RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7449
(596 letters)
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 39.3 bits (91), Expect = 0.005
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 532 HCSYKSTQSSCLGRHMRIHTGEKPYACSLCDLKFSQNSQLKYHLTTRHD 580
H + K ++ + +KPY C +CD ++ + LKYH HD
Sbjct: 375 HQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKHSHD 423
Score = 29.7 bits (66), Expect = 5.6
Identities = 16/73 (21%), Positives = 28/73 (38%), Gaps = 25/73 (34%)
Query: 239 YSSRMIKHIRNHTGERPFQCKI--CDSTFKRKQTLDLHIKR-HTGERT------------ 283
SRM+K +P++C + C+ +K + L H+ H ++
Sbjct: 337 TPSRMLKVK----DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIF 392
Query: 284 ------YKCEFCD 290
Y+CE CD
Sbjct: 393 SAKDKPYRCEVCD 405
Score = 29.3 bits (65), Expect = 7.1
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 552 GEKPYACSL--CDLKFSQNSQLKYHLTTRHDLP 582
KPY C + C+ K+ + LKYH+ H
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQ 378
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 34.3 bits (79), Expect = 0.006
Identities = 16/26 (61%), Positives = 17/26 (65%)
Query: 158 NLRTHMRTHIGEKPYKCSSCDFQATQ 183
NLR HMRTH GEKPYKC C +
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 34.3 bits (79), Expect = 0.006
Identities = 14/25 (56%), Positives = 19/25 (76%)
Query: 364 MKKHIRTHTGEKPFKCTHCRYSASR 388
+++H+RTHTGEKP+KC C S S
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 33.9 bits (78), Expect = 0.008
Identities = 10/23 (43%), Positives = 17/23 (73%)
Query: 245 KHIRNHTGERPFQCKICDSTFKR 267
+H+R HTGE+P++C +C +F
Sbjct: 4 RHMRTHTGEKPYKCPVCGKSFSS 26
Score = 33.1 bits (76), Expect = 0.017
Identities = 15/23 (65%), Positives = 16/23 (69%)
Query: 545 RHMRIHTGEKPYACSLCDLKFSQ 567
RHMR HTGEKPY C +C FS
Sbjct: 4 RHMRTHTGEKPYKCPVCGKSFSS 26
Score = 32.0 bits (73), Expect = 0.033
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 102 DLKKHQRKHTGEKPYSCGHCPYTARS 127
+L++H R HTGEKPY C C + S
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 30.1 bits (68), Expect = 0.17
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 271 LDLHIKRHTGERTYKCEFCDYTAAR 295
L H++ HTGE+ YKC C + +
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 28.1 bits (63), Expect = 0.91
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 130 YMLTHLKVHSGEKAFKCEYCSYS 152
+ H++ H+GEK +KC C S
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKS 23
Score = 27.4 bits (61), Expect = 1.7
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 75 LKRHFLKHTGEKSYECCWCTYKTAY 99
L+RH HTGEK Y+C C +
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 25.4 bits (56), Expect = 7.1
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 514 HMRQHINGHVGIKPYKCLHCSYKSTQ 539
++R+H+ H G KPYKC C +
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
>gnl|CDD|234616 PRK00076, recR, recombination protein RecR; Reviewed.
Length = 196
Score = 34.7 bits (81), Expect = 0.079
Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 7/38 (18%)
Query: 306 KHKISICQNCGLILSTITEELLEHCRICSGKERPDSST 343
K KI C CG +TE+ + C ICS R D S
Sbjct: 50 KEKIKHCSVCG----NLTEQ--DPCEICSDPRR-DQSL 80
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 35.4 bits (81), Expect = 0.089
Identities = 25/64 (39%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 526 KPYKCLHCSYKSTQSSCLGRHMRIHTGEKPYACSL--CDLKFSQNSQLKYHLTTRHDLPD 583
+P C +C+ ++ L RH+R HTGEKP CS CD FS+ +L HL T H+ P
Sbjct: 32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNPS 91
Query: 584 MSTC 587
Sbjct: 92 DLNS 95
>gnl|CDD|223430 COG0353, RecR, Recombinational DNA repair protein (RecF pathway)
[DNA replication, recombination, and repair].
