RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3231
(420 letters)
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 39.6 bits (92), Expect = 0.003
Identities = 40/175 (22%), Positives = 62/175 (35%), Gaps = 37/175 (21%)
Query: 187 IFEDDEVLEEHVKSHQNRRFKCP--CCERIFTSETRMRNHIDMKHADENLFKCKKCL--- 241
+E ++V +E FKCP C R S ++ H +H C +C+
Sbjct: 136 FYEGEDVRDE---MEDLLSFKCPKSKCHRRCGSLKELKKHYKAQH---GFVLCSECIGNK 189
Query: 242 KVFSDEIKFH------------LHGRAHAKFYRCSECEKRFATEDIMRQHFRNYHNKEDA 289
K F +EI+ L C C+ F +D +R+H R H E
Sbjct: 190 KDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRH--EAC 247
Query: 290 YVCNYC----YDSFETKSTLVDHFFHHGNPYMCN------HCFLMFPDEKNLRNH 334
++C+ Y F++ L HF + Y C +FP L H
Sbjct: 248 HICDMVGPIRYQYFKSYEDLEAHFRN--AHYCCTFQTCRVGKCYVFPYHTELLEH 300
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 29.7 bits (67), Expect = 0.17
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 138 NLKAHLKMHKGPKIFTCAQCDKAFS 162
NL+ H++ H G K + C C K+FS
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFS 25
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 33.5 bits (76), Expect = 0.19
Identities = 31/140 (22%), Positives = 46/140 (32%), Gaps = 13/140 (9%)
Query: 100 CPKSFDHKSNIRRHMAATHDLQKKYKCKLCARMYRYKWNLK----AHLKMHKGP---KIF 152
C K F ++RH+ H K KL ++ L L+ +K K
Sbjct: 329 CGKLFSRNDALKRHIL-LHTSISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKS 387
Query: 153 TCA--QCDKAFSLKSNLSKHVRHHMEN---VKQCKICLEIFEDDEVLEEHVKSHQNRRFK 207
C + F SNLS H+ H+ + C + F L H K H N
Sbjct: 388 ETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPL 447
Query: 208 CPCCERIFTSETRMRNHIDM 227
+ F + + NH
Sbjct: 448 LCSILKSFRRDLDLSNHGKD 467
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 32.4 bits (73), Expect = 0.45
Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 10/83 (12%)
Query: 204 RRFKCPC--CERIFTSETRMRNHIDMKHADENLFKCKKCLKVFSDEIKFHLHGRAHAKFY 261
+ +KCP C + + ++ ++ H M H + L K A K Y
Sbjct: 348 KPYKCPVEGCNKKYKNQNGLKYH--MLHG-----HQNQKLHENPSPEK-MNIFSAKDKPY 399
Query: 262 RCSECEKRFATEDIMRQHFRNYH 284
RC C+KR+ + ++ H ++ H
Sbjct: 400 RCEVCDKRYKNLNGLKYHRKHSH 422
Score = 28.9 bits (64), Expect = 5.2
Identities = 18/77 (23%), Positives = 32/77 (41%), Gaps = 20/77 (25%)
Query: 88 KSIQERKFKCEM--CPKSFDHKSNIRRHMAATHDLQ------------------KKYKCK 127
K + +KC + C K + +++ ++ HM H Q K Y+C+
Sbjct: 343 KVKDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCE 402
Query: 128 LCARMYRYKWNLKAHLK 144
+C + Y+ LK H K
Sbjct: 403 VCDKRYKNLNGLKYHRK 419
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 31.0 bits (70), Expect = 0.45
Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 181 CKICLEIFEDDEVLEEHVKSHQNRRFKCPCCERIFTSETRMRNHIDMKH 229
C +CL F L++H++ ++ + CP C + F + +H+ KH
Sbjct: 76 CPLCLMPFSSSVSLKQHIRYTEHSK-VCPVCGKEFRNTDSTLDHVCKKH 123
Score = 29.5 bits (66), Expect = 1.7
Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 143 LKMHKGPKIFTCAQCDKAFSLKSNLSKHVRHHMENVKQCKICLEIFEDDEVLEEHVKSHQ 202
L K + C C FS +L +H+R + E+ K C +C + F + + +HV
Sbjct: 65 LLTSKAVSPYVCPLCLMPFSSSVSLKQHIR-YTEHSKVCPVCGKEFRNTDSTLDHVCKKH 123
Query: 203 N 203
N
Sbjct: 124 N 124
Score = 28.3 bits (63), Expect = 3.8
Identities = 14/57 (24%), Positives = 21/57 (36%), Gaps = 10/57 (17%)
Query: 338 SCFTCPFCQRKYKIEKHLEKHIESCIQLNPTTTVLKTLQKCRYCQRMFRNEDKLTAH 394
S + CP C + L++HI + + C C + FRN D H
Sbjct: 72 SPYVCPLCLMPFSSSVSLKQHIR----------YTEHSKVCPVCGKEFRNTDSTLDH 118
>gnl|CDD|218591 pfam05443, ROS_MUCR, ROS/MUCR transcriptional regulator protein.
