RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10623
(216 letters)
>gnl|CDD|215849 pfam00307, CH, Calponin homology (CH) domain. The CH domain is
found in both cytoskeletal proteins and signal
transduction proteins. The CH domain is involved in
actin binding in some members of the family. However in
calponins there is evidence that the CH domain is not
involved in its actin binding activity. Most member
proteins have from two to four copies of the CH domain,
however some proteins such as calponin have only a
single copy.
Length = 104
Score = 112 bits (282), Expect = 3e-32
Identities = 35/104 (33%), Positives = 56/104 (53%), Gaps = 3/104 (2%)
Query: 20 KDALLLWCQRKTNGYPGVNIQDFTGSWRSGLGFNALIHAHRPDLIDFSQLQPTR--HIDN 77
+ ALL W Y G+ + +F R GL AL++ RP LID ++ R ++N
Sbjct: 1 EKALLRWINEVLGEYGGLPVTNFFEDLRDGLALCALLNKLRPGLIDLKKVNKNRFDKLEN 60
Query: 78 LNNAFDVASTELGIPRLLDAEDVDTTRPDEKSVITYVASYYHTF 121
LN A + A +LG+P++L+ ED+ +EK V+T +A + F
Sbjct: 61 LNLALEFAEKKLGVPKVLEPEDLV-EDGNEKLVLTLLAQLFRRF 103
>gnl|CDD|227401 COG5069, SAC6, Ca2+-binding actin-bundling protein fimbrin/plastin
(EF-Hand superfamily) [Cytoskeleton].
Length = 612
Score = 116 bits (291), Expect = 4e-30
Identities = 51/128 (39%), Positives = 70/128 (54%), Gaps = 5/128 (3%)
Query: 11 NESSEKKSAKDALLLWCQRKTNGY-PGVNIQDFTGSWRSGLGFNALIHAHRPDLID--FS 67
NE E + LLLWC T GY P V+ DF SWR GL F+ALIH RPD +D
Sbjct: 119 NEEGEL-TKHINLLLWCDEDTGGYKPEVDTFDFFRSWRDGLAFSALIHDSRPDTLDPNVL 177
Query: 68 QLQPTRHIDNLNNAFDVASTELGIPRLLDAEDV-DTTRPDEKSVITYVASYYHTFARMKN 126
LQ N AF+ A+ +GI RL+ ED+ + + PDE+S++TYV+ Y F ++
Sbjct: 178 DLQKKNKALNNFQAFENANKVIGIARLIGVEDIVNVSIPDERSIMTYVSWYIIRFGLLEK 237
Query: 127 EMKSGRRI 134
+ R+
Sbjct: 238 IDIALHRV 245
>gnl|CDD|237981 cd00014, CH, Calponin homology domain; actin-binding domain which
may be present as a single copy or in tandem repeats
(which increases binding affinity). The CH domain is
found in cytoskeletal and signal transduction proteins,
including actin-binding proteins like spectrin,
alpha-actinin, dystrophin, utrophin, and fimbrin,
proteins essential for regulation of cell shape
(cortexillins), and signaling proteins (Vav).
Length = 107
Score = 101 bits (253), Expect = 7e-28
Identities = 34/109 (31%), Positives = 54/109 (49%), Gaps = 6/109 (5%)
Query: 18 SAKDALLLWCQRKTNGYPGVNIQDFTGSWRSGLGFNALIHAHRPDLIDFSQ---LQPTRH 74
S K+ LL W + Y V I +F+ + G+ L+++ PDLID + L +
Sbjct: 1 SQKEELLRWINKVLGEYGPVTINNFSTDLKDGIALCKLLNSLSPDLIDKKKINPLSRFKR 60
Query: 75 IDNLNNAFDVASTELGIPR-LLDAEDVDTTRPDEKSVITYVASYYHTFA 122
++N+N A + A +LG+P DAED+ DEK V+ + S F
Sbjct: 61 LENINLALNFAE-KLGVPVVNFDAEDLV-EDGDEKLVLGLLWSLIRKFL 107
>gnl|CDD|214479 smart00033, CH, Calponin homology domain. Actin binding domains
present in duplicate at the N-termini of spectrin-like
proteins (including dystrophin, alpha-actinin). These
domains cross-link actin filaments into bundles and
networks. A calponin homology domain is predicted in
yeasst Cdc24p.
