RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8115
(218 letters)
>3u5c_D RP13, YS3, 40S ribosomal protein S3; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_B 3o30_C 3o2z_C 3u5g_D 1s1h_C
3jyv_C*
Length = 240
Score = 160 bits (407), Expect = 1e-49
Identities = 75/108 (69%), Positives = 92/108 (85%)
Query: 85 QFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIREL 144
+ VADGVF AEL+EF TRELAE+GYSGVE+R TP +TE+II ATRTQ+VLG+ GRRI EL
Sbjct: 10 KLVADGVFYAELNEFFTRELAEEGYSGVEVRVTPTKTEVIIRATRTQDVLGENGRRINEL 69
Query: 145 TSVVQKRFKFADGAIELYAEKVATRGLCAIAQAESLRYKLIGGLAVRR 192
T +VQKRFK+A G I LYAE+V RGL A+AQAES+++KL+ GLA+RR
Sbjct: 70 TLLVQKRFKYAPGTIVLYAERVQDRGLSAVAQAESMKFKLLNGLAIRR 117
>3iz6_B 40S ribosomal protein S3 (S3P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
1s1h_C 3jyv_C*
Length = 227
Score = 159 bits (403), Expect = 4e-49
Identities = 89/109 (81%), Positives = 97/109 (88%)
Query: 85 QFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIREL 144
+FV+DGVF AEL+E LTRELAEDGYSGVE+R TP RTEIII ATRTQNVLG+KGRRIREL
Sbjct: 10 KFVSDGVFYAELNEMLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIREL 69
Query: 145 TSVVQKRFKFADGAIELYAEKVATRGLCAIAQAESLRYKLIGGLAVRRY 193
TSVVQKRF F + +ELYAEKV RGLCAIAQAESLRYKL+GGLAVRR
Sbjct: 70 TSVVQKRFNFLENGVELYAEKVVNRGLCAIAQAESLRYKLLGGLAVRRA 118
>2zkq_c 40S ribosomal protein S3E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 243
Score = 159 bits (403), Expect = 6e-49
Identities = 92/109 (84%), Positives = 104/109 (95%)
Query: 85 QFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIREL 144
+FVADG+F+AEL+EFLTRELAEDGYSGVE+R TP RTEIII+ATRTQNVLG+KGRRIREL
Sbjct: 10 KFVADGIFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLGEKGRRIREL 69
Query: 145 TSVVQKRFKFADGAIELYAEKVATRGLCAIAQAESLRYKLIGGLAVRRY 193
T+VVQKRF F +G++ELYAEKVATRGLCAIAQAESLRYKL+GGLAVRR
Sbjct: 70 TAVVQKRFGFPEGSVELYAEKVATRGLCAIAQAESLRYKLLGGLAVRRA 118
>2xzm_C KH domain containing protein; ribosome, translation; 3.93A
{Tetrahymena thermophila} PDB: 2xzn_C
Length = 243
Score = 151 bits (384), Expect = 5e-46
Identities = 52/108 (48%), Positives = 78/108 (72%)
Query: 85 QFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIREL 144
+FVADGVF AEL F ++ L + GY+G+E+R TP +TEI I AT+ Q V+G +G++ +EL
Sbjct: 13 KFVADGVFNAELHSFFSKSLQDAGYAGIEVRRTPTKTEIRIKATKPQQVIGVEGKKHKEL 72
Query: 145 TSVVQKRFKFADGAIELYAEKVATRGLCAIAQAESLRYKLIGGLAVRR 192
T +QKRF ++D I+++AE + +GLCA AQ E++ YKL+ + VR
Sbjct: 73 TQFLQKRFGYSDDQIQIWAEPIKFKGLCASAQVEAMNYKLLKDVPVRL 120
>1wh9_A 40S ribosomal protein S3; KH domain, structural genomics, riken
structural genomics/proteomics initiative, RSGI,
