RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 017005
(379 letters)
>gnl|CDD|215584 PLN03113, PLN03113, DNA ligase 1; Provisional.
Length = 744
Score = 35.7 bits (82), Expect = 0.043
Identities = 21/128 (16%), Positives = 53/128 (41%), Gaps = 15/128 (11%)
Query: 39 SSLNSYFSDVKASLRKQTPPNQTTSSSSSSSRGPPSKVASLEEIRRNLAEFRQRSTVPPP 98
S+ ++ S+ +A+ +K+ P Q+ SSS + ++ A+L + + +
Sbjct: 6 SAFDALMSNARAAAKKKQPQTQSQSSSPKKRKIGETQDANLGKTNVSEGTLPK---TEDT 62
Query: 99 IESNSTESQSQSQTQSQSQSQHISFQELYKRNTVNETLASKPSGKPSFEAIRESLRQMRA 158
IE S ++ +S T S ++ T ++ KP + ++ + ++
Sbjct: 63 IEPKSDSAKPRSSTSSIAEDSKT------------GTKKAQTLSKPKKDEMKSKIGLLKK 110
Query: 159 RSNNDNNN 166
+ N+ +
Sbjct: 111 KPNDFDPE 118
>gnl|CDD|218482 pfam05178, Kri1, KRI1-like family. The yeast member of this family
(Kri1p) is found to be required for 40S ribosome
biogenesis in the nucleolus.
Length = 99
Score = 32.2 bits (74), Expect = 0.099
Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 11/54 (20%)
Query: 214 KEKKEEEKAV---ELERMKTDFVKMYSFEELGDKLKKLRPEGLEGGFSLRELNE 264
KE+KEEEKA EL+R+K +K EE+ +KL+K++ G +L+E
Sbjct: 1 KERKEEEKAQREEELKRLKN--LKR---EEIEEKLEKIKK---VAGLRGADLSE 46
>gnl|CDD|217469 pfam03276, Gag_spuma, Spumavirus gag protein.
Length = 582
Score = 34.1 bits (78), Expect = 0.12
Identities = 18/69 (26%), Positives = 27/69 (39%), Gaps = 1/69 (1%)
Query: 51 SLRKQTPPNQTTSSSSSSSRGPPSKVASLEEIRRNLAEFRQRSTVPPPIESNSTESQSQS 110
S+R +Q S RG + + RR RQ S PP + N + +Q
Sbjct: 434 SIRFLPQSDQQRPVSRGRGRGQRGPRSQPQNQRRQQNRGRQSSQ-PPRQQQNRSNQNNQR 492
Query: 111 QTQSQSQSQ 119
Q+Q +Q
Sbjct: 493 QSQGPNQGP 501
>gnl|CDD|227430 COG5099, COG5099, RNA-binding protein of the Puf family,
translational repressor [Translation, ribosomal
structure and biogenesis].
Length = 777
Score = 33.6 bits (77), Expect = 0.21
Identities = 27/166 (16%), Positives = 44/166 (26%), Gaps = 5/166 (3%)
Query: 12 SLTNPSLIHLFSTSQNDNNDNNNNYSNSSLNSYFSDVKASLRKQTPPNQTTSSSSSSSRG 71
S+ + I+ S N N + S + S A T S S+ S
Sbjct: 260 SINELTSIYGSVPS--IRNLRGLNSALVSFLNVSSSSLAFSALNGKEVSPTGSPSTRSFA 317
Query: 72 PPSKVASLEEIRRNLAEFRQRSTVPPPIESNSTESQSQSQTQSQSQSQHISFQELYKRNT 131
+S + E PP + S + S + + K
Sbjct: 318 RVLPKSSPNNLL---TEILTTGVNPPQSLPSLLNPVFLSTSTGFSLTNLSGYLNPNKNLK 374
Query: 132 VNETLASKPSGKPSFEAIRESLRQMRARSNNDNNNNNRGNGVKNSD 177
N + G S S R N + N + + N +
Sbjct: 375 KNTLSSLSNLGYSSNVPSPSSSESTRNILGNISPNFKTSSNLTNLN 420
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 32.1 bits (74), Expect = 0.51
Identities = 41/140 (29%), Positives = 57/140 (40%), Gaps = 34/140 (24%)
Query: 243 DKLKKLRPEGLEGGFSLRELNERLMRLRVMEMNESNSKIGAGTISALRSSLARIQIEKEE 302
++LKKLR EG L + ER E G I AL +A KE
Sbjct: 55 EELKKLRELAEEGLIELEFVGER-------PTLEQIKLAKGGEIDALIREVA-----KEL 102
Query: 303 KA------RVQRINILEGFGGTPEYLLHPPKEHL-VEKYFHPDNMS---------SAEKM 346
A RVQ + G YL P +E L +EK+F + MS A+K
Sbjct: 103 GATLVTSDRVQA-EVARAKGIDVIYL-KPEREPLEIEKFFDEETMSVHLKEGVPPMAKKG 160
Query: 347 KI---ELAKVREEFKMSESD 363
K +L K+R+E ++E +
Sbjct: 161 KPGEWKLVKIRDE-PLTEEE 179
>gnl|CDD|168775 PRK07034, PRK07034, hypothetical protein; Provisional.
