RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy230
(222 letters)
>d2nn6g1 b.40.4.5 (G:107-194) S1-domain of exosome component 3
(RRP40) {Human (Homo sapiens) [TaxId: 9606]}
Length = 88
Score = 99 bits (249), Expect = 4e-28
Identities = 49/88 (55%), Positives = 68/88 (77%)
Query: 51 RYVPTRGDLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFEGATKKNPPKVETGDVVAGKL 110
RYVP +GD VIG+VT++ GD ++VD+G +PA LSYL+FEGATK+N P V+ GD++ G+
Sbjct: 1 RYVPVKGDHVIGIVTAKSGDIFKVDVGGSEPASLSYLSFEGATKRNRPNVQVGDLIYGQF 60
Query: 111 LTANKDMESEMVCVDSRGKEFIMGILND 138
+ ANKDME EMVC+DS G+ MG++
Sbjct: 61 VVANKDMEPEMVCIDSCGRANGMGVIGQ 88
>d2ja9a1 b.40.4.5 (A:62-151) S1-domain of exosome component 3
(RRP40) {Saccharomyces cerevisiae [TaxId: 4932]}
Length = 90
Score = 94.5 bits (235), Expect = 5e-26
Identities = 36/89 (40%), Positives = 57/89 (64%), Gaps = 2/89 (2%)
Query: 50 RRYVPTRGDLVIGVVTSRVGDNYRVDIGSH-DPAVLSYLAFEGATKKNPPKVETGDVVAG 108
+RY+P+ D VIGV+ D+Y+V + + LSY+AF A+KKN P ++ GD+V
Sbjct: 1 KRYIPSVNDFVIGVIIGTFSDSYKVSLQNFSSSVSLSYMAFPNASKKNRPTLQVGDLVYA 60
Query: 109 KLLTANKDMESEMVCVDSR-GKEFIMGIL 136
++ TA K++E+E+ C DS G++ GIL
Sbjct: 61 RVCTAEKELEAEIECFDSTTGRDAGFGIL 89
>d2nn6g3 d.51.1.1 (G:195-274) Ribosomal RNA-processing protein 40,
RRP40 {Human (Homo sapiens) [TaxId: 9606]}
Length = 80
Score = 92.4 bits (230), Expect = 2e-25
Identities = 22/79 (27%), Positives = 47/79 (59%), Gaps = 2/79 (2%)
Query: 138 DGYLLHTSISLCRKLLNPKCPLLKQLAKRSRQKMELSIGMNGKIWIRCESFSDTVRVGNL 197
DG L ++ L RKLL P C +++++ K +E+ GMNG+IW++ ++ T+ + N+
Sbjct: 1 DGLLFKVTLGLIRKLLAPDCEIIQEVGKLY--PLEIVFGMNGRIWVKAKTIQQTLILANI 58
Query: 198 IMSCELLSYEEILNLCESI 216
+ +CE ++ ++ + +
Sbjct: 59 LEACEHMTSDQRKQIFSRL 77
>d2ja9a2 d.51.1.1 (A:152-236) Ribosomal RNA-processing protein 40,
RRP40 {Saccharomyces cerevisiae [TaxId: 4932]}
Length = 85
Score = 61.7 bits (150), Expect = 2e-13
Identities = 28/66 (42%), Positives = 42/66 (63%), Gaps = 3/66 (4%)
Query: 138 DGYLLHTSISLCRKLL-NPKCPLLKQLAKRSRQKMELSIGMNGKIWIRCESFSDTVRVGN 196
DG ++ +++ R+LL N PLLK LA + K E++IG+NGKIW++CE S+T+
Sbjct: 1 DGMIIDVNLNFARQLLFNNDFPLLKVLAAHT--KFEVAIGLNGKIWVKCEELSNTLACYR 58
Query: 197 LIMSCE 202
IM C
Sbjct: 59 TIMECC 64
>d2nn6g2 b.84.4.2 (G:16-106) Ribosomal RNA-processing protein 40,
RRP40 {Human (Homo sapiens) [TaxId: 9606]}
Length = 91
Score = 49.3 bits (117), Expect = 8e-09
Identities = 20/53 (37%), Positives = 30/53 (56%), Gaps = 8/53 (15%)
Query: 6 LSLNAEP--RLILGPGLRRESSAILVSQSGILRHAKPFT------YYVDYIQR 50
L+ A R++ GPGLRR +LV++ G LRH +P + Y+VD Q+
Sbjct: 39 LNARACSRVRVVCGPGLRRCGDRLLVTKCGRLRHKEPGSGSGGGVYWVDSQQK 91
>d2nn6h1 b.40.4.5 (H:73-167) S1-domain of Ribosomal RNA-processing
protein 4, RRP4 {Human (Homo sapiens) [TaxId: 9606]}
Length = 95
Score = 47.6 bits (113), Expect = 3e-08
Identities = 18/81 (22%), Positives = 33/81 (40%), Gaps = 4/81 (4%)