ribosome; NMR {Homo sapiens} SCOP: d.52.3.1
Length = 92
Score = 142 bits (359), Expect = 2e-44
Identities = 66/89 (74%), Positives = 76/89 (85%)
Query: 87 VADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTS 146
F+AEL+EFLTRELAEDGYSGVE+R TP RTEIII+ATRTQNVLG+KGRRIRELT+
Sbjct: 3 SGSSGFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLGEKGRRIRELTA 62
Query: 147 VVQKRFKFADGAIELYAEKVATRGLCAIA 175
VVQKRF F +G++ELYAEKVATRG +
Sbjct: 63 VVQKRFGFPEGSVELYAEKVATRGSGPSS 91
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 40.4 bits (94), Expect = 3e-04
Identities = 22/82 (26%), Positives = 33/82 (40%), Gaps = 18/82 (21%)
Query: 87 VADGVF-RAELDEFLTRELAEDGYSGVEI-RFTPARTEIIIMATRTQNVLGDKGRRIREL 144
A V+ RA D G+S ++I P + I G+KG+RIRE
Sbjct: 1641 AAQDVWNRA--DNHFKDTY---GFSILDIVINNP--VNLTIHFG------GEKGKRIREN 1687
Query: 145 TSVVQKRFKFADGAIELYAEKV 166
S + DG ++ EK+
Sbjct: 1688 YSAMIFE-TIVDGKLK--TEKI 1706
Score = 36.6 bits (84), Expect = 0.006
Identities = 34/171 (19%), Positives = 55/171 (32%), Gaps = 52/171 (30%)
Query: 59 LGFSVLFRVLVN----TI--GVSNSLSICV---SLQF--VADGVFRAE-LDEFLTRELAE 106
GFS+L V+ N TI G I ++ F + DG + E + + +
Sbjct: 1657 YGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTS 1716
Query: 107 DGYSGVEI-----RFT-PARTEIIIMATR--TQNVLGDKGRRIR----------E---LT 145
+ + +FT PA + L KG E L
Sbjct: 1717 YTFRSEKGLLSATQFTQPA-----LTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALA 1771
Query: 146 SV--VQKRFKFADGAIELYAEKVATRGL---CAIAQAESLRYKLIGGLAVR 191
S+ V +E+ V RG+ A+ + E R G +A+
Sbjct: 1772 SLADV---MSIES-LVEV----VFYRGMTMQVAVPRDELGR-SNYGMIAIN 1813
Score = 29.6 bits (66), Expect = 0.99
Identities = 14/58 (24%), Positives = 19/58 (32%), Gaps = 22/58 (37%)
Query: 22 WPISTRYITT-----PWRPGPGVPT--TPLTQTISNGATVR-----------DSPLGF 61
W +T++ T GPG + LT +G VR D GF
Sbjct: 490 WETTTQFKATHILDF----GPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYGF 543
>3bbn_C Ribosomal protein S3; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 218
Score = 32.9 bits (76), Expect = 0.053
Identities = 14/100 (14%), Positives = 41/100 (41%)
Query: 93 RAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQKRF 152
+ + + +G + +EI+ ++II + ++ ++ + + +L VQK
Sbjct: 44 KNYVQKNTKTSSGVEGIARIEIQKRIDLIQVIIHMGFPKLLIENRPQGVEDLKINVQKEL 103
Query: 153 KFADGAIELYAEKVATRGLCAIAQAESLRYKLIGGLAVRR 192
+ + + ++A AE + +L ++ R+
Sbjct: 104 NCVNRKLNIAITRIAKPYGDPNILAEFIAGQLKSRVSFRK 143
>2vqe_C 30S ribosomal protein S3; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} PDB: 1gix_F* 1hnw_C* 1hnx_C*
1hnz_C* 1hr0_C 1ibk_C* 1ibl_C* 1ibm_C 1j5e_C 1jgo_F*
1jgp_F* 1jgq_F* 1ml5_F* 1n32_C* 1n33_C* 1n34_C 1n36_C
1xmo_C* 1xmq_C* 1xnq_C* ...