Length = 536
Score = 31.3 bits (70), Expect = 0.91
Identities = 33/130 (25%), Positives = 51/130 (39%), Gaps = 7/130 (5%)
Query: 84 RNLAEFRQRSTVPPPIESNSTESQSQSQTQSQSQSQHISFQELYKRNTVNETLASKPSGK 143
RN A+ ++S P ++ ST + S +S S S E YK ++ + +
Sbjct: 16 RNGAKHAEQSLTTPMWQAKSTVA-SLGGIVPRSGSSSTSQAENYKEGLADQAASGNNMAR 74
Query: 144 PSFEAIRESLRQMRARSNNDNNNNNRGNGVKNSDPLSLKNFTNTLRMKPADDNAHRVIGG 203
S + +Q A + N NNN NG N+ S N RM H + G
Sbjct: 75 TSAPPVTLYQQQPNANDSYPNGNNNNPNGDNNNPNGSNNNIARVQRM------PHGISRG 128
Query: 204 SQELPALVFG 213
E P ++ G
Sbjct: 129 LYERPGMLLG 138
>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function
unknown].
Length = 652
Score = 31.2 bits (71), Expect = 0.92
Identities = 23/109 (21%), Positives = 40/109 (36%), Gaps = 29/109 (26%)
Query: 214 KEKKEEEKAVELERMKTDFVKMYS-FEELGDKLKKLRPEGLEGGFSLRELNERLMRLRVM 272
+E++ EK E + + ++L + +++L E EL L L+
Sbjct: 399 EEERPREKEGTEEEERREITVYEKRIKKLEETVERLEEE-------NSELKRELEELK-- 449
Query: 273 EMNESNSKIGAGTISALRSSLARI--------QIEKEEKARVQRINILE 313
I L S L R + ++E +AR +RI LE
Sbjct: 450 -----------REIEKLESELERFRREVRDKVRKDREIRARDRRIERLE 487
>gnl|CDD|188368 TIGR03679, arCOG00187, arCOG00187 universal archaeal
metal-binding-domain/4Fe-4S-binding-domain containing
ABC transporter, ATP-binding protein. This protein
consists of an N-terminal possible metal-binding domain
(pfam04068) followed by a 4Fe-4S cluster binding domain
(pfam00037) followed by a C-terminal ABC transporter,
ATP-binding domain (pfam00005). This combination of
N-terminal domains is observed in the RNase L inhibitor,
RLI. This model has the same scope as an archaeal COG
(arCOG00187) and is found in all completely sequenced
archaea and does not recognize any known non-archaeal
genes.
Length = 218
Score = 30.3 bits (69), Expect = 1.2
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 223 VELERMKTDFVKMYSFEELGDKLKKLRPEGLEG 255
+ L ++T K E+L LK+L+ EG+EG
Sbjct: 57 IPLVEIETSGEKEKEVEDLKGALKELKEEGVEG 89
>gnl|CDD|215145 PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygenase NCED.
Length = 590
Score = 30.8 bits (70), Expect = 1.3
Identities = 16/78 (20%), Positives = 27/78 (34%), Gaps = 5/78 (6%)
Query: 51 SLRKQTPPNQTTSSSSSSSRGPPSKVASLEEIRRNLAEFRQRSTVPPPI-----ESNSTE 105
S T +Q+ +SSSSSS S +S R P I S+ +
Sbjct: 2 SSSNPTSRSQSHASSSSSSSSQSSPPSSTSPRPRRRKPSASSLLHTPSILPLPKLSSPSP 61
Query: 106 SQSQSQTQSQSQSQHISF 123
+ +Q+ ++
Sbjct: 62 PSVTLPPAATTQTPQLNP 79
>gnl|CDD|165099 PHA02732, PHA02732, hypothetical protein; Provisional.