Length = 101
Score = 90.5 bits (225), Expect = 1e-23
Identities = 24/101 (23%), Positives = 40/101 (39%), Gaps = 4/101 (3%)
Query: 21 DALLLWCQRKTNGYPGVNIQDFTGSWRSGLGFNALIHAHRPDLIDF----SQLQPTRHID 76
LL W Y + +F+ + G+ AL+++ P L+D + L + I+
Sbjct: 1 KTLLRWVNSLLAEYDKPPVTNFSSDLKDGVALCALLNSLSPGLVDKKKVAASLSRFKKIE 60
Query: 77 NLNNAFDVASTELGIPRLLDAEDVDTTRPDEKSVITYVASY 117
N+N A A G L + ED+ VI + S
Sbjct: 61 NINLALSFAEKLGGKVVLFEPEDLVEGPKLILGVIWTLISL 101
>gnl|CDD|221350 pfam11971, CAMSAP_CH, CAMSAP CH domain. This domain is the
N-terminal CH domain from the CAMSAP proteins.
Length = 85
Score = 36.1 bits (84), Expect = 0.001
Identities = 14/82 (17%), Positives = 25/82 (30%), Gaps = 7/82 (8%)
Query: 27 CQRKTNGYPGVNIQDFTGSWRSGLGFNALIHAHRPDLIDFS------QLQPTRHIDNLNN 80
+++ T + G ALIH + P L+ + + N+
Sbjct: 1 YVSARCTPLSPPVENLTRDFSDGCALAALIHFYCPQLVPLHDICLKETMSVADSLYNIQL 60
Query: 81 AFDVASTELGI-PRLLDAEDVD 101
+ LG L ED+
Sbjct: 61 LQEFCEEHLGNRCFHLTLEDLL 82
>gnl|CDD|214511 smart00090, RIO, RIO-like kinase.
Length = 237
Score = 31.9 bits (73), Expect = 0.17
Identities = 11/41 (26%), Positives = 16/41 (39%), Gaps = 10/41 (24%)
Query: 52 FNALIHAHRPDLIDFSQLQPTRH----------IDNLNNAF 82
+N L+H + +ID SQ H I N+ F
Sbjct: 178 YNILVHDGKVVIIDVSQSVELDHPMALEFLERDIRNIIRFF 218
>gnl|CDD|201633 pfam01163, RIO1, RIO1 family. This is a family of atypical serine
kinases which are found in archaea, bacteria and
eukaryotes. Activity of Rio1 is vital in Saccharomyces
cerevisiae for the processing of ribosomal RNA, as well
as for proper cell cycle progression and chromosome
maintenance. The structure of RIO1 has been determined.
Length = 186
Score = 30.3 bits (69), Expect = 0.57
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 10/41 (24%)
Query: 52 FNALIHAHRPDLIDFSQLQPTRH----------IDNLNNAF 82
+N L+ +P +ID Q T H ++N+ N F
Sbjct: 133 YNVLVDDDKPVIIDVPQAVETDHPNALEFLERDVENIINFF 173
>gnl|CDD|226555 COG4069, COG4069, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 367
Score = 30.5 bits (69), Expect = 0.58
Identities = 13/36 (36%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 50 LGFNALIHAHRPDLIDFSQ-LQPTRHIDNLNNAFDV 84
+G A+I A D+ID S+ L+P+ I+ L + D+
Sbjct: 39 MGKVAVIDAGLEDVIDISRKLKPSACIEELFESNDL 74
>gnl|CDD|224632 COG1718, RIO1, Serine/threonine protein kinase involved in cell
cycle control [Signal transduction mechanisms / Cell
division and chromosome partitioning].
Length = 268
Score = 30.0 bits (68), Expect = 0.70
Identities = 11/42 (26%), Positives = 16/42 (38%), Gaps = 10/42 (23%)
Query: 52 FNALIHAHRPDLIDFSQLQPTRH----------IDNLNNAFD 83
+N L+H P +ID SQ H + N+ F
Sbjct: 196 YNILVHDGEPYIIDVSQAVTIDHPNAFEFLERDVRNIARFFR 237
>gnl|CDD|240158 cd05119, RIO, RIO kinase family, catalytic domain. The RIO kinase
catalytic domain family is part of a larger superfamily,
that includes the catalytic domains of other kinases
such as the typical serine/threonine/tyrosine protein
kinases (PKs), aminoglycoside phosphotransferase,
choline kinase, and phosphoinositide 3-kinase (PI3K).
RIO kinases are atypical protein serine kinases present
in archaea, bacteria and eukaryotes. Serine kinases
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine residues in protein substrates. RIO
kinases contain a kinase catalytic signature, but
otherwise show very little sequence similarity to
typical PKs. The RIO catalytic domain is truncated
compared to the catalytic domains of typical PKs, with
deletions of the loops responsible for substrate
binding. Most organisms contain at least two RIO
kinases, RIO1 and RIO2. A third protein, RIO3, is
present in multicellular eukaryotes. In yeast, RIO1 and
RIO2 are essential for survival. They function as
non-ribosomal factors necessary for late 18S rRNA
processing. RIO1 is also required for proper cell cycle
progression and chromosome maintenance. The biological
substrates for RIO kinases are still unknown.