Length = 239
Score = 32.6 bits (75), Expect = 0.071
Identities = 14/53 (26%), Positives = 22/53 (41%)
Query: 98 EFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQK 150
L +EL G + V+I + + + V+G G RIR L + K
Sbjct: 41 GLLEKELYSAGLARVDIERAADNVAVTVHVAKPGVVIGRGGERIRVLREELAK 93
>3r8n_C 30S ribosomal protein S3; protein biosynthesis, RNA, tRNA, transfer
RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia
coli} PDB: 2gyb_C 2gy9_C* 2ykr_C 3fih_C* 2wwl_C 3oar_C
3oaq_C 3ofb_C 3ofa_C 3ofp_C 3ofx_C 3ofy_C 3ofo_C 3r8o_C
4a2i_C
Length = 206
Score = 31.7 bits (73), Expect = 0.098
Identities = 16/56 (28%), Positives = 25/56 (44%)
Query: 98 EFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQKRFK 153
++LT+ELA+ S + I + I R V+G KG + +L VV
Sbjct: 40 QYLTKELAKASVSRIVIERPAKSIRVTIHTARPGIVIGKKGEDVEKLRKVVADIAG 95
>3i1m_C 30S ribosomal protein S3; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1vs7_C* 3e1a_O 3e1c_O 1vs5_C 3i1o_C
3i1q_C 3i1s_C 3i1z_C 3i21_C 3izv_G* 3izw_G* 3kc4_C
3or9_C 3ora_C 3sfs_C* 3uoq_C* 2qal_C* 1p6g_C 1p87_C
2aw7_C ...
Length = 233
Score = 31.8 bits (73), Expect = 0.12
Identities = 16/56 (28%), Positives = 25/56 (44%)
Query: 98 EFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQKRFK 153
++LT+ELA+ S + I + I R V+G KG + +L VV
Sbjct: 41 QYLTKELAKASVSRIVIERPAKSIRVTIHTARPGIVIGKKGEDVEKLRKVVADIAG 96
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.7 bits (68), Expect = 0.19
Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 10/32 (31%)
Query: 189 AVRRYNSDVSLYCLNCYTYAD--APSTLPVDA 218
A+++ + + L YAD AP+ L + A
Sbjct: 21 ALKKLQASLKL-------YADDSAPA-LAIKA 44
Score = 30.7 bits (68), Expect = 0.20
Identities = 11/44 (25%), Positives = 21/44 (47%), Gaps = 15/44 (34%)
Query: 136 DKGRRIRELTSVVQKRFKFADGAIELYAEKVATRGLCAI-AQAE 178
+K + +++L + +++LYA+ A L AI A E
Sbjct: 18 EK-QALKKLQA-----------SLKLYADDSAP-AL-AIKATME 47
>3cgv_A Geranylgeranyl reductase related protein; NP_393992.1,
geranylgeranyl bacteriochlorophyll reductase- like FIXC
homolog; HET: MSE FAD UNL; 1.60A {Thermoplasma
acidophilum dsm 1728} PDB: 3oz2_A*
Length = 397
Score = 31.2 bits (71), Expect = 0.26
Identities = 15/108 (13%), Positives = 33/108 (30%), Gaps = 17/108 (15%)
Query: 91 VFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTS--VV 148
+ R + D+ L LA +G ++ +I + I ++ + V+
Sbjct: 99 LERDKFDKHL-AALAAK--AGADVWVKSPALGVIKENGKVAGAKIRHNNEIVDVRAKMVI 155
Query: 149 QKRFKFADGA-------IELYAEKVATRGLCAIAQAESLRYKLIGGLA 189
ADG L + +A + + Q + +
Sbjct: 156 A-----ADGFESEFGRWAGLKSVILARNDIISALQYRMINVDVDPDYT 198
>3nix_A Flavoprotein/dehydrogenase; structural genomics, PSI-2, NES protein
structure initiative, northeast structural genomics
consortium; HET: FAD; 2.60A {Cytophaga hutchinsonii}
Length = 421
Score = 30.5 bits (69), Expect = 0.35
Identities = 17/71 (23%), Positives = 26/71 (36%), Gaps = 12/71 (16%)
Query: 91 VFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQK 150