Length = 198
Score = 34.5 bits (80), Expect = 0.096
Identities = 14/41 (34%), Positives = 18/41 (43%), Gaps = 7/41 (17%)
Query: 303 VRIKHKISICQNCGLILSTITEELLEHCRICSGKERPDSST 343
+ K I C CG +TE + C ICS + R D S
Sbjct: 48 LEAKENIKHCSVCG----NLTES--DPCDICSDESR-DKSQ 81
>gnl|CDD|211342 cd02577, PSTD1, Pseudouridine synthase, a subgroup of the TruD
family. This group consists of several hypothetical
archeal pseudouridine synthases assigned to the TruD
family of psuedouridine synthases. Pseudouridine
synthases catalyze the isomerization of specific
uridines in an RNA molecule to pseudouridines
(5-ribosyluracil, psi). The TruD family is comprised of
proteins related to Escherichia coli TruD.
Length = 319
Score = 33.5 bits (77), Expect = 0.28
Identities = 10/45 (22%), Positives = 14/45 (31%), Gaps = 2/45 (4%)
Query: 68 VESGAWRLKRHFLKHTGEKSYECCWCTYKTAYENDLKKHQRKHTG 112
E+G + G+ +E C Y T E KH
Sbjct: 180 EETGDKKRALRLFPKWGD--WERCLKEYPTNLEERRVKHLLAEPK 222
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 28.2 bits (63), Expect = 0.85
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 144 FKCEYCSYSSYSKSNLRTHMRTH 166
++C C SKS LR HMRTH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.9 bits (57), Expect = 5.4
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 256 FQCKICDSTFKRKQTLDLHIKRH 278
++C C FK K L H++ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>gnl|CDD|202123 pfam02132, RecR, RecR protein.
Length = 41
Score = 28.2 bits (64), Expect = 0.95
Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 6/33 (18%)
Query: 306 KHKISICQNCGLILSTITEELLEHCRICSGKER 338
K K+ C CG +TE + C ICS R
Sbjct: 14 KEKVRHCSVCG----NLTET--DPCEICSDPRR 40
>gnl|CDD|212564 cd11674, lambda-1, inner capsid protein lambda-1 or VP3. The
reovirus inner capsid protein lambda-1 displays
nucleoside triphosphate phosphohydrolase (NTPase),
RNA-5'-triphosphatase (RTPase), and RNA helicase
activity and may play a role in the transcription of the
virus genome, the unwinding or reannealing of
double-stranded RNA during RNA synthesis. The RTPase
activity constitutes the first step in the capping of
RNA, resulting in a 5'-diphosphorylated RNA plus-strand.
lambda1 is an Orthoreovirus core protein, VP3 is the
homologous core protein in Aquareoviruses.
