RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8135
(295 letters)
>gnl|CDD|217253 pfam02854, MIF4G, MIF4G domain. MIF4G is named after Middle domain
of eukaryotic initiation factor 4G (eIF4G). Also occurs
in NMD2p and CBP80. The domain is rich in alpha-helices
and may contain multiple alpha-helical repeats. In
eIF4G, this domain binds eIF4A, eIF3, RNA and DNA.
Length = 198
Score = 138 bits (349), Expect = 4e-40
Identities = 74/224 (33%), Positives = 127/224 (56%), Gaps = 27/224 (12%)
Query: 25 FRKVRELLNKLTPEKFDKLSDDLLQLDLNSSKILKGVILLIFEKALHETKYTSMYARLCK 84
+KV+ LLNKL+P F+K+ D+LL+L+++ +LK ++ LIFEKA+ E + YARLC
Sbjct: 1 LKKVKGLLNKLSPSNFEKIIDELLKLNMSDKNLLKYILELIFEKAVEEPNFIPAYARLCA 60
Query: 85 RLTEQAPNFEPPDESCTFKKHLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKM 144
L + P+ F + LL + EFE E+ + +++
Sbjct: 61 GLNSKNPD---------FGELLLNRLQEEFEKG---------------VEEEERGNRKRR 96
Query: 145 LGNIKFIGELGKHEIVTESILHTCIQELLPKNRKVQTNKDVSENLECLCQIMKTCGRILD 204
LG ++F+GEL +++TE I+ C++ELL + + +LE L ++ TCG++LD
Sbjct: 97 LGLVRFLGELFNFKVLTEKIILECLKELLESL--TEEDPRDEFSLEILLLLLTTCGKLLD 154
Query: 205 SEKGQGLMNQYFSRMKT-VQTSTPHLPLRIRFMLQDVEDLRRNN 247
EK + LM++ R++ + ++ P L R+RFML+D+ +LR+N
Sbjct: 155 REKLKKLMDEILERIQKYLLSADPELSSRLRFMLEDLIELRKNK 198
>gnl|CDD|214713 smart00543, MIF4G, Middle domain of eukaryotic initiation factor 4G
(eIF4G). Also occurs in NMD2p and CBP80. The domain is
rich in alpha-helices and may contain multiple
alpha-helical repeats. In eIF4G, this domain binds
eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G
domain homologues (in press).
Length = 200
Score = 130 bits (328), Expect = 5e-37
Identities = 66/224 (29%), Positives = 111/224 (49%), Gaps = 27/224 (12%)
Query: 26 RKVRELLNKLTPEKFDKLSDDLLQLDLNSSKILKGVILLIFEKALHETKYTSMYARLCKR 85
+KV+ L+NKL+P F+ + +LL+L+ + + K ++ LIFEKA+ E + YARLC
Sbjct: 2 KKVKGLINKLSPSNFESIIKELLKLNNSDKNLRKYILELIFEKAVEEPNFIPAYARLCAL 61
Query: 86 LTEQAPNFEPPDESCTFKKHLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKML 145
L + P+ F LL + EFE E + KQ+ L
Sbjct: 62 LNAKNPD---------FGSLLLERLQEEFEKGL---------------ESEEESDKQRRL 97
Query: 146 GNIKFIGELGKHEIVTESILHTCIQELLPKNRKVQTNKDVSENLECLCQIMKTCGRILDS 205
G ++F+GEL +++T I+ ++ELL ++ECL ++ TCG+ L+
Sbjct: 98 GLVRFLGELYNFQVLTSKIILELLKELLNDL-TKLDPPRSDFSVECLLSLLPTCGKDLER 156
Query: 206 EKGQGLMNQYFSRMKTVQTSTP--HLPLRIRFMLQDVEDLRRNN 247
EK L+++ R++ L R+RFML+ + +LR+N
Sbjct: 157 EKSPKLLDEILERLQDYLLKKDKTELSSRLRFMLELLIELRKNK 200
>gnl|CDD|182539 PRK10549, PRK10549, signal transduction histidine-protein kinase
BaeS; Provisional.
Length = 466
Score = 31.5 bits (72), Expect = 0.54
Identities = 43/151 (28%), Positives = 59/151 (39%), Gaps = 36/151 (23%)
Query: 7 PSALRRDALTPENVQDATFRKVRELLNKLTPEKFD----------KLSDDLLQLDLNSSK 56
P A+ R L E +QD VR K TPE KL DDL QL L+
Sbjct: 254 PLAVLRGEL--EAIQDG----VR----KFTPESVASLQAEVGTLTKLVDDLHQLSLSDEG 303
Query: 57 IL---KGVI-----LLIFEKALHETKYTSMYARLCKRLTEQAPNFEPPDESCTFKKHLLW 108
L K + L + A E ++ S L L + A F PD L+
Sbjct: 304 ALAYRKTPVDLVPLLEVAGGAFRE-RFASRGLTLQLSLPDSATVFGDPDR-------LMQ 355
Query: 109 VCKNEFENRSRATEAFGNLPLSPDDEDRRQL 139
+ N EN R T++ G+L +S + D+
Sbjct: 356 LFNNLLENSLRYTDSGGSLHISAEQRDKTLR 386
>gnl|CDD|227483 COG5154, BRX1, RNA-binding protein required for 60S ribosomal
subunit biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 283
Score = 30.4 bits (68), Expect = 1.1
Identities = 10/40 (25%), Positives = 20/40 (50%)
Query: 204 DSEKGQGLMNQYFSRMKTVQTSTPHLPLRIRFMLQDVEDL 243
D E QG + + ++ S+ + RIR +++D+ L
Sbjct: 16 DEEYVQGNSAGFVPKQTSLILSSRGVSYRIRHLMKDLSRL 55
>gnl|CDD|185246 PRK15348, PRK15348, type III secretion system lipoprotein SsaJ;
Provisional.
Length = 249
Score = 29.9 bits (67), Expect = 1.3
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 240 VEDLRRNNWVPRQANNPEKPVPINQII---EEDHDPVNFILPHRNNGM 284
VE LR N + RQ +K P NQ++ +E+ +NF+ R GM
Sbjct: 68 VELLRLNGYPHRQFTTADKMFPANQLVVSPQEEQQKINFLKEQRIEGM 115
>gnl|CDD|237460 PRK13656, PRK13656, trans-2-enoyl-CoA reductase; Provisional.
Length = 398
Score = 29.4 bits (67), Expect = 2.0
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 10/39 (25%)
Query: 18 ENVQDATFRKVRELLNKLTPEKFDKLSD------DLLQL 50
+VQ A VREL ++T E +L+D + L+L
Sbjct: 340 PDVQAA----VRELWPQVTTENLYELTDYAGYKAEFLKL 374
>gnl|CDD|225447 COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell
division and chromosome partitioning].
Length = 272
Score = 27.6 bits (62), Expect = 7.0
Identities = 13/40 (32%), Positives = 22/40 (55%), Gaps = 10/40 (25%)
Query: 4 WIPPSALRRD--ALTPENVQDATFRKVRELLNKLTPEKFD 41
++ P++ RD ALTPE V++++N+L FD
Sbjct: 84 FLLPASQTRDKDALTPE--------GVKKVVNELKAMDFD 115
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
0.319 0.136 0.404
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: 15,195,516
Number of extensions: 1434088
Number of successful extensions: 1326
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1319
Number of HSP's successfully gapped: 17
Length of query: 295
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 199
Effective length of database: 6,679,618
Effective search space: 1329243982
Effective search space used: 1329243982
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 (21.7 bits)
S2: 59 (26.6 bits)