RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17970
(174 letters)
>gnl|CDD|185285 PRK15387, PRK15387, E3 ubiquitin-protein ligase SspH2; Provisional.
Length = 788
Score = 52.5 bits (125), Expect = 2e-08
Identities = 34/174 (19%), Positives = 79/174 (45%)
Query: 1 MTVMDPTLSEMAVMDPTLSEMTVMDPTLPEMTIMDPTLSEMAVMDPTLSEMAVMDPTLPE 60
+ + D L+ + + P L + V L + ++ P L E+++ L+ + + L +
Sbjct: 227 LVIPDNNLTSLPALPPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCK 286
Query: 61 MTLMDPTLSEMTVMDPTLSEMTVMDPTLPEMTVMDPTLPEMAVMDPTLSEMTVMDPTLSE 120
+ + L+ + V+ P L E++V D L + + L ++ + L+ + + L E
Sbjct: 287 LWIFGNQLTSLPVLPPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPTLPSGLQE 346
Query: 121 MTIMDPTLPEMTVMDPTLSEMTVMDPTLSEMTVMDPTLSEMTVMDPRLSEMTVL 174
+++ D L + + L ++ + L+ + + L E+ V RL+ + VL
Sbjct: 347 LSVSDNQLASLPTLPSELYKLWAYNNRLTSLPALPSGLKELIVSGNRLTSLPVL 400
Score = 50.5 bits (120), Expect = 8e-08
Identities = 35/173 (20%), Positives = 78/173 (45%)
Query: 1 MTVMDPTLSEMAVMDPTLSEMTVMDPTLPEMTIMDPTLSEMAVMDPTLSEMAVMDPTLPE 60
+ + P L + V L+ + V+ P L E++I L+ + + L ++ + L
Sbjct: 237 LPALPPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTS 296
Query: 61 MTLMDPTLSEMTVMDPTLSEMTVMDPTLPEMTVMDPTLPEMAVMDPTLSEMTVMDPTLSE 120
+ ++ P L E++V D L+ + + L ++ + L + + L E++V D L+
Sbjct: 297 LPVLPPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPTLPSGLQELSVSDNQLAS 356
Query: 121 MTIMDPTLPEMTVMDPTLSEMTVMDPTLSEMTVMDPTLSEMTVMDPRLSEMTV 173
+ + L ++ + L+ + + L E+ V L+ + V+ L E+ V
Sbjct: 357 LPTLPSELYKLWAYNNRLTSLPALPSGLKELIVSGNRLTSLPVLPSELKELMV 409
Score = 48.6 bits (115), Expect = 4e-07
Identities = 31/166 (18%), Positives = 76/166 (45%)
Query: 8 LSEMAVMDPTLSEMTVMDPTLPEMTIMDPTLSEMAVMDPTLSEMAVMDPTLPEMTLMDPT 67
++ + + D L+ + + P L + + L+ + V+ P L E+++ L + +
Sbjct: 224 ITTLVIPDNNLTSLPALPPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSG 283
Query: 68 LSEMTVMDPTLSEMTVMDPTLPEMTVMDPTLPEMAVMDPTLSEMTVMDPTLSEMTIMDPT 127
L ++ + L+ + V+ P L E++V D L + + L ++ + L+ + +
Sbjct: 284 LCKLWIFGNQLTSLPVLPPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPTLPSG 343
Query: 128 LPEMTVMDPTLSEMTVMDPTLSEMTVMDPTLSEMTVMDPRLSEMTV 173
L E++V D L+ + + L ++ + L+ + + L E+ V
Sbjct: 344 LQELSVSDNQLASLPTLPSELYKLWAYNNRLTSLPALPSGLKELIV 389
Score = 47.8 bits (113), Expect = 7e-07
Identities = 31/157 (19%), Positives = 72/157 (45%)
Query: 18 LSEMTVMDPTLPEMTIMDPTLSEMAVMDPTLSEMAVMDPTLPEMTLMDPTLSEMTVMDPT 77
++ + + D L + + P L + V L+ + V+ P L E+++ L+ + +
Sbjct: 224 ITTLVIPDNNLTSLPALPPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSG 283
Query: 78 LSEMTVMDPTLPEMTVMDPTLPEMAVMDPTLSEMTVMDPTLSEMTIMDPTLPEMTVMDPT 137
L ++ + L + V+ P L E++V D L+ + + L ++ + L + +
Sbjct: 284 LCKLWIFGNQLTSLPVLPPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPTLPSG 343
Query: 138 LSEMTVMDPTLSEMTVMDPTLSEMTVMDPRLSEMTVL 174
L E++V D L+ + + L ++ + RL+ + L
Sbjct: 344 LQELSVSDNQLASLPTLPSELYKLWAYNNRLTSLPAL 380
>gnl|CDD|237940 PRK15313, PRK15313, autotransport protein MisL; Provisional.
