RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 032980
(129 letters)
>gnl|CDD|215075 PLN00146, PLN00146, 40S ribosomal protein S15a; Provisional.
Length = 130
Score = 228 bits (583), Expect = 6e-79
Identities = 67/129 (51%), Positives = 96/129 (74%)
Query: 1 MGRRILNNALRAIVNAERRGKATVELQPISTVMSSFLNIMKYRGYVKDFQVYDPHRVGKI 60
+ R +LN+AL+ + NAE+RGK V ++P S V+ FL +M+ GY+ +F+V D HR GKI
Sbjct: 2 VRRSVLNDALKTMYNAEKRGKRQVLIRPSSKVVIKFLKVMQKHGYIGEFEVVDDHRSGKI 61
Query: 61 KVELLGRVNDCRALTYRQDIKASEIEGYTVRALPTRQWGYVVITTPDGVLDHEEALRRNV 120
VEL GR+N C ++ R D+K EIE +T R LP+RQ+GY+V+TT G++DHEEA R+NV
Sbjct: 62 VVELNGRLNKCGVISPRFDVKVKEIEAWTARLLPSRQFGYIVLTTSAGIMDHEEARRKNV 121
Query: 121 GGQVLGYFH 129
GG+VLG+F+
Sbjct: 122 GGKVLGFFY 130
>gnl|CDD|185487 PTZ00158, PTZ00158, 40S ribosomal protein S15A; Provisional.
Length = 130
Score = 152 bits (387), Expect = 4e-49
Identities = 58/125 (46%), Positives = 88/125 (70%)
Query: 5 ILNNALRAIVNAERRGKATVELQPISTVMSSFLNIMKYRGYVKDFQVYDPHRVGKIKVEL 64
+L + LR+IVNAE++GK V ++P S V+ FL +M+ GY+ +F++ D HR GKI V L
Sbjct: 6 VLADCLRSIVNAEKQGKRQVLIRPSSKVVVKFLQVMQKHGYIGEFEIVDDHRSGKIVVNL 65
Query: 65 LGRVNDCRALTYRQDIKASEIEGYTVRALPTRQWGYVVITTPDGVLDHEEALRRNVGGQV 124
GR+N C ++ R D+ E E + LP+RQ+G+VV+TT G++DHEEA RR+ GG++
Sbjct: 66 NGRLNKCGVISPRFDVTLGEFEKWANNILPSRQFGHVVLTTSYGIMDHEEARRRHTGGKI 125
Query: 125 LGYFH 129
LG+F+
Sbjct: 126 LGFFY 130
>gnl|CDD|179721 PRK04034, rps8p, 30S ribosomal protein S8P; Reviewed.
Length = 130
Score = 131 bits (332), Expect = 1e-40
Identities = 51/127 (40%), Positives = 76/127 (59%)
Query: 1 MGRRILNNALRAIVNAERRGKATVELQPISTVMSSFLNIMKYRGYVKDFQVYDPHRVGKI 60
+ L NAL I NAE GK V ++P S ++ + L +M+ GY+ +F+ D R GK
Sbjct: 2 VLLDPLANALSTIKNAEMVGKKEVIIKPASKLIGNVLRVMQDEGYIGEFEYIDDGRAGKF 61
Query: 61 KVELLGRVNDCRALTYRQDIKASEIEGYTVRALPTRQWGYVVITTPDGVLDHEEALRRNV 120
KVELLGR+N C A+ R +K E E + R LP R +G ++++T GV+ H+EA + +
Sbjct: 62 KVELLGRINKCGAIKPRYPVKYDEFEKWEKRYLPARDFGILIVSTSKGVMSHKEAREKGI 121
Query: 121 GGQVLGY 127
GG +L Y
Sbjct: 122 GGVLLAY 128
>gnl|CDD|223174 COG0096, RpsH, Ribosomal protein S8 [Translation, ribosomal
structure and biogenesis].
Length = 132
Score = 112 bits (282), Expect = 4e-33
Identities = 44/127 (34%), Positives = 69/127 (54%), Gaps = 4/127 (3%)
Query: 5 ILNNALRAIVNAERRGKATVELQPISTVMSSFLNIMKYRGYVKDFQVYDPHRVGKIKVEL 64
L + L I NAER K V + P S + + L ++K GY+KDF+V D R GK++V+L
Sbjct: 6 PLADMLTRIRNAERAKKEVVSM-PASKLKGAILKVLKKEGYIKDFEVIDDGRKGKLRVQL 64
Query: 65 LGRVNDCRALTYRQDIKASEIEGY-TVRALPTRQWGY--VVITTPDGVLDHEEALRRNVG 121
R+N C ++ + + + Y R LP G +++T GV+ +EA ++ VG
Sbjct: 65 KYRINGCGVISPIKRVSKPGLRVYEKKRELPAVLNGLGIAIVSTSKGVMTDKEARKKGVG 124
Query: 122 GQVLGYF 128
G+VL Y
Sbjct: 125 GEVLCYV 131
>gnl|CDD|215906 pfam00410, Ribosomal_S8, Ribosomal protein S8.
