RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1749
(87 letters)
>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 271
Score = 31.8 bits (72), Expect = 0.025
Identities = 10/33 (30%), Positives = 12/33 (36%), Gaps = 6/33 (18%)
Query: 20 CPMCSVPIEKDEGCAQMLCKRCKHVFCWYCLAS 52
C +C E C C H+FC CL
Sbjct: 218 CFLCLEEPEV------PSCTPCGHLFCLSCLLI 244
>gnl|CDD|216524 pfam01485, IBR, IBR domain. The IBR (In Between Ring fingers)
domain is often found to occur between pairs of ring
fingers (pfam00097). This domain has also been called
the C6HC domain and DRIL (for double RING finger
linked) domain. Proteins that contain two Ring fingers
and an IBR domain (these proteins are also termed RBR
family proteins) are thought to exist in all eukaryotic
organisms. RBR family members play roles in protein
quality control and can indirectly regulate
transcription. Evidence suggests that RBR proteins are
often parts of cullin-containing ubiquitin ligase
complexes. The ubiquitin ligase Parkin is an RBR family
protein whose mutations are involved in forms of
familial Parkinson's disease.
Length = 63
Score = 30.3 bits (68), Expect = 0.027
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 14 SELIKCCP--MCSVPIEKDEGCAQ-MLCKRCKHVFCWYCLA 51
+ +K CP C IEK +G +Q + C +C FC+ C
Sbjct: 15 PKNLKWCPTPDCGNIIEKTDGGSQNVTCSKCGTEFCFSCKE 55
>gnl|CDD|214763 smart00647, IBR, In Between Ring fingers. the domains occurs
between pairs og RING fingers.
Length = 64
Score = 27.8 bits (62), Expect = 0.21
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 18 KCCPMCSVPIEKDEGCAQMLCKRCKHVFCWYCLA 51
C V ++EGC ++ C +C FC+ C
Sbjct: 25 DCSAAIIVT--EEEGCNRVTCPKCGFSFCFRCKV 56
>gnl|CDD|149907 pfam08989, DUF1896, Domain of unknown function (DUF1896). This
domain is found in a set of hypothetical bacterial
proteins.
Length = 144
Score = 28.2 bits (63), Expect = 0.33
Identities = 13/33 (39%), Positives = 14/33 (42%), Gaps = 3/33 (9%)
Query: 25 VPIEKDEGCAQMLCKRCKHVFCWYCLASLDDDF 57
VP E E A L + VF Y L DDF
Sbjct: 89 VPSELRERLALKLLPEVEAVFAKY---PLSDDF 118
>gnl|CDD|236449 PRK09282, PRK09282, pyruvate carboxylase subunit B; Validated.
Length = 592
Score = 26.3 bits (59), Expect = 2.3
Identities = 8/14 (57%), Positives = 9/14 (64%), Gaps = 3/14 (21%)
Query: 1 MEPWFQMGGATFDS 14
+E W GGATFD
Sbjct: 43 LEVW---GGATFDV 53
>gnl|CDD|236330 PRK08665, PRK08665, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 752
Score = 26.1 bits (58), Expect = 2.5
Identities = 9/22 (40%), Positives = 12/22 (54%), Gaps = 2/22 (9%)
Query: 20 CPMCSVPIEKDEGCAQMLCKRC 41
CP C +E +EGC +C C
Sbjct: 727 CPECGSILEHEEGCV--VCHSC 746
>gnl|CDD|240410 PTZ00418, PTZ00418, Poly(A) polymerase; Provisional.
Length = 593
Score = 26.3 bits (58), Expect = 2.5
Identities = 10/15 (66%), Positives = 13/15 (86%)
Query: 49 CLASLDDDFLLRHYD 63
CL SLDDD++LR+ D
Sbjct: 213 CLNSLDDDYILRNVD 227
>gnl|CDD|237592 PRK14040, PRK14040, oxaloacetate decarboxylase; Provisional.