Query: 51 RYVPTRGDLVIGVVTSRVGDNYRVDIGSHDPAVL--SYLAFEGATKKNPPKVETGDVVAG 108
RY+ GD+V+G +T ++V+ S +VL S + G + + +
Sbjct: 3 RYIGEVGDIVVGRITEVQQKRWKVETNSRLDSVLLLSSMNLPGGELRRRSAEDELAMR-- 60
Query: 109 KLLTANKDMESEMVCVDSRGK 129
L + +E+ V S G
Sbjct: 61 GFLQEGDLISAEVQAVFSDGA 81
>d2z0sa1 b.40.4.5 (A:60-147) S1-domain of exosome complex
RNA-binding protein 1, ECR1 {Aeropyrum pernix [TaxId:
56636]}
Length = 88
Score = 40.6 bits (95), Expect = 9e-06
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 5/72 (6%)
Query: 52 YVPTRGDLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFEGATKKNPP-----KVETGDVV 106
YVP GD+VIG++ S N+ VDI S AVLS F G ++ GD +
Sbjct: 3 YVPQAGDVVIGLIQSVGIMNWFVDINSPYVAVLSVQDFLGRPFNPAVDDMQSLLKVGDYI 62
Query: 107 AGKLLTANKDME 118
K++ +K
Sbjct: 63 KAKVVAFDKTRS 74
>d2je6i1 b.40.4.5 (I:66-152) S1-domain of exosome complex
RNA-binding protein 1, ECR1 {Sulfolobus solfataricus
[TaxId: 2287]}
Length = 87
Score = 36.9 bits (85), Expect = 2e-04
Identities = 16/72 (22%), Positives = 28/72 (38%), Gaps = 4/72 (5%)
Query: 51 RYVPTRGDLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFEGATKKNPPKVET----GDVV 106
Y P D+VIG+V + VDI + A L G + + GD V
Sbjct: 2 FYYPKINDIVIGLVEDVEIYGWVVDIKAPYKAYLPASNLLGRSINVGEDLRRYLDVGDYV 61
Query: 107 AGKLLTANKDME 118
++ ++ ++
Sbjct: 62 IARIENFDRSID 73
>d2ba0a1 b.40.4.5 (A:53-135) S1-domain of exosome complex
RNA-binding protein 1, ECR1 {Archaeoglobus fulgidus
[TaxId: 2234]}
Length = 83
Score = 33.1 bits (75), Expect = 0.004
Identities = 19/68 (27%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 52 YVPTRGDLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFEGATKKNPPK--VETGDVVAGK 109
Y P+ GD+VIG++ + + VDI S A L P ++ GD + K
Sbjct: 1 YTPSVGDVVIGIIREVAANGWAVDIYSPYQAFLPVSENPEMKPNKKPNEVLDIGDAIIAK 60
Query: 110 LLTANKDM 117
+L + M
Sbjct: 61 VLNIDPKM 68
>d2nn6i1 b.40.4.5 (I:61-185) Exosome component 1, EXOSC1 {Human
(Homo sapiens) [TaxId: 9606]}
Length = 125
Score = 28.7 bits (64), Expect = 0.27
Identities = 16/77 (20%), Positives = 26/77 (33%), Gaps = 11/77 (14%)
Query: 51 RYVPTRGDLVIGVVTSRVGDNYRVDIGSHDPAVLS-----YLAFEGATKKNPPKVET--- 102
+ +P G +V V+S +V I L + E KVE
Sbjct: 2 QLLPDVGAIVTCKVSSINSRFAKVHILYVGSMPLKNSFRGTIRKEDVRATEKDKVEIYKS 61
Query: 103 ---GDVVAGKLLTANKD 116
GD+V K+++
Sbjct: 62 FRPGDIVLAKVISLGDA 78
>d1ct5a_ c.1.6.2 (A:) "Hypothetical" protein ybl036c {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 244
Score = 29.5 bits (65), Expect = 0.30
Identities = 9/40 (22%), Positives = 18/40 (45%)
Query: 159 LLKQLAKRSRQKMELSIGMNGKIWIRCESFSDTVRVGNLI 198
K++ + ++LS+GM+ + VR+G I
Sbjct: 203 WKKKIDAKFGTSLKLSMGMSADFREAIRQGTAEVRIGTDI 242
>d1aoha_ b.2.2.2 (A:) Cohesin domain {Clostridium thermocellum,
cellulosome, various modules [TaxId: 1515]}
Length = 143
Score = 28.3 bits (63), Expect = 0.38