This family consists of several ROS/MUCR transcriptional
regulator proteins. The ros chromosomal gene is present
in octopine and nopaline strains of Agrobacterium
tumefaciens as well as in Rhizobium meliloti. This gene
encodes a 15.5-kDa protein that specifically represses
the virC and virD operons in the virulence region of the
Ti plasmid and is necessary for succinoglycan
production. Sinorhizobium meliloti can produce two types
of acidic exopolysaccharides, succinoglycan and
galactoglucan, that are interchangeable for infection of
alfalfa nodules. MucR from Sinorhizobium meliloti acts
as a transcriptional repressor that blocks the
expression of the exp genes responsible for
galactoglucan production therefore allowing the
exclusive production of succinoglycan.
Length = 130
Score = 30.6 bits (70), Expect = 0.54
Identities = 20/66 (30%), Positives = 27/66 (40%), Gaps = 13/66 (19%)
Query: 78 EQEQQIPAQG--KSIQERKFKCEMCPKSFDHKSNIRRHMAATHDLQKKYKCKLCARMYRY 135
E+E+ PA KS+ C K F K+ ++RH+ H L YR
Sbjct: 52 EEEKPTPAVPIKKSVTPDYIICLEDGKKF--KT-LKRHLRTHHGLT--------PEEYRA 100
Query: 136 KWNLKA 141
KW L A
Sbjct: 101 KWGLPA 106
>gnl|CDD|240362 PTZ00327, PTZ00327, eukaryotic translation initiation factor 2
gamma subunit; Provisional.
Length = 460
Score = 31.1 bits (71), Expect = 1.2
Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 14/63 (22%)
Query: 248 IKFHLHGRAHAKFYRCSECEKRFATEDIMRQHFRNY-HNKEDAYVCNYCYDSFETKSTLV 306
I L G A+AK Y+C +C + +++Y +K D C C K TL
Sbjct: 70 ITIKL-GYANAKIYKCPKCPR--------PTCYQSYGSSKPDNPPCPGC----GHKMTLK 116
Query: 307 DHF 309
H
Sbjct: 117 RHV 119
>gnl|CDD|140324 PTZ00303, PTZ00303, phosphatidylinositol kinase; Provisional.
Length = 1374
Score = 30.8 bits (69), Expect = 1.5
Identities = 25/96 (26%), Positives = 38/96 (39%), Gaps = 14/96 (14%)
Query: 219 TRMRNHIDMKHADENLFKCKKCLKVFSDEIKFHLHGRAHAKFYRCSECEKRFATEDIM-R 277
T++ ++ + DE+ C C + F + L RAH C C R I R
Sbjct: 445 TKLLHNPSWQKDDESSDSCPSCGRAFI-SLSRPLGTRAH----HCRSCGIRLCVFCITKR 499
Query: 278 QHFR--------NYHNKEDAYVCNYCYDSFETKSTL 305
H+ + E+ VC+ CY +ET S L
Sbjct: 500 AHYSFAKLAKPGSSDEAEERLVCDTCYKEYETVSQL 535
>gnl|CDD|239139 cd02674, Peptidase_C19R, A subfamily of peptidase C19. Peptidase
C19 contains ubiquitinyl hydrolases. They are
intracellular peptidases that remove ubiquitin molecules
from polyubiquinated peptides by cleavage of isopeptide
bonds. They hydrolyze bonds involving the carboxyl group
of the C-terminal Gly residue of ubiquitin. The purpose
of the de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome.