Length = 593
Score = 26.0 bits (58), Expect = 2.9
Identities = 8/14 (57%), Positives = 10/14 (71%), Gaps = 3/14 (21%)
Query: 1 MEPWFQMGGATFDS 14
+E W GGATFD+
Sbjct: 44 LESW---GGATFDA 54
>gnl|CDD|150725 pfam10083, DUF2321, Uncharacterized protein conserved in bacteria
(DUF2321). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 158
Score = 25.3 bits (55), Expect = 4.4
Identities = 12/45 (26%), Positives = 14/45 (31%), Gaps = 11/45 (24%)
Query: 14 SELIKCCPMCSVPIEKDEGCAQML-----------CKRCKHVFCW 47
+ I CP CS PI +L C C F W
Sbjct: 36 AATITSCPHCSTPIRGFYYVDGVLGLGSDYDAPSYCHNCGKPFPW 80
>gnl|CDD|215494 PLN02915, PLN02915, cellulose synthase A [UDP-forming], catalytic
subunit.
Length = 1044
Score = 25.3 bits (55), Expect = 5.4
Identities = 8/23 (34%), Positives = 15/23 (65%)
Query: 14 SELIKCCPMCSVPIEKDEGCAQM 36
SE +CCP C+ ++ +GC ++
Sbjct: 54 SEGNQCCPQCNTRYKRHKGCPRV 76
>gnl|CDD|173771 cd08529, STKc_FA2-like, Catalytic domain of the Protein
Serine/Threonine Kinase, Chlamydomonas reinhardtii FA2
and similar domains. Serine/Threonine Kinases (STKs),
Chlamydomonas reinhardtii FA2-like subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Chlamydomonas
reinhardtii FA2-like subfamily belongs to the
(NIMA)-related kinase (Nek) family. The Nek family
includes seven different Chlamydomonas Neks (CNKs 1-6
and Fa2). This subfamily includes FA2 and CNK4. 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. Chlamydomonas reinhardtii
FA2 was discovered in a genetic screen for
deflagellation-defective mutants. It is essential for
basal-body/centriole-associated microtubule severing,
and plays a role in cell cycle progression. No cellular
function has yet been ascribed to CNK4.
Length = 256
Score = 24.8 bits (54), Expect = 6.0
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 50 LASLDDDFLLRHYDKGPCKNKL 71
LA LD +++R+Y+ K KL
Sbjct: 53 LAKLDSSYIIRYYESFLDKGKL 74
>gnl|CDD|225391 COG2835, COG2835, Uncharacterized conserved protein [Function
unknown].
Length = 60
Score = 23.8 bits (52), Expect = 7.5
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 17 IKCCPMCSVPIEKDEGCAQMLCKRCKHVF 45
I CP+C P+ DE +++C RCK +
Sbjct: 8 ILACPVCKGPLVYDEEKQELICPRCKLAY 36
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 24.6 bits (54), Expect = 8.6
Identities = 6/19 (31%), Positives = 11/19 (57%), Gaps = 1/19 (5%)
Query: 36 MLCKRCKHVF-CWYCLASL 53
+LC+ C ++ C C + L
Sbjct: 436 LLCRDCGYIAECPNCDSPL 454
>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain.
Length = 46
Score = 23.1 bits (50), Expect = 9.6
Identities = 11/31 (35%), Positives = 13/31 (41%), Gaps = 3/31 (9%)
Query: 20 CPMCSVPIEKDEGCAQMLCKRCKHVFCWYCL 50
CP+C E E + C HVF CL
Sbjct: 3 CPICLDEFEPGEEVVVL---PCGHVFHKECL 30
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
0.328 0.140 0.514
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,059,757
Number of extensions: 286371
Number of successful extensions: 403
Number of sequences better than 10.0: 1
Number of HSP's gapped: 401
Number of HSP's successfully gapped: 49
Length of query: 87
Length of database: 10,937,602
Length adjustment: 55
Effective length of query: 32
Effective length of database: 8,498,132
Effective search space: 271940224
Effective search space used: 271940224
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (24.2 bits)