RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7817
(228 letters)
>gnl|CDD|227401 COG5069, SAC6, Ca2+-binding actin-bundling protein fimbrin/plastin
(EF-Hand superfamily) [Cytoskeleton].
Length = 612
Score = 115 bits (288), Expect = 1e-29
Identities = 77/225 (34%), Positives = 104/225 (46%), Gaps = 27/225 (12%)
Query: 1 EQERVQKKTFVNWINSYLSKRHPPLRIDDLTEDLKDGTKLLALLEVLSNEKLPVEKGRNL 60
+ ++VQKKTF W N L DL DLKDG KL LLE L + E
Sbjct: 5 KWQKVQKKTFTKWTNEKLISGGQK-EFGDLDTDLKDGVKLAQLLEALQKDNA-GEYNETP 62
Query: 61 R-RPHFLSNANTALQFLQSKRIKLVNINSSDLVDGRPAVVLGLIWTIILYFQIEENTRAL 119
R H + N + L+F++ K +KL NI D+VDG P ++LGLIW++I I
Sbjct: 63 ETRIHVMENVSGRLEFIKGKGVKLFNIGPQDIVDGNPKLILGLIWSLISRLTI------- 115
Query: 120 AALSAEGYTSPEPGKKDVESAKKTLLRW----VSNALPEHIKVSDFGPSWRDGHAFLSVI 175
A ++ EG + LL W PE + DF SWRDG AF ++I
Sbjct: 116 ATINEEGEL----------TKHINLLLWCDEDTGGYKPE-VDTFDFFRSWRDGLAFSALI 164
Query: 176 DNIQKDLVDIPALSKQTNRHRLDT--AFNVAESNLGIARLLDPEV 218
+ + D +D L Q L+ AF A +GIARL+ E
Sbjct: 165 HDSRPDTLDPNVLDLQKKNKALNNFQAFENANKVIGIARLIGVED 209
>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 = 85.4 bits (212), Expect = 1e-21
Identities = 41/108 (37%), Positives = 60/108 (55%), Gaps = 2/108 (1%)
Query: 5 VQKKTFVNWINSYLSKRHPPLRIDDLTEDLKDGTKLLALLEVLSNEKLPVEKGRNLRRPH 64
QK+ + WIN L + P+ I++ + DLKDG L LL LS + + +K L R
Sbjct: 1 SQKEELLRWINKVLGEY-GPVTINNFSTDLKDGIALCKLLNSLSPDLIDKKKINPLSRFK 59
Query: 65 FLSNANTALQFLQSKRIKLVNINSSDLV-DGRPAVVLGLIWTIILYFQ 111
L N N AL F + + +VN ++ DLV DG +VLGL+W++I F
Sbjct: 60 RLENINLALNFAEKLGVPVVNFDAEDLVEDGDEKLVLGLLWSLIRKFL 107
Score = 48.5 bits (116), Expect = 1e-07
Identities = 24/77 (31%), Positives = 42/77 (54%), Gaps = 6/77 (7%)
Query: 139 SAKKTLLRWVSNALPE--HIKVSDFGPSWRDGHAFLSVIDNIQKDLVD---IPALSKQTN 193
S K+ LLRW++ L E + +++F +DG A +++++ DL+D I LS+
Sbjct: 1 SQKEELLRWINKVLGEYGPVTINNFSTDLKDGIALCKLLNSLSPDLIDKKKINPLSRFKR 60
Query: 194 RHRLDTAFNVAESNLGI 210
++ A N AE LG+
Sbjct: 61 LENINLALNFAEK-LGV 76
>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 = 75.8 bits (187), Expect = 6e-18
Identities = 36/107 (33%), Positives = 52/107 (48%), Gaps = 5/107 (4%)
Query: 7 KKTFVNWINSYLSKRHPPLRIDDLTEDLKDGTKLLALLEVLSNEKLPVEKGRNLRRPHFL 66
+K + WIN L + L + + EDL+DG L ALL L + ++K N R L
Sbjct: 1 EKALLRWINEVLGEY-GGLPVTNFFEDLRDGLALCALLNKLRPGLIDLKK-VNKNRFDKL 58
Query: 67 SNANTALQFLQSK-RIKLVNINSSDLV-DGRPAVVLGLIWTIILYFQ 111
N N AL+F + K + V DLV DG +VL L+ + F+
Sbjct: 59 ENLNLALEFAEKKLGVPKVL-EPEDLVEDGNEKLVLTLLAQLFRRFE 104
Score = 60.8 bits (148), Expect = 3e-12
Identities = 25/81 (30%), Positives = 46/81 (56%), Gaps = 4/81 (4%)
Query: 141 KKTLLRWVSNALPE--HIKVSDFGPSWRDGHAFLSVIDNIQKDLVDIPALSKQT--NRHR 196
+K LLRW++ L E + V++F RDG A ++++ ++ L+D+ ++K
Sbjct: 1 EKALLRWINEVLGEYGGLPVTNFFEDLRDGLALCALLNKLRPGLIDLKKVNKNRFDKLEN 60
Query: 197 LDTAFNVAESNLGIARLLDPE 217
L+ A AE LG+ ++L+PE
Sbjct: 61 LNLALEFAEKKLGVPKVLEPE 81
>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 = 73.5 bits (181), Expect = 4e-17