Length = 1467
Score = 30.9 bits (69), Expect = 1.6
Identities = 11/56 (19%), Positives = 22/56 (39%)
Query: 14 TNPSLIHLFSTSQNDNNDNNNNYSNSSLNSYFSDVKASLRKQTPPNQTTSSSSSSS 69
+P ++ + N + + L + + TPP ++SSSS+ S
Sbjct: 1199 QDPIFTYIPPGIIGMSGTNTFTFKAAQLQLSAASSPPAATTPTPPPSSSSSSSAQS 1254
>gnl|CDD|204878 pfam12315, DUF3633, Protein of unknown function (DUF3633). This
domain family is found in bacteria and eukaryotes, and
is approximately 210 amino acids in length. The family
is found in association with pfam00412.
Length = 212
Score = 30.0 bits (68), Expect = 1.8
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 4/42 (9%)
Query: 52 LRKQTPPNQTTSSSSSSSRGPP----SKVASLEEIRRNLAEF 89
L +T + + SSSSSSS P SK + + L EF
Sbjct: 131 LESETYASSSASSSSSSSSSSPAASSSKKGEKSDFEKKLGEF 172
>gnl|CDD|115650 pfam07010, Endomucin, Endomucin. This family consists of several
mammalian endomucin proteins. Endomucin is an early
endothelial-specific antigen that is also expressed on
putative hematopoietic progenitor cells.
Length = 259
Score = 30.1 bits (67), Expect = 1.8
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 10/100 (10%)
Query: 50 ASLRKQTPPNQTTSSSSSSSRGPPSKVASLEEIRRNLAEFRQRSTVPPPIESNSTESQSQ 109
+S K T N T S++ S+ + +K + IR E S + P T + S
Sbjct: 100 SSTSKVTVTNVTLSNAVSTLQSSQNKTENQSSIRT--TEISPTSVLQPDASPKKTGTTSA 157
Query: 110 SQTQSQSQSQHISFQELYKRNTVNETLASKPSGKPSFEAI 149
S T +++ SQ ++T + +AS S PS+ +I
Sbjct: 158 SLTTAETTSQ--------SQDTEDGKIASTSSTTPSYSSI 189
>gnl|CDD|107197 PHA02515, PHA02515, hypothetical protein; Provisional.
Length = 508
Score = 30.1 bits (67), Expect = 2.1
Identities = 20/96 (20%), Positives = 42/96 (43%), Gaps = 2/96 (2%)
Query: 22 FSTSQNDNNDNNNNYSNSSLNSYFSDVKASLRKQTPPNQTTSSSSSSSRGPPSKVASLEE 81
++ + NDN D+N + ++L +Y + K +L + P Q + ++ P +L+
Sbjct: 54 YTVALNDNQDSNPGGTLTTLATYATGYKITLTSEVPNTQPETLTNQGGFYPKVIEHALDR 113
Query: 82 IRRNLAEFRQR--STVPPPIESNSTESQSQSQTQSQ 115
+ + + + TV PI + S+ Q Q
Sbjct: 114 LVIQIQQLADKLSRTVQAPISGGLSSSEILEQLAEQ 149
>gnl|CDD|237687 PRK14357, glmU, bifunctional N-acetylglucosamine-1-phosphate
uridyltransferase/glucosamine-1-phosphate
acetyltransferase; Provisional.
Length = 448
Score = 29.7 bits (67), Expect = 3.0
Identities = 27/112 (24%), Positives = 49/112 (43%), Gaps = 13/112 (11%)
Query: 199 RVIGGSQELPALVFGKEKKEEEKAVELERMKTDFVKMYSFEELGDKLKKLRPEGLEGGFS 258
R+I + +V K+ EEEK ++ + T ++S + L + L K++ E +G +
Sbjct: 136 RIIRDGGKY-RIVEDKDAPEEEKKIK--EINTGIY-VFSGDFLLEVLPKIKNENAKGEYY 191
Query: 259 LRELNERLMRLRVMEMNESNSKIGAGTISALRSSLARIQIEKEEKARVQRIN 310
L + ++RV++ + G T RIQ+ EK RI
Sbjct: 192 LTDAVNFAEKVRVVKTEDLLEITGVNT---------RIQLAWLEKQLRMRIL 234
>gnl|CDD|183558 PRK12495, PRK12495, hypothetical protein; Provisional.
