RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy367
(919 letters)
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 47.0 bits (111), Expect = 3e-05
Identities = 64/410 (15%), Positives = 109/410 (26%), Gaps = 41/410 (10%)
Query: 94 HSCDVCGKVFSCPTNLTVHKRVHTGEKPFVC--ESCGKSFSQHSSLFIHKMIHTQRQYRY 151
SC C FS +LT H R HTGEKP C C KSFS+ L H H
Sbjct: 34 DSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNPSDL 93
Query: 152 ECSHCQKKFFRNSKLTSHLKTHSDLRPYECDICNASFKTNYERKK--HRIYVHSETRPYQ 209
+ S + + + + + + I
Sbjct: 94 NSKSLPLSNSKASSSSLSSSSSNSNDNNLLSSHSLPPSSRDPQLPDLLSISNLRNNPLPG 153
Query: 210 CNLCN-----ASFKRPGHLKQHGKTHNTENKGLLEEHVFSCKAKRKENLDSYQITWGVDM 264
N + ++ P + N LL S ++ +
Sbjct: 154 NNSSSVNTPQSNSLHPPLPANSLSKDPSSNLSLLISSNVSTSIPSSSENSPLSSSYSIPS 213
Query: 265 -----------VRYQCPMCQIVLKRKDTLRHHLKLHTGEKFVTCEQC-----GKQLHGVY 308
+ + + L + + + +
Sbjct: 214 SSSDQNLENSSSSLPLTTNSQLSPKSLLSQSPSSLSSSDSSSSASESPRSSLPTASSQSS 273
Query: 309 AFKRHLKSVH-LKIKDLCCDMCGKAFSCQTNLAAHKKTHS----GDKPYVC--ETCGKSF 361
+ S + C +FS + L H ++ + KP+ C CGK F
Sbjct: 274 SPNESDSSSEKGFSLPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLF 333
Query: 362 AQNASLKYHHDTVHALVKKRLFQCSQCPKKFYRNSKLNAHLKIHTEERACFCDI--CNHS 419
++N +LK H H + + KF + + +
Sbjct: 334 SRNDALKRHILL-HTSISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSN 392
Query: 420 FKTDNEVKKHK----RFVHTDERPHACQ--YCSATFKKSDHLKRHSKTAH 463
N + H RP+ C+ CS +F + +L H K
Sbjct: 393 SCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHT 442
Score = 38.1 bits (88), Expect = 0.022
Identities = 40/340 (11%), Positives = 88/340 (25%), Gaps = 9/340 (2%)
Query: 326 CDMCGKAFSCQTNLAAHKKTHSGDKPYVCETCGKSFAQNASLKYHHDTVHALVKKRLFQC 385
C C +FS +L H ++H+G+KP C G + + L+
Sbjct: 36 CPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNPSDLNS 95
Query: 386 SQCPKKFYRNSKLNAHLKIHTEERACFCDICNHSFKTDNEVKKHKRFVHTDERPHACQYC 445
P + S + + + + ++ R +
Sbjct: 96 KSLPLSNSKASSSSLSSSSSNSNDNNLLSSHSLPPSSRDPQLPDLLS-ISNLRNNPLPGN 154
Query: 446 SATFKKSDHLKRHSKTAHKEMYQSEDIDQQTILLDPRTYVHPYVPYQGDPHD-LKKISIS 504
+++ + + ++L+ + P I S
Sbjct: 155 NSSSVNTPQSNSLHPPLPANSLSKDPSSNLSLLISSNVSTSIPSSSENSPLSSSYSIPSS 214
Query: 505 RVHTRKKELLVSSTCAQQDPEPLQSASIEVITPNADPSQNLFCIKCNASFTSSPAMQSHL 564
+ S +S + + + + + S + + QS
Sbjct: 215 SSDQNLENSSSSLPLTTNSQLSPKSLLSQSPSSLSSSDSSSSASESPRSSLPTASSQSSS 274
Query: 565 KKVHNFSNPNRFD----CCFCSEIFNLKKDYHEHLKKEHGQTTSGTRRFQLCACTDCGRM 620
+ S+ F C+ F+ HL+ + + + + C + CG++
Sbjct: 275 PNESDSSSEKGFSLPIKSKQCNISFSRSSPLTRHLRSVN--HSGESLKPFSCPYSLCGKL 332
Query: 621 FYNNGALGIH-RRAVHSQENTYQCDPCGKVFPSKKYMREH 659
