RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8793
(345 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 37.4 bits (87), Expect = 3e-04
Identities = 13/26 (50%), Positives = 19/26 (73%)
Query: 22 NLKEHFRIHTGEKPFTCNICSRKFTT 47
NL+ H R HTGEKP+ C +C + F++
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 30.4 bits (69), Expect = 0.070
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 140 KLHLKRHTGEKPHTCELCSKGFLS 163
+ H++ HTGEKP+ C +C K F S
Sbjct: 3 RRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 28.9 bits (65), Expect = 0.26
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 284 LNRHQLVHMDTRPYQCPQCPMAYKT 308
L RH H +PY+CP C ++ +
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 27.4 bits (61), Expect = 1.1
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 311 SLSAHLMKHTGAKPYVCEICNKV 333
+L H+ HTG KPY C +C K
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKS 23
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 35.1 bits (80), Expect = 0.046
Identities = 16/82 (19%), Positives = 29/82 (35%), Gaps = 11/82 (13%)
Query: 236 LGRQPVSCDI--CHKEFTHPSSVLYHKQSIHNNEIFKCTKCDKVFQHIQLLNRHQLVHMD 293
+P C + C+K++ + + + YH H N+ + +
Sbjct: 345 KDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSP---------EKMNIFSAK 395
Query: 294 TRPYQCPQCPMAYKTNISLSAH 315
+PY+C C YK L H
Sbjct: 396 DKPYRCEVCDKRYKNLNGLKYH 417
Score = 34.7 bits (79), Expect = 0.071
Identities = 20/66 (30%), Positives = 24/66 (36%), Gaps = 23/66 (34%)
Query: 289 LVHMDTRPYQCP--QCPMAYKTNISLSAHLMKH--------------------TGAKPYV 326
L D +PY+CP C YK L H M H KPY
Sbjct: 342 LKVKDGKPYKCPVEGCNKKYKNQNGLKYH-MLHGHQNQKLHENPSPEKMNIFSAKDKPYR 400
Query: 327 CEICNK 332
CE+C+K
Sbjct: 401 CEVCDK 406
Score = 33.5 bits (76), Expect = 0.13
Identities = 18/90 (20%), Positives = 34/90 (37%), Gaps = 12/90 (13%)
Query: 175 KGEKPVTCTFENCTETFVESWAMRKHVRTCHNKPTVNRFPCDKCEKVYSCASSLTKHMKA 234
K KP C E C + + ++ H+ H ++ P S K
Sbjct: 345 KDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENP------------SPEKMNIF 392
Query: 235 RLGRQPVSCDICHKEFTHPSSVLYHKQSIH 264
+P C++C K + + + + YH++ H
Sbjct: 393 SAKDKPYRCEVCDKRYKNLNGLKYHRKHSH 422
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 33.3 bits (76), Expect = 0.064
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 296 PYQCPQCPMAYKTNISLSAHLMKHTGAKPYVCEICNKVLTHRSSLISH 343
PY CP C M + +++SL H+ +K VC +C K + S + H
Sbjct: 73 PYVCPLCLMPFSSSVSLKQHIRYTEHSK--VCPVCGKEFRNTDSTLDH 118
Score = 29.8 bits (67), Expect = 0.80
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 2/57 (3%)
Query: 209 TVNRFPCDKCEKVYSCASSLTKHMKARLGRQPVSCDICHKEFTHPSSVLYHKQSIHN 265
V+ + C C +S + SL +H+ R C +C KEF + S L H HN
Sbjct: 70 AVSPYVCPLCLMPFSSSVSLKQHI--RYTEHSKVCPVCGKEFRNTDSTLDHVCKKHN 124
Score = 27.5 bits (61), Expect = 4.8
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 3 QGIKQYQCSQCPKAFNQKGNLKEHFRIHTGEKPFTCNICSRKFT 46
+ + Y C C F+ +LK+H R K C +C ++F
Sbjct: 69 KAVSPYVCPLCLMPFSSSVSLKQHIRYTEHSK--VCPVCGKEFR 110
>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 = 0.11
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 325 YVCEICNKVLTHRSSLISHYR 345
+ CE+CN T S L SH R
Sbjct: 1 FYCELCNVTFTSESQLKSHLR 21
>gnl|CDD|109889 pfam00851, Peptidase_C6, Helper component proteinase. This protein
is found in genome polyproteins of potyviruses.