Length = 1166
Score = 31.7 bits (72), Expect = 1.2
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 556 YACSLCDLKFSQNSQLKYHLTTRHDLPDMS 585
Y C++C +FS QL H T H + S
Sbjct: 74 YVCNVCMAEFSSMDQLAEHQRTTHSIGASS 103
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 31.5 bits (71), Expect = 1.3
Identities = 25/101 (24%), Positives = 35/101 (34%), Gaps = 15/101 (14%)
Query: 503 FTCNYHTYKSGHMRQHING---HVGIKPY-KCLHCSYKSTQSSCLGRHMRIHTGEKPYAC 558
F ++S +R H NG G K + C+ C L RH R + AC
Sbjct: 192 FWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCR----LRHEAC 247
Query: 559 SLCDL-------KFSQNSQLKYHLTTRHDLPDMSTCLSIEC 592
+CD+ F L+ H H TC +C
Sbjct: 248 HICDMVGPIRYQYFKSYEDLEAHFRNAHYCCTFQTCRVGKC 288
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 30.2 bits (68), Expect = 1.4
Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 2/57 (3%)
Query: 255 PFQCKICDSTFKRKQTLDLHIKRHTGERTYKCEFCDYTAARKDTLGVHVRIKHKISI 311
P+ C +C F +L HI R+T E + C C D+ HV KH I +
Sbjct: 73 PYVCPLCLMPFSSSVSLKQHI-RYT-EHSKVCPVCGKEFRNTDSTLDHVCKKHNICV 127
>gnl|CDD|217201 pfam02722, MOSP_C, Major Outer Sheath Protein C-terminal region.
This is a family of spirochete major outer sheath
protein C-terminal regions. These proteins are present
on the bacterial cell surface. In T. denticola the major
outer sheath protein (Msp) binds immobilised laminin and
fibronectin supporting the hypothesis that Msp mediates
the extracellular matrix binding activity of T.
denticola.
Length = 201
Score = 29.8 bits (67), Expect = 3.0
Identities = 16/49 (32%), Positives = 18/49 (36%), Gaps = 12/49 (24%)
Query: 509 TYKSGHMRQHINGHVGIKPYKCLHCSYKSTQSSCLGRHMRIHTGEKPYA 557
T S HIN V K SY+ LG H + KPYA
Sbjct: 85 TLNSKFPPGHINLPVVGK----AWVSYRIP----LGDHAWV----KPYA 121
>gnl|CDD|224569 COG1655, COG1655, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 267
Score = 29.9 bits (67), Expect = 3.3
Identities = 13/52 (25%), Positives = 22/52 (42%), Gaps = 7/52 (13%)
Query: 387 SRRDTLDHHIQVSHLYKKRFQCPVCDYRCTKKYNLQMHA----LTKHDLDIK 434
R++ S YKK +CPVC+ + K+ ++ + DLD
Sbjct: 1 MRKEEEKKTSINSLFYKKTIECPVCNTKFKKE---EVKTGSIRIIAGDLDFF 49
>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 = 26.5 bits (59), Expect = 3.4
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 145 KCEYCSYSSYSKSNLRTHMRTH 166
KC C S KSNL+ H+RTH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 25.8 bits (57), Expect = 5.3
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 257 QCKICDSTFKRKQTLDLHIKRH 278
+C C +F RK L H++ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|130572 TIGR01508, rib_reduct_arch,
2,
5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine
1'-reductase, archaeal. This model represents a
specific reductase of riboflavin biosynthesis in the
Archaea, diaminohydroxyphosphoribosylaminopyrimidine
reductase. It should not be confused with bacterial
5-amino-6-(5-phosphoribosylamino)uracil reductase. The
intermediate
2,
5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine
in riboflavin biosynthesis is reduced first, and then
deaminated, in both Archaea and Fungi, opposite the
order in Bacteria. The subsequent deaminase is not
presently known and is not closely homologous to the
deaminase domain (3.5.4.26) fused to the reductase
domain (1.1.1.193) similar to this protein but found in
most bacteria.
Length = 210
Score = 29.4 bits (66), Expect = 4.1
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 3/48 (6%)
Query: 441 DAGTYILDTALSPEKRVKS---RGHETVICHHCRDLLPYKIKDLVSHG 485
DA T I + PE++V+ +G E V R L + L G
Sbjct: 89 DAKTIIATSEDEPEEKVEELEDKGVEVVKFGEGRVDLKKLLDILYDKG 136
>gnl|CDD|238586 cd01181, IPT_plexin_repeat3, Third repeat of the IPT domain of
Plexins and Cell Surface Receptors (PCSR) . Plexins are
involved in the regulation of cell proliferation and of
cellular adhesion and repulsion receptors. In general,
there are three copies of the IPT domain present
preceeded by SEMA (semaphorin) and PSI (plexin,
semaphorin, integrin) domains.