Identities = 8/59 (13%), Positives = 21/59 (35%)
Query: 58 DLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFEGATKKNPPKVETGDVVAGKLLTANKD 116
+ + V ++ GD R+ + + +P +E ++ G+L+
Sbjct: 3 RIKVDTVNAKPGDTVRIPVRFSGIPSKGIANCDFVYSYDPNVLEIIEIEPGELIVDPNP 61
>d2q3za1 b.1.18.9 (A:15-145) Transglutaminase N-terminal domain
{Human (Homo sapiens), tissue isozyme [TaxId: 9606]}
Length = 131
Score = 25.2 bits (55), Expect = 4.4
Identities = 9/32 (28%), Positives = 15/32 (46%)
Query: 34 ILRHAKPFTYYVDYIQRRYVPTRGDLVIGVVT 65
++R +PF + + R Y + L VVT
Sbjct: 18 VVRRGQPFWLTLHFEGRNYQASVDSLTFSVVT 49
>d1vhoa1 b.49.3.1 (A:70-152) Putative endoglucanase TM1048
{Thermotoga maritima [TaxId: 2336]}
Length = 83
Score = 24.2 bits (53), Expect = 5.7
Identities = 7/58 (12%), Positives = 16/58 (27%), Gaps = 3/58 (5%)
Query: 49 QRRYVPTRGDLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFEGATKKNPPKVETGDVV 106
+ + T+ + GV+ + P ++ V GD+
Sbjct: 28 SKVRIYTKNGIERGVIGMLAPHLQDSESRKKVPTYDEIFVDLSLCER---GVRVGDIA 82
>d1k3ra1 b.40.4.10 (A:93-163) Hypothetical protein MTH1 (MT0001),
insert domain {Archaeon Methanobacterium
thermoautotrophicum [TaxId: 145262]}
Length = 71
Score = 24.0 bits (52), Expect = 6.0
Identities = 10/31 (32%), Positives = 14/31 (45%)
Query: 54 PTRGDLVIGVVTSRVGDNYRVDIGSHDPAVL 84
P G+ G+ RV VDIG+ A+
Sbjct: 8 PVTGEYRQGLTVKRVKKGTLVDIGADKLALC 38
>d1hh2p1 b.40.4.5 (P:127-198) S1 domain of NusA {Thermotoga
maritima [TaxId: 2336]}
Length = 72
Score = 23.4 bits (51), Expect = 7.6
Identities = 6/37 (16%), Positives = 14/37 (37%), Gaps = 5/37 (13%)
Query: 44 YVDYIQRRYVPTRGDLVIGVVTSRVGDNYRVDIGSHD 80
+ Y + + G + V +G+ + IG +
Sbjct: 1 FEKYSELK-----GTVTTAEVIRVMGEWADIRIGKLE 32
>d1sroa_ b.40.4.5 (A:) S1 RNA-binding domain of polyribonucleotide
phosphorylase, PNPase {Escherichia coli [TaxId: 562]}
Length = 76
Score = 23.6 bits (51), Expect = 7.6
Identities = 12/61 (19%), Positives = 20/61 (32%), Gaps = 1/61 (1%)
Query: 57 GDLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFEGATKKNPPKV-ETGDVVAGKLLTANK 115
G + G VT V V IG ++ + + G V K+L ++
Sbjct: 6 GRVYTGKVTRIVDFGAFVAIGGGKEGLVHISQIADKRVEKVTDYLQMGQEVPVKVLEVDR 65
Query: 116 D 116
Sbjct: 66 Q 66
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.321 0.138 0.404
Gapped
Lambda K H
0.267 0.0604 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 809,282
Number of extensions: 36403
Number of successful extensions: 92
Number of sequences better than 10.0: 1
Number of HSP's gapped: 88
Number of HSP's successfully gapped: 19
Length of query: 222
Length of database: 2,407,596
Length adjustment: 82
Effective length of query: 140
Effective length of database: 1,281,736
Effective search space: 179443040
Effective search space used: 179443040
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 (21.8 bits)
S2: 51 (23.7 bits)