Length = 453
Score = 32.6 bits (75), Expect = 0.29
Identities = 24/84 (28%), Positives = 34/84 (40%), Gaps = 13/84 (15%)
Query: 215 CDKCEKVYSCASS--LTKHMKARLGRQPVSCDICHKEFTHPSSVL-YHKQSIHN------ 265
C KC + Y S + + ++ RL RQ H F H VL KQ+ +
Sbjct: 50 CKKCAQNYKNLSKDEIKERLRTRLMRQLEELGSEHPRFKHVRQVLERLKQATNVTNMNLE 109
Query: 266 --NEIFK--CTKCDKVFQHIQLLN 285
+EI K + D F HI +N
Sbjct: 110 AFSEITKLIGGRTDAPFTHINEIN 133
>gnl|CDD|220362 pfam09723, CxxC_CxxC_SSSS, Zinc ribbon domain. This entry
represents a region of about 41 amino acids found in a
number of small proteins in a wide range of bacteria.
The region usually begins with the initiator Met and
contains two CxxC motifs separated by 17 amino acids.
One protein in this entry has been noted as a putative
regulatory protein, designated FmdB. Most proteins in
this entry have a C-terminal region containing highly
degenerate sequence.
Length = 42
Score = 29.1 bits (66), Expect = 0.36
Identities = 8/34 (23%), Positives = 15/34 (44%), Gaps = 7/34 (20%)
Query: 269 FKCTKCDKVFQHIQLLNRHQLVHMDTRPYQCPQC 302
++C C F+ +Q ++ L CP+C
Sbjct: 6 YRCEDCGHTFEVLQKISDDPLA-------TCPEC 32
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 28.6 bits (64), Expect = 0.38
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 8 YQCSQCPKAFNQKGNLKEHFRIH 30
Y+C +C K F K L+EH R H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.4 bits (61), Expect = 0.82
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 269 FKCTKCDKVFQHIQLLNRHQLVH 291
++C +C KVF+ L H H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.1 bits (55), Expect = 5.8
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 325 YVCEICNKVLTHRSSLISHYR 345
Y C C KV +S+L H R
Sbjct: 1 YRCPECGKVFKSKSALREHMR 21
Score = 24.3 bits (53), Expect = 9.7
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 297 YQCPQCPMAYKTNISLSAHLMKH 319
Y+CP+C +K+ +L H+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>gnl|CDD|197903 smart00834, CxxC_CXXC_SSSS, Putative regulatory protein.
CxxC_CXXC_SSSS represents a region of about 41 amino
acids found in a number of small proteins in a wide
range of bacteria. The region usually begins with the
initiator Met and contains two CxxC motifs separated by
17 amino acids. One protein in this entry has been noted
as a putative regulatory protein, designated FmdB. Most
proteins in this entry have a C-terminal region
containing highly degenerate sequence.
Length = 41
Score = 27.9 bits (63), Expect = 0.73
Identities = 8/34 (23%), Positives = 15/34 (44%), Gaps = 7/34 (20%)
Query: 269 FKCTKCDKVFQHIQLLNRHQLVHMDTRPYQCPQC 302
++C C F+ +Q ++ L CP+C
Sbjct: 6 YRCEDCGHTFEVLQKISDDPLT-------TCPEC 32
>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 = 27.3 bits (61), Expect = 1.0
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 9 QCSQCPKAFNQKGNLKEHFRIH 30
+C C K+F++K NLK H R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 26.2 bits (58), Expect = 2.8
Identities = 9/22 (40%), Positives = 9/22 (40%)
Query: 270 KCTKCDKVFQHIQLLNRHQLVH 291
KC C K F L RH H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|225903 COG3368, COG3368, Predicted permease [General function prediction
only].