Length = 955
Score = 31.7 bits (71), Expect = 0.22
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 9/62 (14%)
Query: 54 MDPTLPEMTLMDPTLSEMTVMDPTLSEMTVMDPTLPEMTVMDPTLPEMAVMDPTLSEMTV 113
+DP +P+ + DP +DP + + DP +P+ DP PE +DP + + T+
Sbjct: 569 VDPVIPDPVIPDP-------VDPDPVDPVIPDPVIPDPVDPDPVDPE--PVDPVIPDPTI 619
Query: 114 MD 115
D
Sbjct: 620 PD 621
>gnl|CDD|226193 COG3667, PcoB, Uncharacterized protein involved in copper
resistance [Inorganic ion transport and metabolism].
Length = 321
Score = 31.0 bits (70), Expect = 0.28
Identities = 16/57 (28%), Positives = 18/57 (31%), Gaps = 4/57 (7%)
Query: 45 DPTLSEMAVMDPTLPEMTLMDPTLSEMTVMDPTLSEMTVMDPTLPEMTVMDPTLPEM 101
P E A MD P M MD + M MD M MD P +
Sbjct: 31 QPHAHEHAPMDAPHPAMPGMDH--HAHSKMPGPEMAAPQMDHG--AMPHMDHAPPPI 83
Score = 29.8 bits (67), Expect = 0.58
Identities = 19/83 (22%), Positives = 22/83 (26%), Gaps = 7/83 (8%)
Query: 83 VMDPTLPEMTVMDPTLPEMAVMDPTLSEMTVMDPTLSEMTIMDPTLPEMTVMDPTLSEMT 142
+ DP V P +E P E MD P M MD +
Sbjct: 2 IRDPR-TAHHAHAAAALGPLVAQPHPTEAA--QPHAHEHAPMDAPHPAMPGMDH--HAHS 56
Query: 143 VMDPTLSEMTVMDPTLSEMTVMD 165
M MD M MD
Sbjct: 57 KMPGPEMAAPQMDHG--AMPHMD 77
Score = 26.8 bits (59), Expect = 5.9
Identities = 13/48 (27%), Positives = 15/48 (31%), Gaps = 3/48 (6%)
Query: 15 DPTLSEMTVMDPTLPEMTIMDPTLSEMAVMDPTLSEMAVMDPT-LPEM 61
P E MD P M MD + M MD +P M
Sbjct: 31 QPHAHEHAPMDAPHPAMPGMDH--HAHSKMPGPEMAAPQMDHGAMPHM 76
Score = 26.8 bits (59), Expect = 6.2
Identities = 15/58 (25%), Positives = 17/58 (29%), Gaps = 4/58 (6%)
Query: 5 DPTLSEMAVMDPTLSEMTVMDPTLPEMTIMDPTLSEMAVMDPTLSEMAVMDPTLPEMT 62
P E A MD M MD + M MD M MD P +
Sbjct: 31 QPHAHEHAPMDAPHPAMPGMDHH--AHSKMPGPEMAAPQMDHG--AMPHMDHAPPPIP 84
>gnl|CDD|206773 cd11368, RNase_PH_RRP45, RRP45 subunit of eukaryotic exosome. The
RRP45 subunit of eukaryotic exosome is a member of the
RNase_PH family, named after the bacterial Ribonuclease
PH, a 3'-5' exoribonuclease. Structurally all members of
this family form hexameric rings (trimers of
Rrp41-Rrp45, Rrp46-Rrp43, and Mtr3-Rrp42 dimers). The
eukaryotic exosome core is composed of six individually
encoded RNase PH-like subunits and three additional
proteins (Rrp4, Csl4 and Rrp40) that form a stable cap
and contain RNA-binding domains. The RNase PH-like
subunits are no longer phosphorolytic enzymes, the
exosome directly associates with Rrp44 and Rrp6,
hydrolytic exoribonucleases related to bacterial RNase
II/R and RNase D. The exosome plays an important role in
RNA turnover. It plays a crucial role in the maturation
of stable RNA species such as rRNA, snRNA and snoRNA,
quality control of mRNA, and the degradation of RNA
processing by-products and non-coding transcripts.