Identities = 37/103 (35%), Positives = 55/103 (53%), Gaps = 3/103 (2%)
Query: 8 KTFVNWINSYLSKRHPPLRIDDLTEDLKDGTKLLALLEVLSNEKLPVEK-GRNLRRPHFL 66
KT + W+NS L++ + + + DLKDG L ALL LS + +K +L R +
Sbjct: 1 KTLLRWVNSLLAEY-DKPPVTNFSSDLKDGVALCALLNSLSPGLVDKKKVAASLSRFKKI 59
Query: 67 SNANTALQFLQSKRIKLVNINSSDLVDGRPAVVLGLIWTIILY 109
N N AL F + K+V DLV+G ++LG+IWT+I
Sbjct: 60 ENINLALSFAEKLGGKVVLFEPEDLVEGPK-LILGVIWTLISL 101
Score = 49.2 bits (118), Expect = 4e-08
Identities = 26/82 (31%), Positives = 43/82 (52%), Gaps = 6/82 (7%)
Query: 142 KTLLRWVSNALPE--HIKVSDFGPSWRDGHAFLSVIDNIQKDLVD----IPALSKQTNRH 195
KTLLRWV++ L E V++F +DG A ++++++ LVD +LS+
Sbjct: 1 KTLLRWVNSLLAEYDKPPVTNFSSDLKDGVALCALLNSLSPGLVDKKKVAASLSRFKKIE 60
Query: 196 RLDTAFNVAESNLGIARLLDPE 217
++ A + AE G L +PE
Sbjct: 61 NINLALSFAEKLGGKVVLFEPE 82
>gnl|CDD|221350 pfam11971, CAMSAP_CH, CAMSAP CH domain. This domain is the
N-terminal CH domain from the CAMSAP proteins.
Length = 85
Score = 29.2 bits (66), Expect = 0.53
Identities = 12/66 (18%), Positives = 22/66 (33%), Gaps = 6/66 (9%)
Query: 151 ALPEHIKVSDFGPSWRDGHAFLSVIDNIQKDLVDI------PALSKQTNRHRLDTAFNVA 204
P V + + DG A ++I LV + +S + + +
Sbjct: 6 CTPLSPPVENLTRDFSDGCALAALIHFYCPQLVPLHDICLKETMSVADSLYNIQLLQEFC 65
Query: 205 ESNLGI 210
E +LG
Sbjct: 66 EEHLGN 71
Score = 25.7 bits (57), Expect = 7.3
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 17 YLSKRHPPL--RIDDLTEDLKDGTKLLALL 44
Y+S R PL +++LT D DG L AL+
Sbjct: 1 YVSARCTPLSPPVENLTRDFSDGCALAALI 30
>gnl|CDD|239630 cd03575, NTR_WFIKKN, NTR domain, WFIKKN subfamily; WFIKKN
proteins contain a C-terminal NTR domain and are
putative secreted proteins which may be multivalent
protease inhibitors that act on serine proteases as
well as metalloproteases. Human WFIKKN and a related
protein sharing the same domain architecture were
observed to have distinct tissue expression patterns.
WFIKKN is also referred to as growth and
differentiation factor-associated serum protein-1
(GASP-1). It inhibits the activity of mature myostatin,
a specific regulator of skeletal muscle mass and a
member of the TGFbeta superfamily.
Length = 109
Score = 28.9 bits (65), Expect = 0.93
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 26 RIDDLTEDLKDGTKLLALLEVLSNEKL 52
R+ +LTE+L G + L EVL +EK+
Sbjct: 14 RLTELTEELDSGHARVTLEEVLKDEKM 40
>gnl|CDD|240656 cd12179, 2-Hacid_dh_14, Putative D-isomer specific 2-hydroxyacid
dehydrogenases, NAD-binding and catalytic domains.
2-Hydroxyacid dehydrogenases catalyze the conversion of
a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 306
Score = 28.8 bits (65), Expect = 2.2
Identities = 14/34 (41%), Positives = 16/34 (47%)
Query: 28 DDLTEDLKDGTKLLALLEVLSNEKLPVEKGRNLR 61
DL + LK G L A L+VL EK E N
Sbjct: 233 KDLVKALKSGKILGACLDVLEYEKASFESIFNQP 266
>gnl|CDD|219725 pfam08142, AARP2CN, AARP2CN (NUC121) domain. This domain is the
central domain of AARP2. It is weakly similar to the
GTP-binding domain of elongation factor TU.