Length = 465
Score = 30.5 bits (69), Expect = 1.3
Identities = 21/85 (24%), Positives = 32/85 (37%), Gaps = 14/85 (16%)
Query: 48 YSQVRRSSNTSARNVLKLSTRKGTSRSISESIRERNRSPVIYVAE-SSPLILRLGG---- 102
Y + R+ N S RN K S RSI+ + + + G
Sbjct: 3 YRMLSRNVNIS-RNEKKNSKLAYGLRSIAFL----LFILMTFAPSFLAHRAFIDDGVSFA 57
Query: 103 ----ILFIFTNLSGALVNAFYFGSG 123
+LFIF+N+ +L+ A F S
Sbjct: 58 LILLVLFIFSNIFTSLLFAISFQSN 82
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 30.4 bits (68), Expect = 1.4
Identities = 49/325 (15%), Positives = 90/325 (27%), Gaps = 31/325 (9%)
Query: 6 KQYQCSQCPKAFNQKGNLKEHFRIHTGEKPFTCNICSRKFT-------TYSQVRRSSNTS 58
+ C C +F++ +L H R HTGEKP C+ + + +N S
Sbjct: 32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNPS 91
Query: 59 ARNVLKLSTRKGTSRSISESIRERNRSPVIYVAESSPLILRLGGILFIFTNLSGALVNAF 118
N L + S S S + S + S L L N
Sbjct: 92 DLNSKSLPLSNSKASSSSLSS-SSSNSNDNNLLSSHSLPPSSRDPQLPDLLSISNLRNNP 150
Query: 119 YFGSGGWWFKSKSSHKIYLGHKLHLKRHTGEKPHTCELC-SKGFLSAESYKCHLRRHKGE 177
G+ + S+ ++ + + + + S +
Sbjct: 151 LPGNNSSSVNTPQSNSLHPPLPANSLSKDPSSNLSLLISSNVSTSIPSSSENSPLSSSYS 210
Query: 178 KPVTCTFENCTETF------VESWAMRKHVRTC---HNKPTVNRFPCDKCEKVYSCASSL 228
P + + +N + S K + + + + + + +S
Sbjct: 211 IPSSSSDQNLENSSSSLPLTTNSQLSPKSLLSQSPSSLSSSDSSSSASESPRSSLPTASS 270
Query: 229 TKHMKARLGRQPVS-------CDICHKEFTHPSSVLYHK----QSIHNNEIFKCTK--CD 275
C+ F+ S + H S + + F C C
Sbjct: 271 QSSSPNESDSSSEKGFSLPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCG 330
Query: 276 KVFQHIQLLNRHQLVHMDTRPYQCP 300
K+F L RH L+H P +
Sbjct: 331 KLFSRNDALKRHILLHTSISPAKEK 355
>gnl|CDD|237654 PRK14278, PRK14278, chaperone protein DnaJ; Provisional.
Length = 378
Score = 29.6 bits (67), Expect = 2.4
Identities = 22/80 (27%), Positives = 31/80 (38%), Gaps = 18/80 (22%)
Query: 224 CASSLTKHMKARLGRQPVSCDICHKEFTHPSSVLYHKQSIHNNEIFKCTKCDKVFQHIQL 283
CA+ +TK + V CD CH + T S + C C + +Q
Sbjct: 126 CATGVTKQVTVDTA---VLCDRCHGKGTAGDS---KPVT--------CDTCGGRGE-VQT 170
Query: 284 LNRHQLVH-MDTRPYQCPQC 302
+ R L M +RP CP C
Sbjct: 171 VQRSFLGQVMTSRP--CPTC 188
>gnl|CDD|226149 COG3622, Hfi, Hydroxypyruvate isomerase [Carbohydrate transport and
metabolism].
Length = 260
Score = 29.2 bits (66), Expect = 2.9
Identities = 7/27 (25%), Positives = 11/27 (40%)
Query: 257 LYHKQSIHNNEIFKCTKCDKVFQHIQL 283
LYH Q + N + H+Q+
Sbjct: 179 LYHAQIMEGNLTRLLREYLPKIGHVQI 205
>gnl|CDD|223548 COG0472, Rfe, UDP-N-acetylmuramyl pentapeptide
phosphotransferase/UDP-N- acetylglucosamine-1-phosphate
transferase [Cell envelope biogenesis, outer membrane].