F N AL H + F
Sbjct: 333 FSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLNNEPP 372
Score = 32.7 bits (74), Expect = 0.92
Identities = 45/232 (19%), Positives = 72/232 (31%), Gaps = 43/232 (18%)
Query: 3 DFTIVTFVIKLSNKNASWQNTTEMYISLLDLTSVPYVLPHSRQHLSKYSLKNHVRIHTKE 62
T + + S + S + + S S LP + S + +
Sbjct: 228 PLTTNSQLSPKSLLSQSPSSLSSSDSSSSASESPRSSLPTASSQSSSPNESDSSSEKGFS 287
Query: 63 KLFICEECGKQFVTSSALRRHKKAVHLKIKD---HSCDV--CGKVFSCPTNLTVHKRVHT 117
++C F SS L RH ++V+ + SC CGK+FS L H +HT
Sbjct: 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHT 347
Query: 118 GEKPFVC--ESCGKSFSQ------HSSLFIHKMIHTQRQ--------------------- 148
P + FS SL +K + ++
Sbjct: 348 SISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLH 407
Query: 149 ---------YRYECSHCQKKFFRNSKLTSHLKTHSDLRPYECDICNASFKTN 191
Y + C K F R+ L H K H++ P C I + +
Sbjct: 408 IITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPLLCSILKSFRRDL 459
Score = 31.6 bits (71), Expect = 2.3
Identities = 55/352 (15%), Positives = 105/352 (29%), Gaps = 38/352 (10%)
Query: 120 KPFVCESCGKSFSQHSSLFIHKMIHTQRQYRYECSH--CQKKFFRNSKLTSHLKTHSDLR 177
+P C +C SFS+ L H HT + +CS+ C K F R +L+ HL+TH +
Sbjct: 32 RPDSCPNCTDSFSRLEHLTRHIRSHTG-EKPSQCSYSGCDKSFSRPLELSRHLRTHHNNP 90
Query: 178 PYECDICNASFKTNYERKKHRIYVHSETRPYQCNLCNASFKRPGHLKQHGKTHNTENKGL 237
+S+ + +++ L H +
Sbjct: 91 SDLNSKSLPL-------------SNSKASSSSLSSSSSNSNDNNLLSSHS-LPPSSRDPQ 136
Query: 238 LEEHVFSCKAKRKENLDSYQITWGVDMVRYQC------PMCQIVLKRKDTLRH-HLKLHT 290
L + + + N + V+ + + + T
Sbjct: 137 LPDLLSISNL--RNNPLPGNNSSSVNTPQSNSLHPPLPANSLSKDPSSNLSLLISSNVST 194
Query: 291 GEKFVTCEQCGKQLHGVYAFKRHLKSVHLKIKDLCCDMCGKAFSCQTNLAAHKKTHSGDK 350
+ + + + + L + + S D
Sbjct: 195 SIPSSSENSPLSSSYSIPSSSSDQNLENSSS-SLPLTTNSQLSPKSLLSQSPSSLSSSDS 253
Query: 351 PYVCETCGKSFAQNASLKYHHDTVHALVKKRLF----QCSQCPKKFYRNSKLNAHL--KI 404
+S AS + ++ F + QC F R+S L HL
Sbjct: 254 SSSASESPRSSLPTASSQSSSPNESDSSSEKGFSLPIKSKQCNISFSRSSPLTRHLRSVN 313
Query: 405 HTEE----RACFCDICNHSFKTDNEVKKHKRFVHTDERPHACQYCSATFKKS 452
H+ E +C +C F ++ +K+H +HT P + +++ K S
Sbjct: 314 HSGESLKPFSCPYSLCGKLFSRNDALKRHIL-LHTSISPAKEKLLNSSSKFS 364
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 37.0 bits (86), Expect = 8e-04
Identities = 17/26 (65%), Positives = 18/26 (69%)
Query: 108 NLTVHKRVHTGEKPFVCESCGKSFSQ 133
NL H R HTGEKP+ C CGKSFS
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 34.7 bits (80), Expect = 0.007
Identities = 15/26 (57%), Positives = 19/26 (73%)
Query: 338 NLAAHKKTHSGDKPYVCETCGKSFAQ 363
NL H +TH+G+KPY C CGKSF+