V R D+ L E A GV++ + T+I T + + D RE+
Sbjct: 103 VPRGNFDKTLADEAAR---QGVDVEYEVGVTDIKFFGTDSVTTIEDINGNKREI------ 153
Query: 151 RFKF---ADGA 158
+F A G
Sbjct: 154 EARFIIDASGY 164
>1s58_A B19 parvovirus capsid; icosahedral capsid, beta-barrel, icosahedral
virus; 3.50A {Human parvovirus B19} SCOP: b.121.5.2
Length = 554
Score = 29.8 bits (66), Expect = 0.70
Identities = 7/47 (14%), Positives = 14/47 (29%), Gaps = 2/47 (4%)
Query: 4 LWKMETTRSGQHANKGQEWPISTRYITTPWRPGPGVPTTPLTQTISN 50
L +T + + + PGP V + + S+
Sbjct: 261 LGVPDTLGGDPKFRSLTHEDHAIQP--QNFMPGPLVNSVSTKEGDSS 305
>3ngq_A CCR4-NOT transcription complex subunit 6-like; alpha/beta sandwich
fold, hydrolase; HET: 1PS; 1.80A {Homo sapiens} PDB:
3ngo_A 3ngn_A
Length = 398
Score = 28.4 bits (62), Expect = 1.8
Identities = 9/56 (16%), Positives = 18/56 (32%), Gaps = 6/56 (10%)
Query: 66 RVLVNTIGVSNSLSICVSLQFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPART 121
+ ++ I ++ I + V + L E GY G + A+
Sbjct: 65 KGIMEEIVNCDADIISL------QEVETEQYFTLFLPALKERGYDGFFSPKSRAKI 114
>2zvr_A Uncharacterized protein TM_0416; hyperthermophIle, ketohexose
3-epimeras tagatose 3-epimerase, isomerase; 2.20A
{Thermotoga maritima}
Length = 290
Score = 28.2 bits (63), Expect = 2.1
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 78 LSICVSLQFVADG--VFRAELDEFLTRELAEDGYSGVEIRF 116
LS+ +S A F+ +L + + GY VEI
Sbjct: 23 LSLVISTSDAAFDALAFKGDLRKGM-ELAKRVGYQAVEIAV 62
>3nrb_A Formyltetrahydrofolate deformylase; N-terminal ACT domain,
structural genomics, joint center for structural
genomics, JCSG; HET: MSE FLC; 2.05A {Pseudomonas putida}
Length = 287
Score = 28.0 bits (63), Expect = 2.1
Identities = 8/53 (15%), Positives = 20/53 (37%), Gaps = 1/53 (1%)
Query: 84 LQFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGD 136
+ + + ++ E + R R +++IM ++ + LGD
Sbjct: 53 VSVEIPVAGVNDFNSAFG-KVVEKYNAEWWFRPRTDRKKVVIMVSKFDHCLGD 104
>1onq_A T-cell surface glycoprotein CD1A; protein-glycolipid complex,
beta sheet platform,, immune SYS; HET: NAG FUC SLF;
2.15A {Homo sapiens} SCOP: b.1.1.2 d.19.1.1 PDB:
1xz0_A*
Length = 283
Score = 27.6 bits (62), Expect = 2.8
Identities = 3/20 (15%), Positives = 5/20 (25%)
Query: 21 EWPISTRYITTPWRPGPGVP 40
+ P+S I
Sbjct: 5 KEPLSFHVIWIASFYNHSWK 24
>3eo7_A Putative nitroreductase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: MSE FMN; 1.80A {Anabaena variabilis atcc
29413}
Length = 511
Score = 27.8 bits (61), Expect = 2.9
Identities = 7/51 (13%), Positives = 17/51 (33%), Gaps = 3/51 (5%)
Query: 32 PWRPGPGVPTTPLTQTISNGATVR---DSPLGFSVLFRVLVNTIGVSNSLS 79
P++ L + V + + L R+L + G++ +
Sbjct: 39 PFKEYKIGSAIDLKPYLQETPEVFVNDTNGQWWQRLSRLLFRSYGLTARMP 89
>2d1c_A Isocitrate dehydrogenase; structural genomics, NPPSFA, national
project protein structural and functional analyses; HET:
NAP CIT; 1.80A {Thermus thermophilus}
Length = 496
Score = 27.7 bits (62), Expect = 3.0
