RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy18052
(98 letters)
>gnl|CDD|216424 pfam01302, CAP_GLY, CAP-Gly domain. Cytoskeleton-associated
proteins (CAPs) are involved in the organisation of
microtubules and transportation of vesicles and
organelles along the cytoskeletal network. A conserved
motif, CAP-Gly, has been identified in a number of
CAPs, including CLIP-170 and dynactins. The crystal
structure of Caenorhabditis elegans F53F4.3 protein
CAP-Gly domain was recently solved. The domain contains
three beta-strands. The most conserved sequence, GKNDG,
is located in two consecutive sharp turns on the
surface, forming the entrance to a groove.
Length = 67
Score = 60.2 bits (147), Expect = 8e-14
Identities = 20/36 (55%), Positives = 23/36 (63%)
Query: 5 GSKTGVLRFKGTTQFAQGEWCGVELDEPIGKNDGKF 40
G + G +R+ G FA G W GVELDEP GKNDG
Sbjct: 10 GGRRGTVRYVGPVPFAPGLWVGVELDEPRGKNDGSV 45
>gnl|CDD|214997 smart01052, CAP_GLY, Cytoskeleton-associated proteins (CAPs) are
involved in the organisation of microtubules and
transportation of vesicles and organelles along the
cytoskeletal network. A conserved motif, CAP-Gly, has
been identified in a number of CAPs, including CLIP-170
and dynactins. The crystal structure of Caenorhabditis
elegans F53F4.3 protein CAP-Gly domain was recently
solved. The domain contains three beta-strands. The
most conserved sequence, GKNDG, is located in two
consecutive sharp turns on the surface, forming the
entrance to a groove.
Length = 68
Score = 57.6 bits (140), Expect = 8e-13
Identities = 21/38 (55%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 4 QGSKTGVLRFKGTTQFAQGEWCGVELDEP-IGKNDGKF 40
G + G +R+ G T FA G W GVELDEP GKNDG
Sbjct: 9 GGGRRGTVRYVGPTPFAPGVWVGVELDEPLRGKNDGSV 46
>gnl|CDD|227569 COG5244, NIP100, Dynactin complex subunit involved in mitotic
spindle partitioning in anaphase B [Cell division and
chromosome partitioning].
Length = 669
Score = 53.9 bits (129), Expect = 6e-10
Identities = 20/34 (58%), Positives = 25/34 (73%)
Query: 5 GSKTGVLRFKGTTQFAQGEWCGVELDEPIGKNDG 38
G K G +RF G T+F G W G+ELD+P+GKNDG
Sbjct: 13 GDKFGTVRFIGKTKFKDGIWIGLELDDPVGKNDG 46
>gnl|CDD|214471 smart00014, acidPPc, Acid phosphatase homologues.
Length = 116
Score = 26.9 bits (60), Expect = 0.99
Identities = 12/67 (17%), Positives = 18/67 (26%), Gaps = 7/67 (10%)
Query: 24 WCGVELDEPIGKNDGKFSAGSTFIWLCALIL-GYHQSHEAKSPYEESLTSFIC-KVCTWF 81
C + S + F + AL L Y + L F+ +
Sbjct: 32 CCTPNFLLTLEAGYSFPSGHTAFAFAFALFLLLYLPAR-----AGRKLLIFLLLLLALVV 86
Query: 82 CISRVQD 88
SRV
Sbjct: 87 GFSRVYL 93
>gnl|CDD|215224 PLN02400, PLN02400, cellulose synthase.
Length = 1085
Score = 27.6 bits (61), Expect = 1.2
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 54 LGYHQSHEAKSPYEESLTSFICKVCTWFCISRVQD 88
L Y +H K Y LTS IC++ WF +S + D
Sbjct: 293 LQYRVTHPVKDAYGLWLTSVICEI--WFALSWLLD 325
>gnl|CDD|173762 cd08222, STKc_Nek11, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene A-related
kinase 11. Serine/Threonine Kinases (STKs), Never In
Mitosis gene A (NIMA)-related kinase 11 (Nek11)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Nek11 subfamily is one of a family of 11 different Neks
(Nek1-11) that are involved in cell cycle control. The
Nek family is part of a larger superfamily that includes
the catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. Nek11 is involved, through direct
phosphorylation, in regulating the degradation of Cdc25A
(Cell Division Cycle 25 homolog A), which plays a role
in cell cycle progression and in activating cyclin
dependent kinases. Nek11 is activated by CHK1
(CHeckpoint Kinase 1) and may be involved in the G2/M
checkpoint. Nek11 may also play a role in the S-phase
checkpoint as well as in DNA replication and genotoxic
stress responses.
Length = 260
Score = 27.2 bits (60), Expect = 1.4
Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 23 EWC-GVELD---EPIGKNDGKFSAGSTFIWLCALILGYHQSHEAK 63
E+C G +LD E + S W L+LG H H+ +
Sbjct: 82 EYCEGRDLDCKLEELKHTGKTLSENQVCEWFIQLLLGVHYMHQRR 126
>gnl|CDD|219147 pfam06718, DUF1203, Protein of unknown function (DUF1203). This
family consists of several hypothetical bacterial
proteins of around 155 residues in length. Family
members are present in Rhizobium, Agrobacterium and
Streptomyces species.
Length = 116
Score = 26.5 bits (59), Expect = 1.7
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 51 ALILGYHQSHEAKSPYEESLTSFICK-VCT 79
L+L ++ A SPY E+ F+ C
Sbjct: 16 ELLLLSYRPFPAPSPYAETGPIFLHAGACE 45
>gnl|CDD|179055 PRK00522, tpx, lipid hydroperoxide peroxidase; Provisional.