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 34.3 bits (79), Expect = 0.009
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 51 SLKNHVRIHTKEKLFICEECGKQFVT 76
+L+ H+R HT EK + C CGK F +
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 30.1 bits (68), Expect = 0.27
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 166 LTSHLKTHSDLRPYECDICNASFKT 190
L H++TH+ +PY+C +C SF +
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 27.4 bits (61), Expect = 2.6
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 398 LNAHLKIHTEERACFCDICNHSFKT 422
L H++ HT E+ C +C SF +
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 27.0 bits (60), Expect = 3.4
Identities = 13/27 (48%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 79 ALRRHKKAVHLKIKDHSCDVCGKVFSC 105
LRRH + H K + C VCGK FS
Sbjct: 1 NLRRHMR-THTGEKPYKCPVCGKSFSS 26
Score = 26.6 bits (59), Expect = 5.3
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 282 LRHHLKLHTGEKFVTCEQCGKQ 303
LR H++ HTGEK C CGK
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKS 23
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 36.0 bits (83), Expect = 0.021
Identities = 20/56 (35%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 824 VRPHMCDLCGARFKKSSALLQHRPIHTGERHICPVCGRGFTQRGAMKKHVSTLHHL 879
V P++C LC F S +L QH +T +CPVCG+ F + HV H++
Sbjct: 71 VSPYVCPLCLMPFSSSVSLKQHIR-YTEHSKVCPVCGKEFRNTDSTLDHVCKKHNI 125
Score = 29.1 bits (65), Expect = 4.7
Identities = 23/80 (28%), Positives = 34/80 (42%), Gaps = 4/80 (5%)
Query: 6 IVTFVIKLSNKNASWQNTTEMYISLLDLTSV-PYVLPHSRQHLSKY-SLKNHVRIHTKEK 63
++ V+K N + + LL +V PYV P S SLK H+R K
Sbjct: 41 LIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYTEHSK 100
Query: 64 LFICEECGKQFVTSSALRRH 83
+C CGK+F + + H
Sbjct: 101 --VCPVCGKEFRNTDSTLDH 118
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 36.2 bits (83), Expect = 0.068
Identities = 18/66 (27%), Positives = 21/66 (31%), Gaps = 19/66 (28%)
Query: 329 CGKAFSCQTNLAAHKK---------------THSG----DKPYVCETCGKSFAQNASLKY 369
C K + Q L H + DKPY CE C K + LKY
Sbjct: 357 CNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKY 416
Query: 370 HHDTVH 375
H H
Sbjct: 417 HRKHSH 422
Score = 35.8 bits (82), Expect = 0.088
Identities = 21/87 (24%), Positives = 33/87 (37%), Gaps = 12/87 (13%)
Query: 118 GEKPFVCE--SCGKSFSQHSSLFIHKMIHTQRQYRYECSHCQKKFFRNSKLTSHLKTHSD 175
KP+ C C K + + L H M+H H +K N +
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYH-MLH---------GHQNQKLHENPSPEKMNIFSAK 395
Query: 176 LRPYECDICNASFKTNYERKKHRIYVH 202
+PY C++C+ +K K HR + H
