RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 013758
(437 letters)
>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 = 101 bits (253), Expect = 3e-26
Identities = 36/77 (46%), Positives = 55/77 (71%), Gaps = 2/77 (2%)
Query: 352 KVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKY 409
++ +EF ++E D GS VQ+A LT +I +L+ L +KKDKHS++GL +V +R+RLLKY
Sbjct: 4 EILKEFGLAEGDTGSPEVQLALLTERIVNLTEHLEKNKKDKHSKRGLLLLVSKRRRLLKY 63
Query: 410 LRRTDWDSYCFVLSKLG 426
L+R D Y +++ KLG
Sbjct: 64 LKRKDRLRYEWLIEKLG 80
>gnl|CDD|180170 PRK05626, rpsO, 30S ribosomal protein S15; Reviewed.
Length = 89
Score = 97.5 bits (244), Expect = 6e-25
Identities = 38/86 (44%), Positives = 56/86 (65%), Gaps = 2/86 (2%)
Query: 346 MKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRR 403
K + A++ +E+ E D GS VQ+A LT +I HL+ L HKKD HSR+GL MV +R
Sbjct: 4 TKEKKAEIIKEYGRHEGDTGSPEVQVALLTERINHLTEHLKEHKKDHHSRRGLLKMVGQR 63
Query: 404 KRLLKYLRRTDWDSYCFVLSKLGLRD 429
++LL YL++ D + Y ++ +LGLR
Sbjct: 64 RKLLDYLKKKDVERYRALIERLGLRR 89
>gnl|CDD|223262 COG0184, RpsO, Ribosomal protein S15P/S13E [Translation, ribosomal
structure and biogenesis].
Length = 89
Score = 90.7 bits (226), Expect = 2e-22
Identities = 44/92 (47%), Positives = 61/92 (66%), Gaps = 5/92 (5%)
Query: 340 MSSAEKMKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQ 397
MS ++K EL R+E+ + E D GS VQ+A LT +I +L+ L HKKD HSR+GL
Sbjct: 1 MSLTSEIKQEL---RDEYGIPEVDTGSGEVQLALLTERINNLTEHLKEHKKDHHSRRGLL 57
Query: 398 AMVQRRKRLLKYLRRTDWDSYCFVLSKLGLRD 429
+V +R+RLLKYL+R D Y +++ KLGLR
Sbjct: 58 LLVSKRRRLLKYLKRKDVLRYRWLIKKLGLRR 89
>gnl|CDD|130027 TIGR00952, S15_bact, ribosomal protein S15, bacterial/organelle.
This model is built to recognize specifically bacterial,
chloroplast, and mitochondrial ribosomal protein S15.
The homologous proteins of Archaea and Eukarya are
designated S13 [Protein synthesis, Ribosomal proteins:
synthesis and modification].
Length = 86
Score = 88.5 bits (220), Expect = 1e-21
Identities = 41/86 (47%), Positives = 57/86 (66%), Gaps = 2/86 (2%)
Query: 346 MKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRR 403
K ++ +EF++ E D GS VQIA LT +I L+ L +KKD HSR+GL +V RR
Sbjct: 1 TKERKQEIIKEFQLHEKDTGSPEVQIALLTERINQLTEHLKANKKDHHSRRGLLKLVGRR 60
Query: 404 KRLLKYLRRTDWDSYCFVLSKLGLRD 429
+RLLKYL+RTD + Y ++ +LGLR
Sbjct: 61 RRLLKYLKRTDVERYRSLIKRLGLRR 86
>gnl|CDD|109373 pfam00312, Ribosomal_S15, Ribosomal protein S15.
Length = 83
Score = 70.8 bits (174), Expect = 2e-15
Identities = 36/80 (45%), Positives = 48/80 (60%), Gaps = 2/80 (2%)
Query: 351 AKVREEFKMSESDCGSARVQIAQLTTKIKHLSS--ALHKKDKHSRKGLQAMVQRRKRLLK 408
+ EF +E D GS VQIA LT +I L HKKD HS++GL MV +R+RLL
Sbjct: 4 GLIISEFLKAEKDTGSVEVQIALLTERIVRLRKHLEEHKKDYHSKRGLIKMVSKRRRLLA 63
Query: 409 YLRRTDWDSYCFVLSKLGLR 428
YL++ D Y ++ +LGLR
Sbjct: 64 YLKKKDTARYENLIEQLGLR 83
>gnl|CDD|238361 cd00677, S15_NS1_EPRS_RNA-bind, S15/NS1/EPRS_RNA-binding domain.
This short domain consists of a helix-turn-helix
structure, which can bind to several types of RNA. It is
found in the ribosomal protein S15, the influenza A
viral nonstructural protein (NSA) and in several
eukaryotic aminoacyl tRNA synthetases (aaRSs), where it
occurs as a single or a repeated unit. It is involved in
both protein-RNA interactions by binding tRNA and
protein-protein interactions in the formation of
tRNA-synthetases into multienzyme complexes. While this
domain lacks significant sequence similarity between the
subgroups in which it is found, they share similar
electrostatic surface potentials and thus are likely to
bind to RNA via the same mechanism.