Length = 230
Score = 29.9 bits (68), Expect = 2.0
Identities = 15/69 (21%), Positives = 23/69 (33%), Gaps = 6/69 (8%)
Query: 291 VCNYCYDSFETKSTL---VDHFFHHGNPYMCNHCFLMFPDEKNLRNHECTSCFTCPFCQR 347
C +FE + L + C +F E+ L + CP C++
Sbjct: 56 TCGKTSTTFEPFTYLSLPIPSGSGDAPKVTLEDCLRLFTKEETLDGDN---AWKCPKCKK 112
Query: 348 KYKIEKHLE 356
K K K L
Sbjct: 113 KRKATKKLT 121
>gnl|CDD|203088 pfam04780, DUF629, Protein of unknown function (DUF629). This
family represents a region of several plant proteins of
unknown function. A C2H2 zinc finger is predicted in
this region in some family members, but the spacing
between the cysteine residues is not conserved
throughout the family.
Length = 463
Score = 30.1 bits (68), Expect = 2.8
Identities = 12/43 (27%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 192 EVLEEHVKSHQNRR----FKCPCCERIFTSETRMRNHIDMKHA 230
E LE+ + + R + C C + F+S +NH++ +HA
Sbjct: 40 EALEQVLSFARENRKWRFWMCRTCSKKFSSSEECKNHLEQEHA 82
>gnl|CDD|200998 pfam00096, zf-C2H2, Zinc finger, C2H2 type. The C2H2 zinc finger
is the classical zinc finger domain. The two conserved
cysteines and histidines co-ordinate a zinc ion. The
following pattern describes the zinc finger.
#-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can
be any amino acid, and numbers in brackets indicate the
number of residues. The positions marked # are those
that are important for the stable fold of the zinc
finger. The final position can be either his or cys. The
C2H2 zinc finger is composed of two short beta strands
followed by an alpha helix. The amino terminal part of
the helix binds the major groove in DNA binding zinc
fingers. The accepted consensus binding sequence for Sp1
is usually defined by the asymmetric hexanucleotide core
GGGCGG but this sequence does not include, among others,
the GAG (=CTC) repeat that constitutes a high-affinity
site for Sp1 binding to the wt1 promoter.
Length = 22
Score = 26.2 bits (58), Expect = 2.9
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 153 TCAQCDKAFSLKSNLSKHVRHH 174
C C K+FS KSNL +H+R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 24.6 bits (54), Expect = 9.8
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 96 KCEMCPKSFDHKSNIRRHM 114
KC C KSF KSN++RH+
Sbjct: 1 KCPDCGKSFSRKSNLKRHL 19
>gnl|CDD|227322 COG4989, COG4989, Predicted oxidoreductase [General function
prediction only].
Length = 298
Score = 29.6 bits (67), Expect = 3.0
Identities = 11/38 (28%), Positives = 18/38 (47%)
Query: 156 QCDKAFSLKSNLSKHVRHHMENVKQCKICLEIFEDDEV 193
QC+ F L+ +R +E V +C I L E+ +
Sbjct: 58 QCEALFGEALKLAPGLREKIEIVSKCGIRLPSREEPRI 95
>gnl|CDD|234972 PRK01688, PRK01688, histidinol-phosphate aminotransferase;
Provisional.
Length = 351
Score = 29.5 bits (67), Expect = 3.5
Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 18/60 (30%)
Query: 192 EVLEEHV-KSHQNRRF------KCPCCERIFTSETRMRNHIDMKHADENLFKCKKCLKVF 244
+ E V + + NR++ + PC E++F SET N+I L + VF
Sbjct: 262 AAMRERVAEINANRQWLIAALKEIPCVEQVFDSET---NYI--------LARFTASSAVF 310
>gnl|CDD|238266 cd00477, FTHFS, Formyltetrahydrofolate synthetase (FTHFS) catalyzes
the ATP-dependent activation of formate ion via its
addition to the N10 position of tetrahydrofolate. FTHFS
is a highly expressed key enzyme in both the
Wood-Ljungdahl pathway of autotrophic CO2 fixation
(acetogenesis) and the glycine synthase/reductase
pathways of purinolysis. The key physiological role of
this enzyme in acetogens is to catalyze the formylation
of tetrahydrofolate, an initial step in the reduction of
carbon dioxide and other one-carbon precursors to
acetate. In purinolytic organisms, the enzymatic
reaction is reversed, liberating formate from
10-formyltetrahydrofolate with concurrent production of
ATP.