Sbjct: 396 DKPYRCEVCDKRYKNLNGLKYHRKHSH 422
Score = 33.5 bits (76), Expect = 0.46
Identities = 19/78 (24%), Positives = 34/78 (43%), Gaps = 21/78 (26%)
Query: 175 DLRPYECDI--CNASFKTNYERKKHRIYVH------------------SETRPYQCNLCN 214
D +PY+C + CN +K K H ++ H ++ +PY+C +C+
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCD 405
Query: 215 ASFKRPGHLKQHGKTHNT 232
+K LK H + H+
Sbjct: 406 KRYKNLNGLKYH-RKHSH 422
Score = 32.4 bits (73), Expect = 1.1
Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 13/84 (15%)
Query: 765 DEPPFACP--QCGKLYNKKSSLYMHLSTKHGKRSEPTVCEACGKHVINIRNHMRQVHLYP 822
D P+ CP C K Y ++ L H+ HG ++ + E +NI
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYHM--LHGHQN-QKLHENPSPEKMNI--------FSA 394
Query: 823 EVRPHMCDLCGARFKKSSALLQHR 846
+ +P+ C++C R+K + L HR
Sbjct: 395 KDKPYRCEVCDKRYKNLNGLKYHR 418
Score = 30.5 bits (68), Expect = 4.0
Identities = 19/82 (23%), Positives = 30/82 (36%), Gaps = 12/82 (14%)
Query: 62 EKLFICE--ECGKQFVTSSALRRHKKAVHLKIKDHSCDVCGKVFSCPTNLTVHKRVHTGE 119
K + C C K++ + L+ H H K H N+ K +
Sbjct: 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPS-----PEKMNIFSAK-----D 396
Query: 120 KPFVCESCGKSFSQHSSLFIHK 141
KP+ CE C K + + L H+
Sbjct: 397 KPYRCEVCDKRYKNLNGLKYHR 418
Score = 29.7 bits (66), Expect = 9.1
Identities = 25/118 (21%), Positives = 35/118 (29%), Gaps = 43/118 (36%)
Query: 348 GDKPYVCET--CGKSFAQNASLKYHHDTVHALVKKRLFQCSQCPKKFYRNSKLNAHLKIH 405
KPY C C K + LKYH L+ H
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYH--------------------------MLHGH---- 375
Query: 406 TEERACFCDICNHSFKTDNEVKKHKRFVHTDERPHACQYCSATFKKSDHLKRHSKTAH 463
N + +K F D +P+ C+ C +K + LK H K +H
Sbjct: 376 ----------QNQKLHENPSPEKMNIFSAKD-KPYRCEVCDKRYKNLNGLKYHRKHSH 422
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 36.5 bits (85), Expect = 0.072
Identities = 13/46 (28%), Positives = 17/46 (36%), Gaps = 12/46 (26%)
Query: 95 SCDVCGKVFSCP---TNLTVHKRV---------HTGEKPFVCESCG 128
C CG + CP + LT+HK + P C CG
Sbjct: 437 LCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECG 482
>gnl|CDD|224908 COG1997, RPL43A, Ribosomal protein L37AE/L43A [Translation,
ribosomal structure and biogenesis].
Length = 89
Score = 32.7 bits (75), Expect = 0.13
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 11/55 (20%)
Query: 78 SALRRHKKAVHLKIKD-HSCDVCGKVFSCPTNLTVHKRVHTGEKPFVCESCGKSF 131
S LRR K + + + H C CG+ T KR+ TG + C CG F
Sbjct: 19 SKLRRRVKEIEAQQRAKHVCPFCGR--------TTVKRIATG--IWKCRKCGAKF 63
>gnl|CDD|236612 PRK09685, PRK09685, DNA-binding transcriptional activator FeaR;
Provisional.