Length = 46
Score = 59.4 bits (145), Expect = 9e-12
Identities = 25/46 (54%), Positives = 34/46 (73%), Gaps = 2/46 (4%)
Query: 368 RVQIAQLTTKIKHLSS--ALHKKDKHSRKGLQAMVQRRKRLLKYLR 411
VQIA LT +I++L A +KKDKHS++GL +V +R RLLKYL+
Sbjct: 1 EVQIALLTERIRNLKEHLAKNKKDKHSKRGLDLLVSKRLRLLKYLK 46
>gnl|CDD|214339 CHL00027, rps15, ribosomal protein S15.
Length = 90
Score = 57.7 bits (140), Expect = 1e-10
Identities = 28/71 (39%), Positives = 46/71 (64%), Gaps = 2/71 (2%)
Query: 361 ESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRTDWDSY 418
E + GS Q+ T KI+ L+S L HKKD S++GL+ ++ +R+RLL YL + + Y
Sbjct: 16 EENRGSVEFQVFSFTNKIRRLTSHLELHKKDYSSQRGLRKILGKRQRLLAYLSKKNRVRY 75
Query: 419 CFVLSKLGLRD 429
++S+LG+R+
Sbjct: 76 KKLISQLGIRE 86
>gnl|CDD|240278 PTZ00119, PTZ00119, 40S ribosomal protein S15; Provisional.
Length = 302
Score = 41.9 bits (98), Expect = 4e-04
Identities = 33/114 (28%), Positives = 56/114 (49%), Gaps = 2/114 (1%)
Query: 307 QRINILEGFGGTPEYLLHPPKEHLVEKYFHPDNMSSAEKMKIELAKVREEFKMSESDCGS 366
+R I G+ G +Y + H + +S + K + +R + D GS
Sbjct: 67 ERNQIPNGYIGLWQYDDIKHLRKNIINMLHLNCANSKQIHKYKKLCIRRCLQRRPFDTGS 126
Query: 367 ARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRTDWDSY 418
A VQI LT KI +L + L KD ++ + ++ RR++L+KYL +TD++ Y
Sbjct: 127 APVQIGCLTEKILNLRAHLILRCKDHPKKRTMSILLARRQKLMKYLYKTDFELY 180
>gnl|CDD|236287 PRK08561, rps15p, 30S ribosomal protein S15P; Reviewed.
Length = 151
Score = 37.5 bits (88), Expect = 0.003
Identities = 15/36 (41%), Positives = 24/36 (66%), Gaps = 2/36 (5%)
Query: 379 KHLSSALHKKDKHSRKGLQAMVQRRKRLLKYLRRTD 414
KHL + KD H+++GLQ + + +RL+KY +RT
Sbjct: 100 KHL--EENPKDLHNKRGLQLIESKIRRLVKYYKRTG 133
>gnl|CDD|215584 PLN03113, PLN03113, DNA ligase 1; Provisional.
Length = 744
Score = 35.7 bits (82), Expect = 0.052
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|217469 pfam03276, Gag_spuma, Spumavirus gag protein.
Length = 582
Score = 34.5 bits (79), Expect = 0.100
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 = 34.3 bits (79), Expect = 0.14
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|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 = 31.5 bits (72), Expect = 0.17
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|225288 COG2433, COG2433, Uncharacterized conserved protein [Function
unknown].
Length = 652
Score = 32.0 bits (73), Expect = 0.70
Identities = 37/171 (21%), Positives = 65/171 (38%), Gaps = 49/171 (28%)
Query: 214 KEKKEEEKAVELERMKTDFVKMYS-FEELGDKLKKLRPEGLEGGFSLRELNERLMRLRVM 272
+E++ EK E + + ++L + +++L E EL L L+
Sbjct: 399 EEERPREKEGTEEEERREITVYEKRIKKLEETVERLEEE-------NSELKRELEELK-- 449
Query: 273 EMNESNSKIGAGTISALRSSLARI--------QIEKEEKARVQRINILEGFGGTPEYLLH 324
I L S L R + ++E +AR +RI LE
Sbjct: 450 -----------REIEKLESELERFRREVRDKVRKDREIRARDRRIERLE----------- 487
Query: 325 PPKEHLVEKYFHPDNMSSAEKMKIELAKVREEFKMSESDCGSARVQIAQLT 375
KE L EK E+++ +LA++R+ K+ S G+ + +LT
Sbjct: 488 --KE-LEEKK------KRVEELERKLAELRKMRKLELSGKGTPVKVVEKLT 529
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 32.1 bits (74), Expect = 0.71
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 = 31.7 bits (71), 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|165099 PHA02732, PHA02732, hypothetical protein; Provisional.