Length = 81
Score = 26.0 bits (58), Expect = 5.5
Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 8/37 (21%)
Query: 143 TLLRWVSNALPEHIKVSDFGPSWRDGHAFLSVIDNIQ 179
LLR++S P + SWRD ++ + D ++
Sbjct: 4 NLLRFISVMKPRPL-------SWRDQRPYM-LADRVE 32
>gnl|CDD|129392 TIGR00291, RNA_SBDS, rRNA metabolism protein, SBDS family. This
protein family, possibly universal in both archaea and
eukaryotes, appears to be involved in (ribosomal) RNA
metabolism. Mutations in the human ortholog are
associated with Shwachman-Bodian-Diamond syndrome
[Protein synthesis, Other].
Length = 231
Score = 27.1 bits (60), Expect = 6.6
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 1 EQERVQKKTFV--NWINSYLSKRHPPLRIDDLTEDLK 35
E++R Q + N IN K HPP RI+ E+ K
Sbjct: 97 EKKRNQIINIISRNTINPQTKKPHPPTRIEKALEEAK 133
>gnl|CDD|131889 TIGR02842, CyoC, cytochrome o ubiquinol oxidase, subunit III.
Cytochrome o terminal oxidase complex is the component
of the aerobic respiratory chain which reacts with
oxygen, reducing it to water with the concomitant
transport of 4 protons across the membrane. Also known
as the cytochrome bo complex, cytochrome o ubiquinol
oxidase contains four subunits, two heme b cofactors and
a copper atom which is believed to be the oxygen active
site. This complex is structurally related to the
cytochrome caa3 oxidases which utilize cytochrome c as
the reductant and contain heme a cofactors, as well as
the intermediate form aa3 oxidases which also react
directly with quinones as the reductant [Energy
metabolism, Electron transport].
Length = 180
Score = 26.8 bits (60), Expect = 6.8
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 6/32 (18%)
Query: 98 VVLGLIWTIILYFQI------EENTRALAALS 123
V GLIW I++ Q+ + N R LA LS
Sbjct: 126 VTSGLIWIIVMIIQVYKYGLTKINRRRLACLS 157
>gnl|CDD|173052 PRK14588, PRK14588, tRNA pseudouridine synthase ACD; Provisional.
Length = 272
Score = 27.2 bits (60), Expect = 7.2
Identities = 19/65 (29%), Positives = 27/65 (41%), Gaps = 7/65 (10%)
Query: 143 TLLRWVSNALPEHIKVSDFGPSWRDGHAFLSVIDNIQKDLVD-----IPALSKQTNR--H 195
T+ R ++ LPE I V + + D HA S I + ++D P L Q
Sbjct: 74 TIWRGLNAHLPEDIGVQNAWEAPPDFHARFSAIQREYRYVIDCAPAPSPQLRHQVLHYAG 133
Query: 196 RLDTA 200
LD A
Sbjct: 134 TLDVA 138
>gnl|CDD|145054 pfam01700, Orbi_VP3, Orbivirus VP3 (T2) protein. The orbivirus VP3
protein is part of the virus core and makes a 'subcore'
shell made up of 120 copies of the 100K protein. VP3
particles can also bind RNA and are fundamental in the
early stages of viral core formation. Also found in the
family is structural core protein VP2 from broadhaven
virus which is similar to VP3 in bluetongue virus.
Orbivirus are part of the larger reoviridae which have a
dsRNA genome of 10-12 linear segments; orbivirus found
in this family include bluetongue virus and epizootic
hemorrhagic disease virus.
Length = 890
Score = 27.0 bits (60), Expect = 9.6
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 8/45 (17%)
Query: 3 ERVQKKTFVNWIN----SYLSKRHPPLRIDDLTEDLKDGTKLLAL 43
ERV+ T ++ N SY K +R+ DLT+ LK GT+L A
Sbjct: 848 ERVRVGTALSVTNRRFVSYKGK----MRLMDLTQSLKAGTQLAAP 888
>gnl|CDD|218013 pfam04298, Zn_peptidase_2, Putative neutral zinc metallopeptidase.
Zinc metallopeptidase zinc binding regions have been
predicted in some family members by a pattern match
(Prosite:PS00142).
Length = 222
Score = 26.7 bits (60), Expect = 9.8
Identities = 23/76 (30%), Positives = 29/76 (38%), Gaps = 27/76 (35%)
Query: 101 GLIWT-IILY-----FQI-----EEN--TRALAALSAEGYTSPE--PGKKDVESAKK--- 142
L+ IIL+ FQ+ E + RALA L + G SPE G K V SA
Sbjct: 142 TLLLIGIILFSAAVLFQLVTLPVEFDASRRALAILESGGILSPEELKGAKKVLSAAALTY 201
Query: 143 ---------TLLRWVS 149
LL +
Sbjct: 202 VAAALTAIAQLLYLIL 217
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 0.135 0.391
Gapped
Lambda K H
0.267 0.0803 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,901,926
Number of extensions: 1120426
Number of successful extensions: 1123
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1104
Number of HSP's successfully gapped: 31
Length of query: 228
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 134
Effective length of database: 6,768,326
Effective search space: 906955684
Effective search space used: 906955684
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 (25.6 bits)