Identities = 20/101 (19%), Positives = 35/101 (34%), Gaps = 20/101 (19%)
Query: 81 CVSLQFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRR 140
V +D + RE ED Y+G+E TP+ + + + + +
Sbjct: 116 VREFPNVPTPYAGRGIDLVVVRENVEDLYAGIEHMQTPSVAQTLKLISW------KGSEK 169
Query: 141 I------------RELTSVVQK--RFKFADGAIELYAEKVA 167
I R+ K K A+G ++ E+VA
Sbjct: 170 IVRFAFELARAEGRKKVHCATKSNIMKLAEGTLKRAFEQVA 210
>3dx5_A Uncharacterized protein ASBF; beta-alpha barrel, petrobactin
synthesis, ASB locus, structu genomics, PSI-2, protein
structure initiative; HET: MSE DHB TRS; 2.12A {Bacillus
anthracis}
Length = 286
Score = 27.4 bits (61), Expect = 3.3
Identities = 16/87 (18%), Positives = 32/87 (36%), Gaps = 13/87 (14%)
Query: 96 LDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNV---LGDKGRRIRELTSVVQKRF 152
+ + + E+G+ G+E+ T A+ + T+ L DK I ++
Sbjct: 17 FTDIV-QFAYENGFEGIELWGTHAQNLYMQEYETTERELNCLKDKTLEITMISD------ 69
Query: 153 KFADGAIELYAEKV--ATRGLCAIAQA 177
+ D ++ EK L +A
Sbjct: 70 -YLDISLSADFEKTIEKCEQLAILANW 95
>3ntt_A Capsid protein; gene therapy vector, cystic fibros sialic acid
receptor, icosahedral virus; 3.45A {Adeno-associated
virus - 5}
Length = 724
Score = 27.5 bits (60), Expect = 4.5
Identities = 9/43 (20%), Positives = 10/43 (23%), Gaps = 2/43 (4%)
Query: 8 ETTRSGQHANKGQEWPISTRYITTPWRPGPGVPTTPLTQTISN 50
G NK + Y W PGP T
Sbjct: 441 TNNTGGVQFNKNLAGRYANTY--KNWFPGPMGRTQGWNLGSGV 481
>2g8g_A Capsid; adeno-associated virus serotype 4, gene therapy,
icosahedral virus; HET: D5M; 3.20A {Adeno-associated
virus - 4}
Length = 524
Score = 27.4 bits (60), Expect = 4.7
Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 4 LWKMETTRSGQHANKGQEWPISTRYITT-------PWRPGPGVPTTPLTQTISN 50
LW +++T +G N G T+ T W PGP + ++T +
Sbjct: 226 LWGLQSTTTGTTLNAGTATTNFTKLRPTNFSNFKKNWLPGPSIKQQGFSKTANQ 279
>3ng9_A Capsid protein; beta barrel, single-stranded DNA V parvovirus,
icosahedral virus; HET: ADE; 2.50A {Adeno-associated
virus - 1} PDB: 3kic_A* 3kie_A* 3oah_A* 1vu0_U 1vu1_o
3tsx_A 3shm_A 1lp3_A 2qa0_A 3ra2_A 3ra4_A* 3ra8_A*
3ra9_A* 3raa_A* 3ux1_A
Length = 736
Score = 27.2 bits (59), Expect = 4.9
Identities = 10/54 (18%), Positives = 17/54 (31%), Gaps = 4/54 (7%)
Query: 5 WKMETTRSGQHANKGQEW----PISTRYITTPWRPGPGVPTTPLTQTISNGATV 54
+SG NK + P W PGP +++T ++
Sbjct: 446 LNRTQNQSGSAQNKDLLFSRGSPAGMSVQPKNWLPGPCYRQQRVSKTKTDNNNS 499
>2ab1_A Hypothetical protein; HS.95870, DUF498, structural genomics,
protein structure INI PSI, center for eukaryotic
structural genomics, CESG; 2.59A {Homo sapiens} SCOP:
c.103.1.1 PDB: 2q4q_A
Length = 122
Score = 26.4 bits (58), Expect = 5.0
Identities = 9/49 (18%), Positives = 16/49 (32%), Gaps = 8/49 (16%)
Query: 93 RAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRI 141
++ L + G V + T A + N L +G R+
Sbjct: 74 ALKVPSSTVEYLKKHGI-DVRVLQTEQ-------AVKEYNALVAQGVRV 114
>3m8j_A FOCB protein; all-alpha, helix-turn-helix, transcription; 1.40A