Length = 1467
Score = 31.3 bits (70), Expect = 1.2
Identities = 11/56 (19%), Positives = 22/56 (39%)
Query: 14 TNPSLIHLFSTSQNDNNDNNNNYSNSSLNSYFSDVKASLRKQTPPNQTTSSSSSSS 69
+P ++ + N + + L + + TPP ++SSSS+ S
Sbjct: 1199 QDPIFTYIPPGIIGMSGTNTFTFKAAQLQLSAASSPPAATTPTPPPSSSSSSSAQS 1254
>gnl|CDD|215145 PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygenase NCED.
Length = 590
Score = 31.2 bits (71), 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|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 = 30.5 bits (68), Expect = 1.4
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|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 = 1.5
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|107197 PHA02515, PHA02515, hypothetical protein; Provisional.
Length = 508
Score = 30.5 bits (68), Expect = 1.7
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|240420 PTZ00441, PTZ00441, sporozoite surface protein 2 (SSP2);
Provisional.
Length = 576
Score = 30.3 bits (68), Expect = 2.0
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|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 30.4 bits (69), Expect = 2.2
Identities = 39/167 (23%), Positives = 59/167 (35%), Gaps = 38/167 (22%)
Query: 230 TDFVKMYSFE------------ELGDKLKKLRPEGLEGGFSLRELNERLMRLRVMEMNES 277
TDF+ M E E K +K E L E+ E + RL ++
Sbjct: 145 TDFISMSPVERRKIIDEIAGVAEFDRKKEKALEE-------LEEVEENIERLDLI----- 192
Query: 278 NSKIGAGTISALRSSLARIQIEKEEKARVQRI-NILEGFGGTPEYLLHPPKEHLVEKYFH 336
I R L R++ E+E+ R Q + + G LL + +K
Sbjct: 193 --------IDEKRQQLERLRREREKAERYQALLKEKREYEGY--ELLKEKEALERQKEAI 242
Query: 337 PDNMSSAEKMKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSS 383
++S E+ EL K+ EE E + +L KIK L
Sbjct: 243 ERQLASLEE---ELEKLTEEISELEKRLEEIEQLLEELNKKIKDLGE 286
>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 = 29.6 bits (67), Expect = 2.3
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|183558 PRK12495, PRK12495, hypothetical protein; Provisional.
Length = 226
Score = 29.5 bits (66), Expect = 2.9
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|237687 PRK14357, glmU, bifunctional N-acetylglucosamine-1-phosphate
uridyltransferase/glucosamine-1-phosphate
acetyltransferase; Provisional.
Length = 448
Score = 29.7 bits (67), Expect = 3.3
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|237555 PRK13914, PRK13914, invasion associated secreted endopeptidase;
Provisional.
Length = 481
Score = 29.8 bits (66), Expect = 3.4
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|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 = 29.1 bits (64), Expect = 4.7
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|180519 PRK06298, PRK06298, type III secretion system protein; Validated.
Length = 356
Score = 29.0 bits (65), Expect = 5.4
Identities = 16/49 (32%), Positives = 30/49 (61%), Gaps = 8/49 (16%)
Query: 343 AEKMKIELAKVREEFKMSESD--CGSARVQIAQ------LTTKIKHLSS 383
A+++K+E +V++EFK +E + R QIAQ ++++KH S+
Sbjct: 211 AKELKMEKFEVKQEFKDTEGNPEIKGRRRQIAQEIAYEDTSSQVKHASA 259
>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 = 5.7
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|234977 PRK01741, PRK01741, cell division protein ZipA; Provisional.
Length = 332
Score = 28.6 bits (64), Expect = 6.7
Identities = 27/116 (23%), Positives = 39/116 (33%), Gaps = 15/116 (12%)
Query: 55 QTPPNQTTSSSSSSSRGPP-----SKVASLEEIRRNL--AEFRQRSTVPPPIESNSTESQ 107
TPP + S S++EI+ L E T+ Q
Sbjct: 69 TTPPPFQQPQTEESESENEVQIQQEVEQSVDEIKITLPNQEPAYYMQNHRSEPIQPTQPQ 128
Query: 108 SQSQTQSQSQSQHISFQELYKRNTVNETLASKPSGKPSFEAIRESLRQMRARSNND 163
QS TQ+ S I +E N E + S S E +R L ++ A +D
Sbjct: 129 YQSPTQTNVASMTI--EETQSPNVPIEGINS------SSEQLRVELAELAAEIYSD 176
>gnl|CDD|237277 PRK13026, PRK13026, acyl-CoA dehydrogenase; Reviewed.
Length = 774
Score = 28.4 bits (64), Expect = 8.6
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|235046 PRK02507, PRK02507, proton extrusion protein PcxA; Provisional.
Length = 422
Score = 28.4 bits (64), Expect = 9.4
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|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 = 28.4 bits (63), Expect = 9.8
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
0.310 0.126 0.343
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: 21,403,877
Number of extensions: 2037145
Number of successful extensions: 2414
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2354
Number of HSP's successfully gapped: 116
Length of query: 437
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 337
Effective length of database: 6,502,202
Effective search space: 2191242074
Effective search space used: 2191242074
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: 60 (26.9 bits)