Length = 167
Score = 25.6 bits (57), Expect = 3.5
Identities = 6/10 (60%), Positives = 7/10 (70%)
Query: 19 FAQGEWCGVE 28
FAQ +CG E
Sbjct: 88 FAQKRFCGAE 97
>gnl|CDD|188517 TIGR04002, TIGR04002, TIGR04002 family protein. TIGR04002 family
proteins, a division within DUF1393 ( pfam07155), occur
strictly as part of a tandem gene pair with an
uncharacterized radical SAM protein [Unknown function,
General].
Length = 151
Score = 25.8 bits (57), Expect = 3.6
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 32 PIGKNDGKFSAGSTFIWLCALIL 54
P+G N G G FI+L A +L
Sbjct: 16 PVGPNGGYVHFGDAFIYLAASLL 38
>gnl|CDD|215124 PLN02195, PLN02195, cellulose synthase A.
Length = 977
Score = 25.7 bits (56), Expect = 4.5
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 51 ALILGYHQSHEAKSPYEESLTSFICKVCTWFCISRVQD 88
L Y ++ S + LTS IC++ WF S V D
Sbjct: 186 GLFFHYRITNPVDSAFGLWLTSVICEI--WFAFSWVLD 221
>gnl|CDD|234648 PRK00120, PRK00120, dITP/XTP pyrophosphatase; Reviewed.
Length = 196
Score = 25.4 bits (57), Expect = 4.8
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 15 GTTQFAQGEWCGVELDEPIGKN 36
T A+G W G L EP G+N
Sbjct: 128 PTPLVAEGRWEGEILWEPRGEN 149
>gnl|CDD|224650 COG1736, DPH2, Diphthamide synthase subunit DPH2 [Translation,
ribosomal structure and biogenesis].
Length = 347
Score = 25.4 bits (56), Expect = 5.1
Identities = 9/38 (23%), Positives = 14/38 (36%)
Query: 27 VELDEPIGKNDGKFSAGSTFIWLCALILGYHQSHEAKS 64
V++D + + + GS I L H E K
Sbjct: 105 VDVDLVVLEATRELKKGSRRIGLITTAQHVHLLEEVKE 142
>gnl|CDD|177821 PLN02162, PLN02162, triacylglycerol lipase.
Length = 475
Score = 25.8 bits (56), Expect = 5.3
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 10 VLRFKGTTQFAQGEWC-GVELDEPIGKNDGKFSAG 43
V+ F+GT F +WC ++L KN GK AG
Sbjct: 201 VVSFRGTEPFEAADWCTDLDLSWYELKNVGKVHAG 235
>gnl|CDD|226298 COG3775, GatC, Phosphotransferase system, galactitol-specific IIC
component [Carbohydrate transport and metabolism].
Length = 446
Score = 25.3 bits (56), Expect = 5.6
Identities = 12/41 (29%), Positives = 16/41 (39%), Gaps = 3/41 (7%)
Query: 14 KGTTQFAQGEWCGVELDEPIGKNDGKFSAGSTFIWLCALIL 54
+G +F + G E IG D G + ALIL
Sbjct: 278 EGARKFLNKRFKGREFF--IGL-DWAVLLGHPAVISTALIL 315
>gnl|CDD|224988 COG2077, Tpx, Peroxiredoxin [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 25.0 bits (55), Expect = 6.5
Identities = 6/10 (60%), Positives = 7/10 (70%)
Query: 19 FAQGEWCGVE 28
FAQ +CG E
Sbjct: 88 FAQKRFCGAE 97
>gnl|CDD|239312 cd03014, PRX_Atyp2cys, Peroxiredoxin (PRX) family, Atypical 2-cys
PRX subfamily; composed of PRXs containing peroxidatic
and resolving cysteines, similar to the homodimeric
thiol specific antioxidant (TSA) protein also known as
TRX-dependent thiol peroxidase (Tpx). Tpx is a
bacterial periplasmic peroxidase which differs from
other PRXs in that it shows substrate specificity
toward alkyl hydroperoxides over hydrogen peroxide. As
with all other PRXs, the peroxidatic cysteine
(N-terminal) of Tpx is oxidized into a sulfenic acid
intermediate upon reaction with peroxides. Tpx is able
to resolve this intermediate by forming an
intramolecular disulfide bond with a conserved
C-terminal cysteine (the resolving cysteine), which can
then be reduced by thioredoxin. This differs from the
typical 2-cys PRX which resolves the oxidized cysteine
by forming an intermolecular disulfide bond with the
resolving cysteine from the other subunit of the
homodimer. Atypical 2-cys PRX homodimers have a
loop-based interface (A-type for alternate), in
contrast with the B-type interface of typical 2-cys and
1-cys PRXs.
Length = 143
Score = 24.5 bits (54), Expect = 8.3
Identities = 7/10 (70%), Positives = 7/10 (70%)
Query: 19 FAQGEWCGVE 28
FAQ WCG E
Sbjct: 70 FAQKRWCGAE 79
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
0.323 0.136 0.460
Gapped
Lambda K H
0.267 0.0787 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,582,561
Number of extensions: 347272
Number of successful extensions: 225
Number of sequences better than 10.0: 1
Number of HSP's gapped: 224
Number of HSP's successfully gapped: 16
Length of query: 98
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 34
Effective length of database: 8,098,946
Effective search space: 275364164
Effective search space used: 275364164
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.1 bits)