Length = 524
Score = 29.4 bits (67), Expect = 4.0
Identities = 15/69 (21%), Positives = 32/69 (46%), Gaps = 12/69 (17%)
Query: 143 LKMHKG-PKIFTCAQCDKAFSLKSNLSKHVRHHMENVKQ----CKICLEIFEDD-----E 192
LKMH G PK+ + + +L+ + ++R H+EN+K+ + + F D
Sbjct: 318 LKMHGGVPKVTLGLEENLE-ALEKGFA-NLRKHIENIKKFGVPVVVAINKFSTDTDAELA 375
Query: 193 VLEEHVKSH 201
++ + +
Sbjct: 376 LVRKLAEEA 384
>gnl|CDD|172627 PRK14138, PRK14138, NAD-dependent deacetylase; Provisional.
Length = 244
Score = 28.6 bits (64), Expect = 5.0
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 7/44 (15%)
Query: 252 LHGRAHAKFYRCSECEKRFATEDIMRQHFRNYHNKEDAYVCNYC 295
LHG ++Y C C KR+ ED++ K D C+ C
Sbjct: 113 LHGNVE-EYY-CVRCGKRYTVEDVI-----EKLEKSDVPRCDDC 149
>gnl|CDD|218613 pfam05502, Dynactin_p62, Dynactin p62 family. Dynactin is a
multi-subunit complex and a required cofactor for most,
or all, of the cellular processes powered by the
microtubule-based motor cytoplasmic dynein. p62 binds
directly to the Arp1 subunit of dynactin.
Length = 456
Score = 29.1 bits (65), Expect = 5.0
Identities = 14/62 (22%), Positives = 20/62 (32%), Gaps = 7/62 (11%)
Query: 287 EDAYVCNYCYDSFETKSTLVDHFFHHGNPYMCNHC-FLMFPDEKNLRNHECT-SCFTCPF 344
E C C + + Y C +C F + E + C +CF CP
Sbjct: 3 EQLLFCEDC---HQIRCP--RCVTEEIVCYYCPNCLFEVPSSEVRSEKNRCARNCFDCPI 57
Query: 345 CQ 346
C
Sbjct: 58 CT 59
>gnl|CDD|226701 COG4250, COG4250, Predicted sensor protein/domain [Signal
transduction mechanisms].
Length = 226
Score = 28.8 bits (64), Expect = 5.0
Identities = 19/79 (24%), Positives = 27/79 (34%), Gaps = 15/79 (18%)
Query: 10 FCSAAFALKHSIADHIQTEHMGNPKHQDTKQYPAFRNGSFYIR-----ADIEQ-----PK 59
F S+ AL H++ D + P AF+ FY + I
Sbjct: 28 FKSSLVALSHAMEDQVLAVTADAPLVI-----AAFQRERFYRQEAHRYHRIADESSQIYV 82
Query: 60 VKVEHETIMSYARRQVEYE 78
+ T SY R Q+ YE
Sbjct: 83 LSAPETTFASYDRSQMTYE 101
>gnl|CDD|227252 COG4915, XpaC, 5-bromo-4-chloroindolyl phosphate hydrolysis protein
[General function prediction only].
Length = 204
Score = 28.2 bits (63), Expect = 7.0
Identities = 14/61 (22%), Positives = 27/61 (44%)
Query: 346 QRKYKIEKHLEKHIESCIQLNPTTTVLKTLQKCRYCQRMFRNEDKLTAHELSHTMEKTFY 405
+R YK E+ H+++ ++L LK +E ++ ELS ++EK +
Sbjct: 122 KRFYKAEEFFYSHLDNMVELTEKYAFLKKQPVKSKEINQDLSETRILLKELSRSIEKDLH 181
Query: 406 R 406
Sbjct: 182 E 182
>gnl|CDD|221737 pfam12726, SEN1_N, SEN1 N terminal. This domain is found at the N
terminal of the helicase SEN1. SEN1 is a Pol II
termination factor for noncoding RNA genes. The N
terminal of SEN1, unlike the C terminal, is not required
for growth.
Length = 724
Score = 28.4 bits (64), Expect = 7.6
Identities = 15/95 (15%), Positives = 32/95 (33%), Gaps = 25/95 (26%)
Query: 153 TCAQCDKAF-----SLKSNLSKHVRHHMENVKQ-----CKICLEIFEDDEVLE------E 196
+C +C +AF L+ + ENV++ + ++ LE E
Sbjct: 12 SCDKCIRAFHRGKSKLRQRFIRSFPI--ENVQKFMEKIDEWDIQRI--LPGLEKASKILE 67
Query: 197 HVKSHQNR-----RFKCPCCERIFTSETRMRNHID 226
+ ++C C + ++ +R D
Sbjct: 68 SGPPNTRSSLLLALYECLCNPALLRNDELLRELFD 102
>gnl|CDD|191775 pfam07535, zf-DBF, DBF zinc finger. This domain is predicted to
bind metal ions and is often found associated with
pfam00533 and pfam02178.