Length = 302
Score = 34.6 bits (80), Expect = 0.17
Identities = 19/78 (24%), Positives = 32/78 (41%), Gaps = 7/78 (8%)
Query: 465 EMYQSEDIDQQTILLDPRTYVHPYVPYQGDPHDLKKISISRVHTRKKELLVSSTCA---- 520
+Y +Q ++LL PR V Y P Q P ++S S + L+ +
Sbjct: 108 SIYPQGLSEQISLLL-PRELVEQYFPGQK-PACAGRLSASLPMVQLSHRLLQQSMNGPAL 165
Query: 521 -QQDPEPLQSASIEVITP 537
+ + E L A I ++ P
Sbjct: 166 SETESEALLEALIALLRP 183
>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 = 29.2 bits (66), Expect = 0.57
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 123 VCESCGKSFSQHSSLFIHKMIH 144
C CGKSFS+ S+L H H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 28.5 bits (64), Expect = 0.90
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 152 ECSHCQKKFFRNSKLTSHLKTH 173
+C C K F R S L HL+TH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 27.3 bits (61), Expect = 2.2
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 384 QCSQCPKKFYRNSKLNAHLKIH 405
+C C K F R S L HL+ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 26.2 bits (58), Expect = 5.6
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 209 QCNLCNASFKRPGHLKQHGKTH 230
+C C SF R +LK+H +TH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 26.2 bits (58), Expect = 6.2
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 66 ICEECGKQFVTSSALRRHKK 85
C +CGK F S L+RH +
Sbjct: 1 KCPDCGKSFSRKSNLKRHLR 20
>gnl|CDD|235514 PRK05580, PRK05580, primosome assembly protein PriA; Validated.
Length = 679
Score = 33.2 bits (77), Expect = 0.65
Identities = 15/48 (31%), Positives = 19/48 (39%), Gaps = 12/48 (25%)
Query: 95 SCDVCGKVFSCP---TNLTVHKRV------HTGE---KPFVCESCGKS 130
C CG V CP +LT+H+ H G P C CG +
Sbjct: 383 LCRDCGWVAECPHCDASLTLHRFQRRLRCHHCGYQEPIPKACPECGST 430
>gnl|CDD|177288 PHA00616, PHA00616, hypothetical protein.
Length = 44
Score = 29.3 bits (66), Expect = 0.84
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 641 YQCDPCGKVFPSKKYMREHIKRIHINQGRV 670
YQC CG +F KK + EH+ +H Q ++
Sbjct: 2 YQCLRCGGIFRKKKEVIEHLLSVH-KQNKL 30
Score = 26.7 bits (59), Expect = 6.8
Identities = 11/28 (39%), Positives = 13/28 (46%)
Query: 576 FDCCFCSEIFNLKKDYHEHLKKEHGQTT 603
+ C C IF KK+ EHL H Q
Sbjct: 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNK 29
>gnl|CDD|206083 pfam13912, zf-C2H2_6, C2H2-type zinc finger.
Length = 27
Score = 28.7 bits (65), Expect = 0.85
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 94 HSCDVCGKVFSCPTNLTVHKRVH 116
H+C VCGK FS L HK+ H
Sbjct: 2 HTCGVCGKTFSSLQALGGHKKSH 24
Score = 27.2 bits (61), Expect = 2.6
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 64 LFICEECGKQFVTSSALRRHKK 85
+ C CGK F + AL HKK
Sbjct: 1 VHTCGVCGKTFSSLQALGGHKK 22
Score = 26.8 bits (60), Expect = 3.9
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 324 LCCDMCGKAFSCQTNLAAHKKTH 346
C +CGK FS L HKK+H
Sbjct: 2 HTCGVCGKTFSSLQALGGHKKSH 24
>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 = 27.9 bits (63), Expect = 1.5
Identities = 11/25 (44%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 208 YQCNLCNASFKRPGHLKQH--GKTH 230
+ C LCN +F LK H GK H
Sbjct: 1 FYCELCNVTFTSESQLKSHLRGKKH 25
>gnl|CDD|184395 PRK13919, PRK13919, putative RNA polymerase sigma E protein;
Provisional.