Length = 259
Score = 28.3 bits (64), Expect = 1.9
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 38 LSEMAVMDPTLSEMAVMDPTL 58
E+ V+DPTL E AV D +L
Sbjct: 196 DGEIVVVDPTLLEEAVADGSL 216
Score = 27.9 bits (63), Expect = 2.8
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 148 LSEMTVMDPTLSEMTVMDPRLS 169
E+ V+DPTL E V D L+
Sbjct: 196 DGEIVVVDPTLLEEAVADGSLT 217
Score = 27.5 bits (62), Expect = 3.5
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 28 LPEMTIMDPTLSEMAVMDPTLS 49
E+ ++DPTL E AV D +L+
Sbjct: 196 DGEIVVVDPTLLEEAVADGSLT 217
Score = 27.5 bits (62), Expect = 3.7
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 138 LSEMTVMDPTLSEMTVMDPTLS 159
E+ V+DPTL E V D +L+
Sbjct: 196 DGEIVVVDPTLLEEAVADGSLT 217
Score = 27.1 bits (61), Expect = 5.0
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 98 LPEMAVMDPTLSEMTVMDPTLS 119
E+ V+DPTL E V D +L+
Sbjct: 196 DGEIVVVDPTLLEEAVADGSLT 217
Score = 26.7 bits (60), Expect = 5.7
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 88 LPEMTVMDPTLPEMAVMDPTLS 109
E+ V+DPTL E AV D +L+
Sbjct: 196 DGEIVVVDPTLLEEAVADGSLT 217
Score = 26.7 bits (60), Expect = 5.8
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 8 LSEMAVMDPTLSEMTVMDPTL 28
E+ V+DPTL E V D +L
Sbjct: 196 DGEIVVVDPTLLEEAVADGSL 216
Score = 26.7 bits (60), Expect = 6.4
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 128 LPEMTVMDPTLSEMTVMDPTLS 149
E+ V+DPTL E V D +L+
Sbjct: 196 DGEIVVVDPTLLEEAVADGSLT 217
Score = 26.7 bits (60), Expect = 6.5
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 1 MTVMDPTLSEMAVMDPTLS 19
+ V+DPTL E AV D +L+
Sbjct: 199 IVVVDPTLLEEAVADGSLT 217
Score = 26.3 bits (59), Expect = 7.5
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 68 LSEMTVMDPTLSEMTVMDPTL 88
E+ V+DPTL E V D +L
Sbjct: 196 DGEIVVVDPTLLEEAVADGSL 216
Score = 26.3 bits (59), Expect = 8.7
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 58 LPEMTLMDPTLSEMTVMDPTLS 79
E+ ++DPTL E V D +L+
Sbjct: 196 DGEIVVVDPTLLEEAVADGSLT 217
>gnl|CDD|234368 TIGR03835, termin_org_DnaJ, terminal organelle assembly protein
TopJ. This model describes TopJ (MG_200, CbpA), a DnaJ
homolog and probable assembly protein of the Mycoplasma
terminal organelle. The terminal organelle is involved
in both cytadherence and gliding motility [Cellular
processes, Chemotaxis and motility].