Length = 49
Score = 25.7 bits (57), Expect = 8.2
Identities = 11/26 (42%), Positives = 17/26 (65%), Gaps = 3/26 (11%)
Query: 181 CKICLEIFEDDEVLEEHVKSHQNRRF 206
C+ C ++D LEEH+ S ++RRF
Sbjct: 8 CENCRVKYDD---LEEHIVSEKHRRF 30
>gnl|CDD|185772 cd09249, BRO1_Rhophilin_2, Protein-interacting Bro1-like domain of
RhoA-binding protein Rhophilin-2. This subfamily
contains the Bro1-like domain of RhoA-binding protein,
Rhophilin-2. It belongs to the BRO1_Alix_like
superfamily which also includes the Bro1-like domain of
mammalian Alix (apoptosis-linked gene-2 interacting
protein X), His-Domain type N23 protein tyrosine
phosphatase (HD-PTP, also known as PTPN23), RhoA-binding
protein Rhophilin-1, Brox, Bro1 and Rim20 (also known as
PalA) from Saccharomyces cerevisiae, Ustilago maydis
Rim23 (also known as PalC), and related domains.
Rhophilin-2, binds both GDP- and GTP-bound RhoA.
Bro1-like domains are boomerang-shaped, and part of the
domain is a tetratricopeptide repeat (TPR)-like
structure. In addition to this Bro1-like domain,
Rhophilin-2 contains an N-terminal Rho-binding domain
and a C-terminal PDZ (PS.D.-95, Disc-large, ZO-1)
domain. Roles for Rhophilin-2 may include limiting
stress fiber formation or increasing the turnover of
F-actin in the absence of high levels of RhoA signaling
activity. Rhophilin-2 lacks the V-shaped (V) domain
found in many members of the BRO1_Alix_like superfamily.
Length = 385
Score = 28.3 bits (63), Expect = 9.2
Identities = 11/41 (26%), Positives = 26/41 (63%), Gaps = 1/41 (2%)
Query: 164 KSNLSKHVRHHMENVKQCKICLEIFEDDEVLEEHVKSHQNR 204
K++L + + HH E +++ +C ++ + +VL+E + + NR
Sbjct: 299 KAHLRRAIMHHEEAIREASLCKKL-RNIDVLQEVLSAAHNR 338
>gnl|CDD|206065 pfam13894, zf-C2H2_4, C2H2-type zinc finger. This family contains
a number of divergent C2H2 type zinc fingers.
Length = 24
Score = 24.9 bits (54), Expect = 9.4
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 95 FKCEMCPKSFDHKSNIRRHMAATH 118
FKC +C KSF K ++RH+ H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKHH 24
>gnl|CDD|188424 TIGR03909, pyrrolys_PylC, pyrrolysine biosynthesis protein PylC.
This protein is PylC, part of a three-gene cassette that
is sufficient to direct the biosynthesis of pyrrolysine,
the twenty-second amino acid, incorporated in some
species at a UAG canonical stop codon [Amino acid
biosynthesis, Other].
Length = 374
Score = 28.3 bits (63), Expect = 9.7
Identities = 18/62 (29%), Positives = 26/62 (41%), Gaps = 3/62 (4%)
Query: 186 EIFEDDEVLEEHVKSHQNRRFKCPCCERIFTSETRMRNHIDMKHADENL--FKCKKCLKV 243
EI E V+ EH+K N + P E I + R+ ADE + + K V
Sbjct: 288 EIGETRYVIYEHLKVRSNGLIE-PVGEHILSMAGRLHILKKFFGADEAIEIYDRDKEEWV 346
Query: 244 FS 245
F+
Sbjct: 347 FT 348
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
0.325 0.134 0.433
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,080,261
Number of extensions: 1834214
Number of successful extensions: 2892
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2863
Number of HSP's successfully gapped: 170
Length of query: 420
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 321
Effective length of database: 6,546,556
Effective search space: 2101444476
Effective search space used: 2101444476
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 60 (26.8 bits)