Length = 319
Score = 29.2 bits (66), Expect = 3.5
Identities = 11/66 (16%), Positives = 24/66 (36%), Gaps = 11/66 (16%)
Query: 62 VLKLSTRKGTSRSISESIRERNRSPVIYVAESSPLILRLGGILFIFTNLSGALVNAFYFG 121
++K + G I E + ++ P +GG+ + + L +L+ A
Sbjct: 23 LIKFLRKLGL-GDIPEDGPKSHKKGT-------P---TMGGLAILLSILLASLLAANLLT 71
Query: 122 SGGWWF 127
+ W
Sbjct: 72 NPYVWL 77
>gnl|CDD|213729 TIGR02605, CxxC_CxxC_SSSS, putative regulatory protein, FmdB
family. This model represents a region of about 50
amino acids found in a number of small proteins in a
wide range of bacteria. The region begins usually with
the initiator Met and contains two CxxC motifs separated
by 17 amino acids. One member of this family is has been
noted as a putative regulatory protein, designated FmdB
(SP:Q50229, PMID:8841393 ). Most members of this family
have a C-terminal region containing highly degenerate
sequence, such as
SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in
Mycobacterium tuberculosis and
VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces
avermitilis. These low complexity regions, which are not
included in the model, resemble low-complexity
C-terminal regions of some heterocycle-containing
bacteriocin precursors [Regulatory functions, DNA
interactions].
Length = 52
Score = 26.1 bits (58), Expect = 4.0
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 9/35 (25%)
Query: 269 FKCTKCDKVFQHIQLLNRHQLVHMDTRPYQ-CPQC 302
++CT C F+ +Q M P CP+C
Sbjct: 6 YRCTACGHRFEVLQ--------KMSDDPLATCPEC 32
>gnl|CDD|221755 pfam12756, zf-C2H2_2, C2H2 type zinc-finger (2 copies). This
family contains two copies of a C2H2-like zinc finger
domain.
Length = 100
Score = 27.2 bits (61), Expect = 4.7
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 9/43 (20%)
Query: 136 YLGHKLHLKRHTGEKPHTCELCSKGFLSAESYKCHLR--RHKG 176
YL K+H + C C K F S E+ + H+R H
Sbjct: 42 YLREKIHEG-------NECLYCGKQFKSLEALRQHMRDKGHCK 77
>gnl|CDD|215728 pfam00115, COX1, Cytochrome C and Quinol oxidase polypeptide I.
Length = 441
Score = 28.7 bits (65), Expect = 5.1
Identities = 9/33 (27%), Positives = 11/33 (33%), Gaps = 4/33 (12%)
Query: 99 RLGGILFIFTNLSGALVNA-FYFGSG---GWWF 127
RL + F + G L G G GW
Sbjct: 83 RLNALSFWLLVVGGLLALVSLLLGGGAGRGWTE 115
>gnl|CDD|203570 pfam07058, Myosin_HC-like, Myosin II heavy chain-like. This family
represents a conserved region within a number of myosin
II heavy chain-like proteins that seem to be specific to
Arabidopsis thaliana.
Length = 351
Score = 28.1 bits (62), Expect = 6.7
Identities = 19/53 (35%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 36 FTCNICSRKFTTYSQVRRSSNTSARNVLKLSTRKGTSRSISESIRERNRSPVI 88
FT N K SQ+R S VLK + KGTS S R +RS ++
Sbjct: 195 FTSNGGLSKKRPSSQLRGSLTGRISTVLKHA--KGTSISFDGGTRSMDRSKIL 245
>gnl|CDD|187570 cd05260, GDP_MD_SDR_e, GDP-mannose 4,6 dehydratase, extended (e)
SDRs. GDP-mannose 4,6 dehydratase, a homodimeric SDR,
catalyzes the NADP(H)-dependent conversion of
GDP-(D)-mannose to GDP-4-keto, 6-deoxy-(D)-mannose in
the fucose biosynthesis pathway. These proteins have the
canonical active site triad and NAD-binding pattern,
however the active site Asn is often missing and may be
substituted with Asp. A Glu residue has been identified
as an important active site base. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 316
Score = 27.9 bits (63), Expect = 6.9
Identities = 9/25 (36%), Positives = 11/25 (44%), Gaps = 1/25 (4%)
Query: 70 GTSRSISESIRERNRSPVIYVAESS 94
GT + E+IR Y A SS
Sbjct: 102 GTLN-LLEAIRILGLDARFYQASSS 125
>gnl|CDD|206083 pfam13912, zf-C2H2_6, C2H2-type zinc finger.