Length = 871
Score = 28.2 bits (62), Expect = 3.0
Identities = 28/136 (20%), Positives = 44/136 (32%), Gaps = 8/136 (5%)
Query: 20 EMTVMDPTLPEMTIMDPTLSEMAVMDPTLSEMAVMDPTLPEMTLMDPTLSEMTVMDPTLS 79
E D L E T + DP E V D E+T + +S V +
Sbjct: 403 ENWATDYQLDEPT--QSNIDWYKQEDPKDLEQLVQDQATLEITEEN-QISPEPVEEQPSV 459
Query: 80 EMTVMDPTLPEMTVMDPTLPEMAVMDPTLSEMTVMDPTLSEMTIMDPTLPEMTVMDPTLS 139
E T + + E + L E PT T ++ L PT
Sbjct: 460 ESTAPEDQVVEAIKEEEELLEQKKAAEFAELFGQPTPT----TSIEE-LLNPEQTQPTEF 514
Query: 140 EMTVMDPTLSEMTVMD 155
+ +++ L ++V D
Sbjct: 515 DEIIIENNLDNVSVAD 530
Score = 27.9 bits (61), Expect = 3.7
Identities = 27/121 (22%), Positives = 40/121 (33%), Gaps = 3/121 (2%)
Query: 50 EMAVMDPTLPEMTLMDPTLSEMTVMDPTLSEMTVMDPTLPEMTVMDPTLPEMAVMDPTLS 109
E D L E T + DP E V D E+T + PE V +
Sbjct: 403 ENWATDYQLDEPT--QSNIDWYKQEDPKDLEQLVQDQATLEITEENQISPE-PVEEQPSV 459
Query: 110 EMTVMDPTLSEMTIMDPTLPEMTVMDPTLSEMTVMDPTLSEMTVMDPTLSEMTVMDPRLS 169
E T + + E + L E PT S +++P ++ T D +
Sbjct: 460 ESTAPEDQVVEAIKEEEELLEQKKAAEFAELFGQPTPTTSIEELLNPEQTQPTEFDEIII 519
Query: 170 E 170
E
Sbjct: 520 E 520
Score = 26.7 bits (58), Expect = 8.6
Identities = 24/135 (17%), Positives = 48/135 (35%), Gaps = 3/135 (2%)
Query: 10 EMAVMDPTLSEMTVMDPTLPEMTIMDPTLSEMAVMDPTLSEMAVMDPTLPEMTLMDPTLS 69
E + + E ++ T PE +++ E +++ + P T L
Sbjct: 445 ENQISPEPVEEQPSVESTAPEDQVVEAIKEEEELLEQKKAAEFAELFGQPTPTTSIEELL 504
Query: 70 EMTVMDPTLSEMTVMDPTLPEMTVMDP---TLPEMAVMDPTLSEMTVMDPTLSEMTIMDP 126
PT + +++ L ++V D L + +S T++ S+ I DP
Sbjct: 505 NPEQTQPTEFDEIIIENNLDNVSVADDQNYQLKDDNKKFINISLPTIVSSNESDDLIYDP 564
Query: 127 TLPEMTVMDPTLSEM 141
+ M + SE
Sbjct: 565 LQQPVRPMHTSDSET 579
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
0.313 0.125 0.341
Gapped
Lambda K H
0.267 0.0680 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,884,849
Number of extensions: 800424
Number of successful extensions: 567
Number of sequences better than 10.0: 1
Number of HSP's gapped: 532
Number of HSP's successfully gapped: 42
Length of query: 174
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 84
Effective length of database: 6,945,742
Effective search space: 583442328
Effective search space used: 583442328
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 (22.0 bits)
S2: 56 (25.4 bits)