RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6674
(258 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 44.3 bits (105), Expect = 6e-07
Identities = 15/26 (57%), Positives = 17/26 (65%)
Query: 225 NLLIHERTHTDERPYSCDVCNKAFRR 250
NL H RTHT E+PY C VC K+F
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
>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 = 33.1 bits (76), Expect = 0.006
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 212 ICRFCSRHFTKSYNLLIHERTH 233
C C + F++ NL H RTH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 31.2 bits (71), Expect = 0.028
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 240 SCDVCNKAFRRQDHLRDHR 258
C C K+F R+ +L+ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHL 19
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 33.2 bits (76), Expect = 0.006
Identities = 8/23 (34%), Positives = 10/23 (43%)
Query: 211 FICRFCSRHFTKSYNLLIHERTH 233
+ C C + F L H RTH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 32.1 bits (73), Expect = 0.017
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 239 YSCDVCNKAFRRQDHLRDH 257
Y C C K F+ + LR+H
Sbjct: 1 YRCPECGKVFKSKSALREH 19
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 35.2 bits (81), Expect = 0.009
Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 6/50 (12%)
Query: 210 QFICRFCSRHFTKSYNLLIHER--THTDERPYSCDVCNKAFRRQDHLRDH 257
++C C F+ S +L H R H+ C VC K FR D DH
Sbjct: 73 PYVCPLCLMPFSSSVSLKQHIRYTEHSK----VCPVCGKEFRNTDSTLDH 118
>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 = 32.6 bits (74), Expect = 0.011
Identities = 8/23 (34%), Positives = 10/23 (43%)
Query: 211 FICRFCSRHFTKSYNLLIHERTH 233
F C C + F+ L H R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
Score = 31.1 bits (70), Expect = 0.033
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 239 YSCDVCNKAFRRQDHLRDHR 258
+ C +C K+F +D L+ H
Sbjct: 1 FKCPLCGKSFSSKDALKRHL 20
>gnl|CDD|205121 pfam12874, zf-met, Zinc-finger of C2H2 type. This is a zinc-finger
domain with the CxxCx(12)Hx(6)H motif, found in multiple
copies in a wide range of proteins from plants to
metazoans. Some member proteins, particularly those from
plants, are annotated as being RNA-binding.
Length = 25
Score = 29.8 bits (68), Expect = 0.096
Identities = 6/19 (31%), Positives = 11/19 (57%)
Query: 239 YSCDVCNKAFRRQDHLRDH 257
+ C++CN F + L+ H
Sbjct: 1 FYCELCNVTFTSESQLKSH 19
>gnl|CDD|206083 pfam13912, zf-C2H2_6, C2H2-type zinc finger.
Length = 27
Score = 29.5 bits (67), Expect = 0.12
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 239 YSCDVCNKAFRRQDHLRDHR 258
++C VC K F L H+
Sbjct: 2 HTCGVCGKTFSSLQALGGHK 21
>gnl|CDD|204841 pfam12171, zf-C2H2_jaz, Zinc-finger double-stranded RNA-binding.
This domain family is found in archaea and eukaryotes,
and is approximately 30 amino acids in length. The
mammalian members of this group occur multiple times
along the protein, joined by flexible linkers, and are
referred to as JAZ - dsRNA-binding ZF protein -
zinc-fingers. The JAZ proteins are expressed in all
tissues tested and localise in the nucleus, particularly
the nucleolus. JAZ preferentially binds to
double-stranded (ds) RNA or RNA/DNA hybrids rather than
DNA. In addition to binding double-stranded RNA, these
zinc-fingers are required for nucleolar localisation.
Length = 27
Score = 27.5 bits (62), Expect = 0.54
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 210 QFICRFCSRHFTKSYNLLIHERT 232
QF C C ++F L H ++
Sbjct: 1 QFYCVACDKYFKSENALENHLKS 23
>gnl|CDD|183017 PRK11177, PRK11177, phosphoenolpyruvate-protein phosphotransferase;
Provisional.
Length = 575
Score = 30.4 bits (69), Expect = 1.0
Identities = 26/59 (44%), Positives = 31/59 (52%), Gaps = 8/59 (13%)
Query: 117 KTALALADIDALGNIEDEV---PDDLLETSSPETADLNLKTSLEFPA-FPGETSYPSLL 171
K L L ID L I++EV DL T S ETA LNLK L F G TS+ S++
Sbjct: 139 KNILGLKIID-LSAIQEEVILVAADL--TPS-ETAQLNLKKVLGFITDIGGRTSHTSIM 193
>gnl|CDD|206084 pfam13913, zf-C2HC_2, zinc-finger of a C2HC-type. This family
contains a number of divergent C2H2 type zinc fingers.