Length = 226
Score = 29.1 bits (65), Expect = 3.1
Identities = 22/134 (16%), Positives = 43/134 (32%), Gaps = 16/134 (11%)
Query: 27 NDNNDNNNNYSNSSLNSYFSDVKASLRKQTPPNQTTSSSSSSSRGPPSKVASLEEIRRNL 86
+D D + S S S P + ++ S+ S A+
Sbjct: 76 DDAGDGAEATAPSDAGSQASPDD----DAQPAAEAEAADQSAPPEASSTSAT-------- 123
Query: 87 AEFRQRSTVPPPIESNSTESQSQSQTQSQSQSQHISFQELYKRNTVNETLASKPSG-KPS 145
+ +T PP + Q + + S ++ + T ++ + +
Sbjct: 124 ---DEAATDPPATAAARDGPTPDPTAQPATPDERRSPRQRPPVSGEPPTPSTPDAHVAGT 180
Query: 146 FEAIRESLRQMRAR 159
+A RESL + AR
Sbjct: 181 LQAARESLVETLAR 194
>gnl|CDD|237555 PRK13914, PRK13914, invasion associated secreted endopeptidase;
Provisional.
Length = 481
Score = 29.4 bits (65), Expect = 3.7
Identities = 15/66 (22%), Positives = 30/66 (45%)
Query: 23 STSQNDNNDNNNNYSNSSLNSYFSDVKASLRKQTPPNQTTSSSSSSSRGPPSKVASLEEI 82
+ N N + N N +N+S S ++ + T N + SS++ S A + E
Sbjct: 314 ANKTNTNTNTNTNNTNTSTPSKNTNTNTNSNTNTNSNTNANQGSSNNNSNSSASAIIAEA 373
Query: 83 RRNLAE 88
+++L +
Sbjct: 374 QKHLGK 379
>gnl|CDD|240420 PTZ00441, PTZ00441, sporozoite surface protein 2 (SSP2);
Provisional.
Length = 576
Score = 29.2 bits (65), Expect = 4.0
Identities = 33/191 (17%), Positives = 66/191 (34%), Gaps = 15/191 (7%)
Query: 15 NPSLIHLFSTSQNDNNDNNNNYSNSSLNSYFSDVKASLRKQTPPNQTTSSSSSSSRGPPS 74
NP+ +LF ++ D +N N S+ + S + PPN P
Sbjct: 340 NPNEENLFPPGDDEVPDESNVPPNPPNVPGGSNSEFSSDVENPPNPPNPDIPEQEPNIPE 399
Query: 75 KVASLEEIRRNLAEFRQRSTVPPPIESNSTESQSQSQTQSQSQSQHISFQEL-YKRNTVN 133
+ + + N+ + + + Q++ + + L +R+ N
Sbjct: 400 -----DSNKEVPEDVPMEPEDD---RDNNFNEPKKPENKGDGQNEPVIPKPLDNERDQSN 451
Query: 134 ETLASKPSGKPSFEAIRESLRQMRA-RSNNDNNNNNRGNGVKNSDPLSLKNFTNTLRMKP 192
+ P + + E R R NN+N N N N P ++ + K
Sbjct: 452 KNKQVNPGNRHNSED-----RYTRPHGRNNENRNYNNKNSDIPKHPERSEHEQPEDKKKK 506
Query: 193 ADDNAHRVIGG 203
+ +N +++ GG
Sbjct: 507 SSNNGYKIAGG 517
>gnl|CDD|176254 cd08294, leukotriene_B4_DH_like, 13-PGR is a bifunctional enzyme
with delta-13 15-prostaglandin reductase and leukotriene
B4 12 hydroxydehydrogenase activity. Prostaglandins and
related eicosanoids are metabolized by the oxidation of
the 15(S)-hydroxyl group of the NAD+-dependent (type I
15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH)
followed by reduction by NADPH/NADH-dependent (type II
15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to
15-keto- 13,14,-dihydroprostaglandins. 13-PGR is a
bifunctional enzyme, since it also has leukotriene B(4)
12-hydroxydehydrogenase activity. These 15-PGDH and
related enzymes are members of the medium chain
dehydrogenase/reductase family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 329
Score = 28.8 bits (65), Expect = 5.1
Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 7/58 (12%)
Query: 219 EEKAVELERMKTDFVKMYSFEELGDKLKKLRPEGLE------GGFSLRELNERLMRLR 270
++K L+ + D V Y L + LK+ P+G++ GG + M
Sbjct: 178 DDKVAWLKELGFDAVFNYKTVSLEEALKEAAPDGIDCYFDNVGGEFSSTVLSH-MNDF 234
>gnl|CDD|114474 pfam05750, Rubella_Capsid, Rubella capsid protein. Rubella virus
is an enveloped positive-strand RNA virus of the family
Togaviridae. Virions are composed of three structural
proteins: a capsid and two membrane-spanning
glycoproteins, E2 and E1. During virus assembly, the
capsid interacts with genomic RNA to form nucleocapsids.