Length = 186
Score = 31.0 bits (70), Expect = 1.6
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 672 KQREPRP-PAKPDSEKPFKCNLCGTGFESDRQVSGHRVNCAFFVLKPEE 719
++R RP P +PD +P +L G G + + + R+ A L PEE
Sbjct: 92 RRRAARPQPLEPDEREPEAFDLPGPGLDEEGHLDRTRLGRALKALSPEE 140
>gnl|CDD|227652 COG5349, COG5349, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 126
Score = 30.4 bits (69), Expect = 1.6
Identities = 12/25 (48%), Positives = 13/25 (52%)
Query: 846 RPIHTGERHICPVCGRGFTQRGAMK 870
PI G R CP CG G RG +K
Sbjct: 14 TPIKRGLRGRCPRCGEGRLFRGFLK 38
>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 = 32.1 bits (73), Expect = 1.8
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 84 KKAVHLKIKDHSCDVCGKVFSCPTNLTVHKR 114
KKA + + C+VC FS L H+R
Sbjct: 64 KKATPINPSSYVCNVCMAEFSSMDQLAEHQR 94
Score = 32.1 bits (73), Expect = 2.0
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 854 HICPVCGRGFTQRGAMKKHVSTLHHLV 880
++C VC F+ + +H T H +
Sbjct: 74 YVCNVCMAEFSSMDQLAEHQRTTHSIG 100
Score = 30.5 bits (69), Expect = 5.5
Identities = 12/47 (25%), Positives = 17/47 (36%)
Query: 337 TNLAAHKKTHSGDKPYVCETCGKSFAQNASLKYHHDTVHALVKKRLF 383
+ + K T YVC C F+ L H T H++ L
Sbjct: 59 SPPQSKKATPINPSSYVCNVCMAEFSSMDQLAEHQRTTHSIGASSLL 105
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 27.8 bits (62), Expect = 1.9
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 151 YECSHCQKKFFRNSKLTSHLKTH 173
Y C C K F S L H++TH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.4 bits (61), Expect = 2.6
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 122 FVCESCGKSFSQHSSLFIHKMIH 144
+ C CGK F S+L H H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.0 bits (60), Expect = 2.9
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 383 FQCSQCPKKFYRNSKLNAHLKIH 405
++C +C K F S L H++ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.0 bits (60), Expect = 3.0
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 267 YQCPMCQIVLKRKDTLRHHLKLH 289
Y+CP C V K K LR H++ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.0 bits (60), Expect = 3.6
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 94 HSCDVCGKVFSCPTNLTVHKRVH 116
+ C CGKVF + L H R H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 26.3 bits (58), Expect = 6.5
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 65 FICEECGKQFVTSSALRRHKK 85
+ C ECGK F + SALR H +
Sbjct: 1 YRCPECGKVFKSKSALREHMR 21
>gnl|CDD|227480 COG5151, SSL1, RNA polymerase II transcription
initiation/nucleotide excision repair factor TFIIH,
subunit SSL1 [Transcription / DNA replication,
recombination, and repair].
Length = 421
Score = 31.5 bits (71), Expect = 2.1
Identities = 24/104 (23%), Positives = 35/104 (33%), Gaps = 20/104 (19%)
Query: 67 CEECGKQFVTSSALRRH-----------KKAVHLKIKDHSCDVCGKVFSCPTNLTVHKRV 115
C C Q + S+ L R +K K C VC F P +
Sbjct: 325 CPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPFDEST 384
Query: 116 HTGEKPFVCESCGKSFSQHSSLFIHKMIHTQRQYRYECSHCQKK 159
+G + CE C +F +FIH+ +H C C+
Sbjct: 385 SSGR--YQCELCKSTFCSDCDVFIHETLH-------FCIGCELP 419
>gnl|CDD|226397 COG3880, COG3880, Modulator of heat shock repressor CtsR, McsA
[Signal transduction mechanisms].