Length = 25
Score = 26.4 bits (59), Expect = 1.4
Identities = 7/20 (35%), Positives = 8/20 (40%), Gaps = 1/20 (5%)
Query: 213 CRFCSRHFTKSYNLLIHERT 232
C C R F L HE+
Sbjct: 5 CPICGRKFAPDR-LAKHEKV 23
>gnl|CDD|222704 pfam14353, CpXC, CpXC protein. This presumed domain is
functionally uncharacterized. This domain is found in
bacteria and archaea, and is typically between 122 and
134 amino acids in length. It contains four conserved
cysteines forming two CpXC motifs.
Length = 128
Score = 28.5 bits (64), Expect = 1.8
Identities = 8/46 (17%), Positives = 13/46 (28%), Gaps = 9/46 (19%)
Query: 213 CRFCSRHFTKSYNLLIHERTHTDERP---------YSCDVCNKAFR 249
C C F ++ + R ++C C FR
Sbjct: 4 CPSCGHEFEAEVWTSVNADEDPELREAILDGTLFTFTCPSCGHEFR 49
>gnl|CDD|214993 smart01047, C1_4, TFIIH C1-like domain. The carboxyl-terminal
region of TFIIH is essential for transcription activity.
This regions binds three zinc atoms through two
independent domain. The first contains a C4 zinc finger
motif, whereas the second is characterised by a
CX(2)CX(2-4)FCADCD motif. The solution structure of the
second C-terminal domain revealed homology with the
regulatory domain of protein kinase C.
Length = 49
Score = 26.9 bits (60), Expect = 1.8
Identities = 9/39 (23%), Positives = 15/39 (38%), Gaps = 6/39 (15%)
Query: 207 PKKQFICRFCSRHFTKSYNLLIHERTHTDERPYSCDVCN 245
++ C C + F ++ IHE H +C C
Sbjct: 17 TSSRYRCTKCKQVFCIDCDVFIHETLH------NCPGCE 49
>gnl|CDD|119350 cd02871, GH18_chitinase_D-like, GH18 domain of Chitinase D (ChiD).
ChiD, a chitinase found in Bacillus circulans,
hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine
in chitin and chitodextrins. The domain architecture of
ChiD includes a catalytic glycosyl hydrolase family 18
(GH18) domain, a chitin-binding domain, and a
fibronectin type III domain. The chitin-binding and
fibronectin type III domains are located either
N-terminal or C-terminal to the catalytic domain. This
family includes exochitinase Chi36 from Bacillus cereus.
Length = 312
Score = 29.2 bits (66), Expect = 1.9
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 4/42 (9%)
Query: 109 NNNNNTTTKTALALADIDALGNIEDEVPDDLLETSSPETADL 150
N N T T L I AL ++D + + T +PET +
Sbjct: 123 NPLNATPVITNL----ISALKQLKDHYGPNFILTMAPETPYV 160
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 29.2 bits (65), Expect = 2.4
Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 5/50 (10%)
Query: 212 ICRFCSRHFTKSYNLLIHERTHTDERPYSCDVCNKA----FRRQDHLRDH 257
+C FC +F L H R E + CD+ F+ + L H
Sbjct: 222 LCIFCKIYFYDDDELRRHCRLR-HEACHICDMVGPIRYQYFKSYEDLEAH 270
>gnl|CDD|225248 COG2373, COG2373, Large extracellular alpha-helical protein [General
function prediction only].
Length = 1621
Score = 28.9 bits (65), Expect = 3.3
Identities = 18/88 (20%), Positives = 29/88 (32%), Gaps = 1/88 (1%)
Query: 21 DVLALPDAGNIVKSLQTTLQEELLQRSLQNVALTLQTAMVSSLQQAALLPPNSPAAAALN 80
+LAL ++ ++Q TL L L+ Q L AL A +N
Sbjct: 1369 LMLALAAELKLLPAIQPTLLRALALEWFDKRYLSTQEQAALLLAARALQAGKWVAQKQVN 1428
Query: 81 LQAL-ESYLTLHRLSSTVNSPQRVSNSN 107
+ L +S +P N+
Sbjct: 1429 GEELTGWKGLRRNGNSLQLAPLVFVNTG 1456
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 28.1 bits (62), Expect = 4.6
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 235 DERPYSCDV--CNKAFRRQDHLRDHR 258
D +PY C V CNK ++ Q+ L+ H
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYHM 371
>gnl|CDD|184656 PRK14389, PRK14389, hypothetical protein; Provisional.