It has been discovered that capsid phosphorylation
serves to negatively regulate binding of viral genomic
RNA. This may delay the initiation of nucleocapsid
assembly until sufficient amounts of virus glycoproteins
accumulate at the budding site and/or prevent
non-specific binding to cellular RNA when levels of
genomic RNA are low. It follows that at a late stage in
replication, the capsid may undergo dephosphorylation
before nucleocapsid assembly occurs.
Length = 300
Score = 28.7 bits (63), Expect = 5.1
Identities = 20/66 (30%), Positives = 28/66 (42%), Gaps = 1/66 (1%)
Query: 53 RKQTPPNQTTSSSSSSSRGPPSKVASLEEIRRNLAEFRQRSTVPPPIESNSTESQSQSQT 112
R+ PP Q SS+S G S R + + S PPP E ES+SQ+
Sbjct: 35 RRPRPPRQRDSSTSGDDSGRDSGGPRRRRGNRGRGQRKDWSRAPPPPEERQ-ESRSQTPA 93
Query: 113 QSQSQS 118
S++
Sbjct: 94 PKPSRA 99
>gnl|CDD|238213 cd00353, Ribosomal_S15p_S13e, Ribosomal protein S15
(prokaryotic)_S13 (eukaryotic) binds the central domain
of 16S rRNA and is required for assembly of the small
ribosomal subunit and for intersubunit association, thus
representing a key element in the assembly of the whole
ribosome. S15 also plays an important autoregulatory
role by binding and preventing its own mRNA from being
translated. S15 has a predominantly alpha-helical fold
that is highly structured except for the N-terminal
alpha helix.
Length = 80
Score = 26.7 bits (60), Expect = 5.6
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 352 KVREEFKMSESDCGSARVQ 370
++ +EF ++E D GS VQ
Sbjct: 4 EILKEFGLAEGDTGSPEVQ 22
>gnl|CDD|237277 PRK13026, PRK13026, acyl-CoA dehydrogenase; Reviewed.
Length = 774
Score = 28.8 bits (65), Expect = 6.3
Identities = 23/87 (26%), Positives = 36/87 (41%), Gaps = 13/87 (14%)
Query: 184 FTNTLRMKPADDNAHRVIGGSQE-------LPALVFGKEKKEEEKAVELERMKTDFVKMY 236
N R P+D A ++ L AL + + ++ V R++ F+ Y
Sbjct: 641 LGNHFR-APSDKLARQLAELMMTPGPARDRLTALCY--IFEGDKDGVA--RVEQAFLAQY 695
Query: 237 SFEELGDKLKKLRPEG-LEGGFSLREL 262
+ + L KLKK + EG L L EL
Sbjct: 696 AVKPLYKKLKKAQREGKLPRKVPLLEL 722
>gnl|CDD|222986 PHA03102, PHA03102, Small T antigen; Reviewed.
