC
Confidence 467888888853
No 37
>KOG2128|consensus
Probab=20.90 E-value=1.6e+02 Score=23.93 Aligned_cols=24 Identities=46% Similarity=0.462 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy4661 28 GKIVGWMQSYMRGYLSRKEYKKIQ 51 (59)
Q Consensus 28 ~~~~~~iQ~~~rg~~~r~~~~~~~ 51 (59)
...++.+|+..||+++|++|.+..
T Consensus 592 ~~evv~~qs~~R~~lsrk~~~~~~ 615 (1401)
T KOG2128|consen 592 KKEVVKFQSLTRGALSRKKYSRKL 615 (1401)
T ss_pred hHHHHHHHHHHHHHHHHhhHHHHH
Confidence 456788999999999999987654
Done!