Length = 98
Score = 26.8 bits (59), Expect = 5.1
Identities = 14/28 (50%), Positives = 17/28 (60%), Gaps = 7/28 (25%)
Query: 74 PAAAALNLQALE-------SYLTLHRLS 94
P +A +LQALE SYLTL RL+
Sbjct: 29 PTCSAYSLQALEQHGAAAGSYLTLRRLA 56
>gnl|CDD|236923 PRK11530, PRK11530, hypothetical protein; Provisional.
Length = 183
Score = 26.9 bits (60), Expect = 7.7
Identities = 15/61 (24%), Positives = 27/61 (44%)
Query: 38 TLQEELLQRSLQNVALTLQTAMVSSLQQAALLPPNSPAAAALNLQALESYLTLHRLSSTV 97
TL +E+ Q + Q VA+ Q + ++ L P + A L Q ++L ++
Sbjct: 35 TLNQEMTQLTQQAVAIEQQNRLNANSTSGVYLLPAAKTPARLESQIGTLRMSLSNITPEA 94
Query: 98 N 98
N
Sbjct: 95 N 95
>gnl|CDD|233339 TIGR01278, DPOR_BchB, light-independent protochlorophyllide
reductase, B subunit. Alternate name: dark
protochlorophyllide reductase This enzyme describes the
B subunit of the dark form protochlorophyllide
reductase, a nitrogenase-like enzyme. This subunit shows
homology to the nitrogenase molybdenum-iron protein. It
catalyzes a step in bacteriochlorophyll biosynthesis
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Chlorophyll and bacteriochlorphyll].
Length = 511
Score = 27.5 bits (61), Expect = 7.9
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 6/48 (12%)
Query: 42 ELLQRSLQNVALTLQTAMVSSLQQAALLPPNSPAAAALNLQALESYLT 89
LLQ L N+A L ++ ++ + A QA + LT
Sbjct: 98 SLLQEDLGNLAAAAG------LDKSKVIVADVNAYRRKENQAADRTLT 139
>gnl|CDD|227443 COG5112, UFD2, U1-like Zn-finger-containing protein [General
function prediction only].
Length = 126
Score = 26.6 bits (58), Expect = 8.2
Identities = 14/52 (26%), Positives = 21/52 (40%)
Query: 186 IVTDSISKPVQKSTPVASTARPKKQFICRFCSRHFTKSYNLLIHERTHTDER 237
I D +K QK P Q C C+R+F L+ H++ +R
Sbjct: 31 IKNDLSTKESQKKLPYDPELPGLGQHYCIECARYFITEKALMEHKKGKVHKR 82
>gnl|CDD|185671 PTZ00494, PTZ00494, tuzin-like protein; Provisional.
Length = 664
Score = 27.4 bits (60), Expect = 9.0
Identities = 18/38 (47%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 43 LLQRSLQNVALT-LQTAMVSSLQQAALLPPNSPAAAAL 79
L QR + V T L A QAAL PP SPA AA+
Sbjct: 570 LRQRGVDPVTYTSLMLARAMRRLQAALGPPGSPARAAI 607
>gnl|CDD|173077 PRK14613, PRK14613, 4-diphosphocytidyl-2-C-methyl-D-erythritol
kinase; Provisional.
Length = 297
Score = 27.2 bits (60), Expect = 9.9
Identities = 14/58 (24%), Positives = 27/58 (46%)
Query: 7 KSSSSQEEDIHSTEDVLALPDAGNIVKSLQTTLQEELLQRSLQNVALTLQTAMVSSLQ 64
K +E ++H + +LAL + L++ L + + Q TL ++SSL+
Sbjct: 159 KGEIMEEIEVHKGQGILALTPQVMNTGEMYALLKKPLQESASQKNGNTLSEDLISSLK 216
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
0.310 0.123 0.337
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: 12,217,771
Number of extensions: 1081998
Number of successful extensions: 909
Number of sequences better than 10.0: 1
Number of HSP's gapped: 905
Number of HSP's successfully gapped: 39
Length of query: 258
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 163
Effective length of database: 6,723,972
Effective search space: 1096007436
Effective search space used: 1096007436
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 58 (26.2 bits)