Length = 129
Score = 81.0 bits (201), Expect = 8e-21
Identities = 40/133 (30%), Positives = 60/133 (45%), Gaps = 17/133 (12%)
Query: 6 LNNALRAIVNAERRGKATVELQPISTVMSSFLNIMKYRGYVKDFQVYDPHRVGK-IKVEL 64
+ + L I NA+ K TV + P S + S L I+K GY+K F+V + R GK IKV L
Sbjct: 3 IADMLTRIRNAQMAKKETVLI-PASKLKISILKILKEEGYIKGFEVIEDERNGKFIKVTL 61
Query: 65 ---------LGRVNDCRALTYRQDIKASEIEGYTVRALPTRQWGYVVITTPDGVLDHEEA 115
+ + R + E+ V G +++T GV+ EA
Sbjct: 62 KYDKNGKPVITGIKRISKPGLRVYVSYKELP--KVL----GGLGIAILSTSKGVMTDREA 115
Query: 116 LRRNVGGQVLGYF 128
++ VGG+VL Y
Sbjct: 116 RKKGVGGEVLCYV 128
>gnl|CDD|234658 PRK00136, rpsH, 30S ribosomal protein S8; Validated.
Length = 130
Score = 54.3 bits (132), Expect = 2e-10
Identities = 35/129 (27%), Positives = 55/129 (42%), Gaps = 27/129 (20%)
Query: 13 IVNAERRGKATVELQPISTVMSSFLNIMKYRGYVKDFQVYDPHRVGKIKVELLGRVNDCR 72
I NA+ TV + P S + + I+K GY+KD++V + + G +++
Sbjct: 13 IRNAQMAKHETVSM-PASKLKVAIAEILKEEGYIKDYEVEEDGKQGILRIT--------- 62
Query: 73 ALTYRQDIKASEIEG-----------YT-VRALPTRQWGY--VVITTPDGVLDHEEALRR 118
L Y + IEG Y LP G +++T GV+ EA +
Sbjct: 63 -LKYGEGEPV--IEGIKRVSKPGLRVYKKKDELPKVLNGLGIAIVSTSKGVMTDREARKA 119
Query: 119 NVGGQVLGY 127
VGG+VL Y
Sbjct: 120 GVGGEVLCY 128
>gnl|CDD|214344 CHL00042, rps8, ribosomal protein S8.
Length = 132
Score = 27.4 bits (62), Expect = 1.6
Identities = 33/143 (23%), Positives = 61/143 (42%), Gaps = 29/143 (20%)
Query: 1 MGRRILNNALRAIVNAERRGKATVELQPISTVMS-SFLNIMKYRGYVKDFQVYDPHRVGK 59
MG + + L I NA K TV + +T ++ + + I+ G++++ + HR
Sbjct: 1 MGNDTIADMLTRIRNANMVKKGTVRI--PATNITENIVKILLREGFIENVR---EHRENN 55
Query: 60 IKVELLGRVNDCRALTYRQDIKASEIEG-----------YT-VRALPTR---QWGYVVIT 104
+L L YR + K I Y+ + +P R G V+++
Sbjct: 56 KYFLVLT-------LKYRGNKKKPYITTLKRISKPGLRIYSNYKEIP-RVLGGMGIVILS 107
Query: 105 TPDGVLDHEEALRRNVGGQVLGY 127
T G++ EA + +GG++L Y
Sbjct: 108 TSKGIMTDREARLKGIGGEILCY 130
>gnl|CDD|146955 pfam04565, RNA_pol_Rpb2_3, RNA polymerase Rpb2, domain 3. RNA
polymerases catalyze the DNA dependent polymerisation of
RNA. Prokaryotes contain a single RNA polymerase
compared to three in eukaryotes (not including
mitochondrial. and chloroplast polymerases). Domain 3, s
also known as the fork domain and is proximal to
catalytic site.
Length = 68
Score = 25.7 bits (57), Expect = 2.6
Identities = 9/20 (45%), Positives = 12/20 (60%), Gaps = 1/20 (5%)
Query: 90 VRALPTRQWGYV-VITTPDG 108
VR L Q+G + I TP+G
Sbjct: 33 VRDLHPSQYGRICPIETPEG 52
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
0.323 0.140 0.411
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,865,009
Number of extensions: 610405
Number of successful extensions: 488
Number of sequences better than 10.0: 1
Number of HSP's gapped: 484
Number of HSP's successfully gapped: 17
Length of query: 129
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 43
Effective length of database: 7,123,158
Effective search space: 306295794
Effective search space used: 306295794
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.1 bits)