Length = 187
Score = 29.4 bits (67), Expect = 1.1
Identities = 9/41 (21%), Positives = 16/41 (39%), Gaps = 10/41 (24%)
Query: 52 FNALIHAHRPDLIDFSQLQPTRH----------IDNLNNAF 82
+N L+ + +ID Q H ++N+N F
Sbjct: 144 YNILVDDGKVYIIDVPQAVEIDHPNAEEFLRRDVENINRFF 184
>gnl|CDD|216468 pfam01383, CpcD, CpcD/allophycocyanin linker domain.
Length = 55
Score = 26.4 bits (59), Expect = 2.4
Identities = 8/42 (19%), Positives = 19/42 (45%)
Query: 97 AEDVDTTRPDEKSVITYVASYYHTFARMKNEMKSGRRIANVS 138
++ T+ +S Y+ Y A M+ + G +I +++
Sbjct: 12 RQNGRTSNRIRRSNTVYLVPYSRLSAEMQRIHRLGGKIVSIT 53
>gnl|CDD|182923 PRK11041, PRK11041, DNA-binding transcriptional regulator CytR;
Provisional.
Length = 309
Score = 28.4 bits (64), Expect = 2.4
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 71 PTRHIDNLNNAFDVAS--TELGIPRL 94
PT HIDNL AF+ + ELG R+
Sbjct: 130 PTVHIDNLTAAFEAVNYLHELGHKRI 155
>gnl|CDD|240168 cd05145, RIO1_like, RIO kinase family; RIO1, RIO3 and similar
proteins, catalytic domain. The RIO kinase catalytic
domain family is part of a larger superfamily, that
includes the catalytic domains of other kinases such as
the typical serine/threonine/tyrosine protein kinases
(PKs), aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase (PI3K). RIO
kinases are atypical protein serine kinases containing a
kinase catalytic signature, but otherwise show very
little sequence similarity to typical PKs. Serine
kinases catalyze the transfer of the gamma-phosphoryl
group from ATP to serine residues in protein substrates.
The RIO catalytic domain is truncated compared to the
catalytic domains of typical PKs, with deletions of the
loops responsible for substrate binding. RIO1 is present
in archaea, bacteria and eukaryotes. In addition, RIO3
is present in multicellular eukaryotes. RIO1 is
essential for survival and is required for 18S rRNA
processing, proper cell cycle progression and chromosome
maintenance. The biological substrates for RIO1 are
unknown. The function of RIO3 is also unknown.
Length = 190
Score = 27.9 bits (63), Expect = 3.4
Identities = 13/41 (31%), Positives = 17/41 (41%), Gaps = 10/41 (24%)
Query: 52 FNALIHAHRPDLIDFSQLQPTRH----------IDNLNNAF 82
+N L H +P +ID SQ H I N+N F
Sbjct: 147 YNILYHDGKPYIIDVSQAVELDHPNALEFLRRDIRNINRFF 187
>gnl|CDD|184550 PRK14169, PRK14169, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 282
Score = 28.0 bits (62), Expect = 4.2
Identities = 13/24 (54%), Positives = 14/24 (58%)
Query: 78 LNNAFDVASTELGIPRLLDAEDVD 101
N VAST GI LLDA D+D
Sbjct: 130 ANEPTVVASTPYGIMALLDAYDID 153
>gnl|CDD|235346 PRK05111, PRK05111, acetylornithine deacetylase; Provisional.
Length = 383
Score = 27.1 bits (61), Expect = 7.4
Identities = 8/19 (42%), Positives = 14/19 (73%), Gaps = 1/19 (5%)
Query: 58 AHRPD-LIDFSQLQPTRHI 75
AH+PD ++ S ++PTR +
Sbjct: 354 AHQPDEYLELSFIKPTREL 372
>gnl|CDD|182095 PRK09822, PRK09822, lipopolysaccharide core biosynthesis protein;
Provisional.
Length = 269
Score = 26.7 bits (59), Expect = 8.8
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 160 LPYSAVLCVRESGSPMNQIVSQMMDADKKKMMYERLNRDLLEYLPVYHARKNNLFD 215
L Y ++C SG + + D M E L++DL + LP + + N+ D
Sbjct: 183 LKYGRIIC---SGLDLTGSCPRFYDESTSPMPSE-LSKDLFKILPFFTFMRKNVSD 234
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.133 0.388
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,976,583
Number of extensions: 1015030
Number of successful extensions: 856
Number of sequences better than 10.0: 1
Number of HSP's gapped: 848
Number of HSP's successfully gapped: 21
Length of query: 216
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 123
Effective length of database: 6,812,680
Effective search space: 837959640
Effective search space used: 837959640
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.7 bits)