Length = 176
Score = 30.5 bits (69), Expect = 2.4
Identities = 26/130 (20%), Positives = 40/130 (30%), Gaps = 28/130 (21%)
Query: 268 QCPMCQIVLKRKDTLRHHLKLHTGEK--FVTCEQCGKQLHGVYAFKRHLKSVHLKIKDLC 325
C CQ + T+ H K+ GEK CE C K Y + L +
Sbjct: 2 ICQNCQ---QNPATI-HFTKIINGEKIELYVCETCAKPHSEAYDIEHILVFSIHNVLSGE 57
Query: 326 CDMCGKAFSCQTNLAAHKKTHSGDKPYVCETCGKSFAQNASLKYHHDTVHALVKKRLFQC 385
D + ++ C CG +F + ++ LF C
Sbjct: 58 LDNLK---------TKWQIEQEDEELLGCHNCGMTFKE-------------FIQSGLFGC 95
Query: 386 SQCPKKFYRN 395
++C K F
Sbjct: 96 AECYKTFESQ 105
>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 = 29.4 bits (67), Expect = 3.4
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 4/29 (13%)
Query: 60 TKEKLFICEECGKQFVTSSALRRHKKAVH 88
T + + IC E GK+F T L+RH + H
Sbjct: 67 TPDYI-ICLEDGKKFKT---LKRHLRTHH 91
>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 = 26.8 bits (59), Expect = 4.2
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 65 FICEECGKQFVTSSALRRHKKAVH 88
F C CGK F + AL+RH + H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKHH 24
>gnl|CDD|235290 PRK04351, PRK04351, hypothetical protein; Provisional.
Length = 149
Score = 29.4 bits (67), Expect = 4.3
Identities = 10/49 (20%), Positives = 20/49 (40%), Gaps = 8/49 (16%)
Query: 141 KMIHTQRQYRYECSHCQKKFFRNSKLTSHLKTHSDLRPYECDICNASFK 189
+ ++ Y YEC C +++ R ++ + + Y C C K
Sbjct: 103 PLPSQKKNYLYECQSCGQQYLRKRRI--------NTKRYRCGKCRGKLK 143
>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 = 26.8 bits (60), Expect = 4.6
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 65 FICEECGKQFVTSSALRRHKK 85
F C C K F + +AL H K
Sbjct: 2 FYCVACDKYFKSENALENHLK 22
>gnl|CDD|179247 PRK01211, PRK01211, dihydroorotase; Provisional.
Length = 409
Score = 30.2 bits (68), Expect = 4.8
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 152 ECSHCQKKFFRNSKLTSHLKTHSDLRPYECDICNASFKTNYERK-KHRIYVHS 203
E S C +K SK +L+ H RP EC+I + N + K K +V S
Sbjct: 168 ELSECLRKHQFESK---NLRDHDLARPIECEIKAVKYVKNLDLKTKIIAHVSS 217
>gnl|CDD|220438 pfam09845, DUF2072, Zn-ribbon containing protein (DUF2072). This
archaeal protein has no known function.
Length = 121
Score = 29.0 bits (65), Expect = 4.8
Identities = 12/38 (31%), Positives = 13/38 (34%), Gaps = 15/38 (39%)
Query: 826 PHMCDLCGARFKKSSALLQHRPIHTGERHI---CPVCG 860
PH C CG F+ G I CP CG
Sbjct: 1 PHRCTKCGKIFE------------DGSTEILKGCPSCG 26
>gnl|CDD|216695 pfam01780, Ribosomal_L37ae, Ribosomal L37ae protein family. This
ribosomal protein is found in archaebacteria and
eukaryotes. It contains four conserved cysteine residues
that may bind to zinc.