{Escherichia coli}
Length = 111
Score = 26.1 bits (57), Expect = 5.2
Identities = 17/73 (23%), Positives = 29/73 (39%), Gaps = 6/73 (8%)
Query: 114 IRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQKRFKFADGAIELYAEKVA------ 167
I + ++ +I+A + V G + + E + F G + VA
Sbjct: 39 IGISSIHSDRVILAMKDYLVSGHSRKDVCEKYQMNNGYFSTTLGRLTRLNVLVARLAPYY 98
Query: 168 TRGLCAIAQAESL 180
T + AIA+A SL
Sbjct: 99 TDSVSAIAEAASL 111
>3af5_A Putative uncharacterized protein PH1404; archaeal CPSF, beta-CAsp
family, KH domain, ribonuclease, ME beta-lactamase
superfamily, archaea; 2.60A {Pyrococcus horikoshii} PDB:
3af6_A*
Length = 651
Score = 26.9 bits (60), Expect = 5.8
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 113 EIRFTPARTEIIIMATRTQNVLGDKGRRIRELTS 146
I F P+ E++I A + V+G G +R +T
Sbjct: 101 NIAFDPSVGEVLIEAKKPGLVIGKNGETLRLITQ 134
>2xr1_A Cleavage and polyadenylation specificity factor 1 subunit;
hydrolase, metallo-beta-lactamase, beta-CAsp, RNA
processing; 2.59A {Methanosarcina mazei}
Length = 640
Score = 26.9 bits (60), Expect = 6.0
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 113 EIRFTPARTEIIIMATRTQNVLGDKGRRIRELTS 146
F P E+II A + V+G G +RE+T
Sbjct: 96 SYYFDPDSGEVIIEAEKPGLVIGKHGATLREITK 129
>2ycb_A Beta-CAsp RNAse, cleavage and polyadenylation specificity factor;
hydrolase, KH, metallo-beta-lactamase; 3.10A
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 636
Score = 26.9 bits (60), Expect = 6.2
Identities = 11/34 (32%), Positives = 15/34 (44%)
Query: 113 EIRFTPARTEIIIMATRTQNVLGDKGRRIRELTS 146
I F E+II A + V+G G RE+
Sbjct: 92 NISFDDVTCEVIIEARKPGLVIGKYGSTSREIVK 125
>1cd1_A CD1, MCD1D.1; immunology, MHC, TCR, glycoprotein, signal,
immunoglobulin fold, T-cell; 2.67A {Mus musculus} SCOP:
b.1.1.2 d.19.1.1
Length = 315
Score = 26.4 bits (59), Expect = 6.6
Identities = 2/21 (9%), Positives = 5/21 (23%)
Query: 20 QEWPISTRYITTPWRPGPGVP 40
Q+ + R +
Sbjct: 1 QQKNYTFRCLQMSSFANRSWS 21
>2hk0_A D-psicose 3-epimerase; TIM-barrel, isomerase; 2.00A {Agrobacterium
tumefaciens} PDB: 2hk1_A*
Length = 309
Score = 26.4 bits (58), Expect = 9.1
Identities = 6/37 (16%), Positives = 16/37 (43%), Gaps = 4/37 (10%)
Query: 78 LSICVSLQFVADGVFRAELDEFLTRELAEDGYSGVEI 114
I S + A+ ++ ++A+ G+ +E+
Sbjct: 23 HGIYYSYWE---HEWSAKFGPYI-EKVAKLGFDIIEV 55
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.136 0.403
Gapped
Lambda K H
0.267 0.0659 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,277,588
Number of extensions: 193843
Number of successful extensions: 429
Number of sequences better than 10.0: 1
Number of HSP's gapped: 429
Number of HSP's successfully gapped: 40
Length of query: 218
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 128
Effective length of database: 4,188,903
Effective search space: 536179584
Effective search space used: 536179584
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: 55 (25.1 bits)