Length = 153
Score = 27.7 bits (62), Expect = 7.4
Identities = 15/48 (31%), Positives = 17/48 (35%), Gaps = 3/48 (6%)
Query: 333 KYFHPDNMSSAEKMK--IEL-AKVREEFKMSESDCGSARVQSKGFFIW 377
FHPD EKMK L K RE K G S+ +
Sbjct: 33 LEFHPDKGGDEEKMKELNTLYKKFRESVKSLRDLDGEEDSSSEEEDVP 80
>gnl|CDD|223522 COG0445, GidA, Flavin-dependent tRNA uridine
5-carboxymethylaminomethyl modification enzyme GidA
[Cell cycle control, cell division, chromosome
partitioning].
Length = 621
Score = 28.3 bits (64), Expect = 7.8
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 215 EKKEEEKAVELERMKTDFVKMYSFEELGDKLKKLRPEGLEGGFSLRELNER 265
KK+E E+ER+K+ +V E+ +L L + L+ SL +L R
Sbjct: 464 LKKKENIEEEIERLKSTWVTP---SEVAKELLALGGQPLKRRSSLYDLLRR 511
>gnl|CDD|235046 PRK02507, PRK02507, proton extrusion protein PcxA; Provisional.
Length = 422
Score = 28.0 bits (63), Expect = 8.8
Identities = 21/112 (18%), Positives = 40/112 (35%), Gaps = 4/112 (3%)
Query: 79 LEEIRRNLAEFRQRSTVPPPIESNSTESQSQSQTQSQSQSQHI-SFQELYKRNTVNETLA 137
L+ IR LAEF+ E + ++T + Q I S Y+ + E+
Sbjct: 68 LKIIRMRLAEFKASRLFLNLSELAKAGEEQITETIILEKLQFIDSVISRYRSKSDQESPP 127
Query: 138 SKPSGKPSFEAIRESLRQMRARSNNDNNNNNRGNGVKNSDPLSLKNFTNTLR 189
S + S ++ + + ++ GV P S+ + +R
Sbjct: 128 LAASSQIETSTSSPSTSNPVNDPSSKSESISQKTGVL---PRSILRTFDRIR 176
>gnl|CDD|227510 COG5183, SSM4, Protein involved in mRNA turnover and stability [RNA
processing and modification].
Length = 1175
Score = 28.0 bits (62), Expect = 9.5
Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 143 KPSFEAIRESLRQMRARSNNDNNNNNRGNGVKNSDPLSLKNFTNTLRMKPADDNAH 198
+ E RE+ R + + +N+N N + V + D +N N ++P N H
Sbjct: 244 RQQGEHARENGRDLSS-DSNNNVINPVSDNVPSRDMNDSRNVEN---VRPVRSNDH 295
>gnl|CDD|220267 pfam09494, Slx4, Slx4 endonuclease. The Slx4 protein is a
heteromeric structure-specific endonuclease found in
fungi. Slx4 with Slx1 acts as a nuclease on branched DNA
substrates, particularly simple-Y, 5'-flap, or
replication fork structures by cleaving the strand
bearing the 5' non-homologous arm at the branch junction
and thus generating ligatable nicked products from
5'-flap or replication fork substrates.
Length = 627
Score = 28.0 bits (62), Expect = 9.6
Identities = 23/134 (17%), Positives = 50/134 (37%), Gaps = 9/134 (6%)
Query: 11 RSLTNPSLIHLFSTSQNDNNDNNNNYSNSSLNSYFSDVKASLRKQTPPNQTTSSSSSS-- 68
+ L +I F++ ++D+ N+ N S + K LRK+T S ++
Sbjct: 41 QRLQLRQVISRFTSFESDDQANSGNVSGKRVPKKKKIKKPKLRKRTKRKNKKIKSLTAFN 100
Query: 69 -----SRGPPSKVASLEEIRRNLAEF--RQRSTVPPPIESNSTESQSQSQTQSQSQSQHI 121
+ PS ++ L + + + R S+ +S + S S+ + I
Sbjct: 101 EENFETDRAPSLLSYLSGKQSKVNDILKRLESSKKIKNSRSSESTFETSALYSEDEWIDI 160
Query: 122 SFQELYKRNTVNET 135
+ ++E+
Sbjct: 161 VKLIRLRFPKLSES 174
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
0.309 0.125 0.342
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: 18,493,740
Number of extensions: 1753732
Number of successful extensions: 2104
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2058
Number of HSP's successfully gapped: 99
Length of query: 379
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 280
Effective length of database: 6,546,556
Effective search space: 1833035680
Effective search space used: 1833035680
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 60 (26.9 bits)