Length = 27
Score = 24.9 bits (55), Expect = 7.5
Identities = 8/25 (32%), Positives = 11/25 (44%)
Query: 268 IFKCTKCDKVFQHIQLLNRHQLVHM 292
+ C C K F +Q L H+ H
Sbjct: 1 VHTCGVCGKTFSSLQALGGHKKSHC 25
>gnl|CDD|177288 PHA00616, PHA00616, hypothetical protein.
Length = 44
Score = 25.5 bits (56), Expect = 7.6
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 8 YQCSQCPKAFNQKGNLKEHFRIHTGEKPFT 37
YQC +C F +K + EH + T
Sbjct: 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNKLT 31
>gnl|CDD|237653 PRK14276, PRK14276, chaperone protein DnaJ; Provisional.
Length = 380
Score = 27.7 bits (62), Expect = 8.6
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 12/60 (20%)
Query: 202 RTCHN---KPTVNRFPCDKCEKVYSCASSLTKHMKARLG--RQPVSCDICH---KEFTHP 253
TC+ KP + C KC + +T + LG R+ V+CD+CH KE P
Sbjct: 150 HTCNGSGAKPGTSPVTCGKCHG----SGVITVDTQTPLGMMRRQVTCDVCHGTGKEIKEP 205
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 28.1 bits (63), Expect = 9.3
Identities = 11/65 (16%), Positives = 15/65 (23%), Gaps = 25/65 (38%)
Query: 266 NEIFKCTKCDKVFQHIQLLNRHQLVHMDTRPYQCPQCPMAYKTNISLSAHLMKHTGAKPY 325
I +C CD +H T +C C + P
Sbjct: 442 GYIAECPNCDSPLT----------LHKATGQLRCHYC---------------GYQEPIPQ 476
Query: 326 VCEIC 330
C C
Sbjct: 477 SCPEC 481
>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 = 24.5 bits (53), Expect = 9.7
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 8 YQCSQCPKAFNQKGNLKEHFRIH 30
++C C K+F+ K LK H R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
>gnl|CDD|147470 pfam05290, Baculo_IE-1, Baculovirus immediate-early protein (IE-0).
The Autographa californica multinucleocapsid nuclear
polyhedrosis virus (AcMNPV) ie-1 gene product (IE-1) is
thought to play a central role in stimulating early
viral transcription. IE-1 has been demonstrated to
activate several early viral gene promoters and to
negatively regulate the promoters of two other AcMNPV
regulatory genes, ie-0 and ie-2. It is thought that that
IE-1 negatively regulates the expression of certain
genes by binding directly, or as part of a complex, to
promoter regions containing a specific IE-1-binding
motif (5'-ACBYGTAA-3') near their mRNA start sites.
Length = 141
Score = 27.0 bits (60), Expect = 9.9
Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 16/67 (23%)
Query: 271 CTKCDKVFQHIQLLN-RHQL--VHMDTRPYQCPQCPMAYKTNISLSAHLMKHTGAKPYVC 327
T+ K I+ +N R Q+ V ++ + YQC C + S H + KP C
Sbjct: 52 ITRSQKYLHVIKAINERMQVMNVFLEPKLYQCNIC-----QDTSAEEHFL-----KPNEC 101
Query: 328 ---EICN 331
+ICN
Sbjct: 102 CGYKICN 108
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 0.133 0.433
Gapped
Lambda K H
0.267 0.0804 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,008,105
Number of extensions: 1397169
Number of successful extensions: 2033
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2018
Number of HSP's successfully gapped: 108
Length of query: 345
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 247
Effective length of database: 6,590,910
Effective search space: 1627954770
Effective search space used: 1627954770
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: 40 (21.5 bits)
S2: 59 (26.4 bits)