Length = 99
Score = 27.8 bits (62), Expect = 5.1
Identities = 14/38 (36%), Positives = 15/38 (39%), Gaps = 2/38 (5%)
Query: 433 IKSDG-IIQDAGTYILDTALSPEKRVKSRGHETVICHH 469
S G I GT L+T P RVK G E C
Sbjct: 12 FLSGGTPITVTGTN-LNTVQEPRIRVKYGGVEKTSCKV 48
>gnl|CDD|205349 pfam13168, Poxvirus_B22R_C, Poxvirus B22R protein C-terminal. This
is the highly conserved C-terminal region of poxvirus
proteins from eg, Fowlpox virus, Myxoma virus, Lumpy
skin disease, Variola virus and other members of the
Poxviridae family of double-stranded, no-RNA stage
poxviruses.
Length = 197
Score = 29.2 bits (66), Expect = 5.2
Identities = 18/51 (35%), Positives = 20/51 (39%), Gaps = 8/51 (15%)
Query: 316 GLI-LSTITEELLEHCRICSGKERP-DSSTDKSFNYVCYTCDYHTGVRECM 364
GLI LL SGK P D +K Y Y GVR+CM
Sbjct: 43 GLIDAGKDIYYLL------SGKPPPVDPVIEKFSTYAKYVSTSEAGVRKCM 87
>gnl|CDD|235514 PRK05580, PRK05580, primosome assembly protein PriA; Validated.
Length = 679
Score = 29.4 bits (67), Expect = 6.2
Identities = 14/80 (17%), Positives = 26/80 (32%), Gaps = 32/80 (40%)
Query: 117 SCGH---CPYTARSSSYMLTHLKVHSGEKAFKCEYCSYSSYSKSNLRTHMRTHIGEKPYK 173
CG CP+ + + T +H ++ +C +C Y P
Sbjct: 386 DCGWVAECPHC---DASL-T---LHRFQRRLRCHHCGYQE---------------PIPKA 423
Query: 174 CSSC---DFQA----TQKIQ 186
C C D T++++
Sbjct: 424 CPECGSTDLVPVGPGTERLE 443
>gnl|CDD|224018 COG1093, SUI2, Translation initiation factor 2, alpha subunit
(eIF-2alpha) [Translation, ribosomal structure and
biogenesis].
Length = 269
Score = 28.8 bits (65), Expect = 6.6
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 4/50 (8%)
Query: 240 SSRMIKHIRNHTGERPFQCKICD--STFKRKQTLDLHIKRHTGERTYKCE 287
+S +K+IR++ E Q + ++ +DL +KR T + K
Sbjct: 47 ASGWVKNIRDYVKEG--QKVVAKVLRVDPKRGHIDLSLKRVTEHQRRKKI 94
>gnl|CDD|237798 PRK14714, PRK14714, DNA polymerase II large subunit; Provisional.
Length = 1337
Score = 29.3 bits (66), Expect = 8.9
Identities = 11/41 (26%), Positives = 15/41 (36%), Gaps = 5/41 (12%)
Query: 194 ICQHCDQSLFGTTQQLADHCRTCDKMPRPDRSYQYQCYSCE 234
C C GT + C C PD S + +C C+
Sbjct: 681 RCPDC-----GTHTEPVYVCPDCGAEVPPDESGRVECPRCD 716
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 0.136 0.451
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 28,041,198
Number of extensions: 2518323
Number of successful extensions: 3033
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3011
Number of HSP's successfully gapped: 107
Length of query: 596
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 494
Effective length of database: 6,413,494
Effective search space: 3168266036
Effective search space used: 3168266036
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 (21.6 bits)
S2: 62 (27.7 bits)