Length = 90
Score = 28.3 bits (64), Expect = 4.8
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 11/55 (20%)
Query: 78 SALRRHKKAVHLK-IKDHSCDVCGKVFSCPTNLTVHKRVHTGEKPFVCESCGKSF 131
++LR+ K + + ++C CGK V KR G + C CGK+F
Sbjct: 19 ASLRKRVKKIEISQHAKYTCPFCGKD-------AV-KRKAVG--IWKCRKCGKTF 63
>gnl|CDD|132050 TIGR03005, ectoine_ehuA, ectoine/hydroxyectoine ABC transporter,
ATP-binding protein. Members of this family are the
ATP-binding protein of a conserved four gene ABC
transporter operon found next to ectoine unilization
operons and ectoine biosynthesis operons. Ectoine is a
compatible solute that protects enzymes from high
osmolarity. It is released by some species in response
to hypoosmotic shock, and it is taken up by a number of
bacteria as a compatible solute or for consumption. This
family shows strong sequence similiarity to a number of
amino acid ABC transporter ATP-binding proteins.
Length = 252
Score = 29.8 bits (67), Expect = 6.6
Identities = 26/115 (22%), Positives = 44/115 (38%), Gaps = 25/115 (21%)
Query: 783 SLYMHLSTKHGKRSEPTVCEACGKHVINIRNHMRQVHLYPEVRPHMCDLCGARFKKSSAL 842
LY H+ ++G + A KH+ +RN + V + PH L
Sbjct: 63 QLY-HMPGRNGP-----LVPADEKHLRQMRNKIGMVFQSFNLFPHKTVLDN--------- 107
Query: 843 LQHRPIHTGERHICPVCGRGFTQRGAMKKHVSTLHHLVLPNKSDEPPTQLYGGEE 897
+ P+ G + A K+ + L + L +K+D P QL GG++
Sbjct: 108 VTEAPVLV----------LGMARAEAEKRAMELLDMVGLADKADHMPAQLSGGQQ 152
>gnl|CDD|197732 smart00451, ZnF_U1, U1-like zinc finger. Family of C2H2-type zinc
fingers, present in matrin, U1 small nuclear
ribonucleoprotein C and other RNA-binding proteins.
Length = 35
Score = 26.1 bits (58), Expect = 8.2
Identities = 10/29 (34%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 542 SQNLFCIKCNASFTSSPAMQSHLK-KVHN 569
+ +C CN +FT ++++HLK K H
Sbjct: 1 TGGFYCKLCNVTFTDEISVEAHLKGKKHK 29
>gnl|CDD|150045 pfam09237, GAGA, GAGA factor. Members of this family bind to a
5'-GAGAG-3' DNA consensus binding site, and contain a
Cys2-His2 zinc finger core as well as an N-terminal
extension containing two highly basic regions. The zinc
finger core binds in the DNA major groove and recognises
the first three GAG bases of the consensus in a manner
similar to that seen in other classical zinc finger-DNA
complexes. The second basic region forms a helix that
interacts in the major groove recognising the last G of
the consensus, while the first basic region wraps around
the DNA in the minor groove and recognises the A in the
fourth position of the consensus sequence.
Length = 54
Score = 26.8 bits (59), Expect = 8.5
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 269 CPMCQIVLKRKDTLRHHLKL 288
CP+CQ V+++ LR HL+L
Sbjct: 27 CPICQAVIRQSRNLRRHLEL 46
>gnl|CDD|165133 PHA02768, PHA02768, hypothetical protein; Provisional.
Length = 55
Score = 26.5 bits (58), Expect = 8.7
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 264 MVRYQCPMC-QIVLKRKDTLRHHLKLHTGEKFVTCEQ 299
++ Y+CP+C +I +KRK + H K +T K C++
Sbjct: 3 LLGYECPICGEIYIKRKSMITHLRKHNTNLKLSNCKR 39
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
0.321 0.133 0.423
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: 43,974,435
Number of extensions: 4063644
Number of successful extensions: 4277
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4225
Number of HSP's successfully gapped: 164
Length of query: 919
Length of database: 10,937,602
Length adjustment: 106
Effective length of query: 813
Effective length of database: 6,236,078
Effective search space: 5069931414
Effective search space used: 5069931414
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 64 (28.5 bits)