BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 027273
(225 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3J2I|B Chain B, Structure Of Late Pre-60s Ribosomal Subunits With Nuclear
Export Factor Arx1 Bound At The Peptide Exit Tunnel
Length = 245
Score = 320 bits (819), Expect = 5e-88, Method: Compositional matrix adjust.
Identities = 153/232 (65%), Positives = 186/232 (80%), Gaps = 9/232 (3%)
Query: 2 ICMYKILLNEYCI---------HSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLL 52
I ++ L N YC+ +S FEAEL D IP+V T+I G RIIGR+ GN+ GLL+
Sbjct: 13 IGVFSKLTNTYCLVAVGGSENFYSAFEAELGDAIPIVHTTIAGTRIIGRMTAGNRRGLLV 72
Query: 53 PHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADV 112
P TTDQELQHLRNSLPD V +QR+EERLSALGN I CND+VAL H D+DRETEE+I+DV
Sbjct: 73 PTQTTDQELQHLRNSLPDSVKIQRVEERLSALGNVICCNDYVALVHPDIDRETEELISDV 132
Query: 113 LGVEVFRQTIAGNILVGSYCSFSNRGGLVHPHTSIEDLDELSTLLQVPLVAGTVNRGSEV 172
LGVEVFRQTI+GNILVGSYCS SN+GGLVHP TS++D +ELS+LLQVPLVAGTVNRGS V
Sbjct: 133 LGVEVFRQTISGNILVGSYCSLSNQGGLVHPQTSVQDQEELSSLLQVPLVAGTVNRGSSV 192
Query: 173 IGAGLTVNDWTAFCGSDTTATELSVIESVFKLREAQPNAIVDEMRKSLIDSY 224
+GAG+ VND+ A G DTTA ELSVIES+F+L++AQP +I +R +LI++Y
Sbjct: 193 VGAGMVVNDYLAVTGLDTTAPELSVIESIFRLQDAQPESISGNLRDTLIETY 244
>pdb|1G62|A Chain A, Crystal Structure Of S.Cerevisiae Eif6
pdb|2X7N|B Chain B, Mechanism Of Eif6s Anti-Association Activity
Length = 224
Score = 300 bits (768), Expect = 4e-82, Method: Compositional matrix adjust.
Identities = 145/212 (68%), Positives = 171/212 (80%), Gaps = 9/212 (4%)
Query: 2 ICMYKILLNEYCI---------HSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLL 52
I ++ L N YC+ +S FEAEL D IP+V T+I G RIIGR+ GN+ GLL+
Sbjct: 13 IGVFSKLTNTYCLVAVGGSENFYSAFEAELGDAIPIVHTTIAGTRIIGRMTAGNRRGLLV 72
Query: 53 PHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADV 112
P TTDQELQHLRNSLPD V +QR+EERLSALGN I CND+VAL H D+DRETEE+I+DV
Sbjct: 73 PTQTTDQELQHLRNSLPDSVKIQRVEERLSALGNVICCNDYVALVHPDIDRETEELISDV 132
Query: 113 LGVEVFRQTIAGNILVGSYCSFSNRGGLVHPHTSIEDLDELSTLLQVPLVAGTVNRGSEV 172
LGVEVFRQTI+GNILVGSYCS SN+GGLVHP TS++D +ELS+LLQVPLVAGTVNRGS V
Sbjct: 133 LGVEVFRQTISGNILVGSYCSLSNQGGLVHPQTSVQDQEELSSLLQVPLVAGTVNRGSSV 192
Query: 173 IGAGLTVNDWTAFCGSDTTATELSVIESVFKL 204
+GAG+ VND+ A G DTTA ELSVIES+F+L
Sbjct: 193 VGAGMVVNDYLAVTGLDTTAPELSVIESIFRL 224
>pdb|4A18|J Chain J, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 1
pdb|4A1B|J Chain J, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 3.
pdb|4A1D|J Chain J, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 4.
pdb|4A19|J Chain J, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 2
Length = 248
Score = 292 bits (748), Expect = 8e-80, Method: Compositional matrix adjust.
Identities = 137/208 (65%), Positives = 170/208 (81%)
Query: 14 IHSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQHLRNSLPDQVV 73
+S FE+EL IPV+ TSIGG RI+GR+ GNKNGLL+P+T D EL+++RNSLPD V
Sbjct: 37 FYSVFESELVPHIPVIHTSIGGTRIVGRVTCGNKNGLLVPNTCNDNELRNIRNSLPDNVR 96
Query: 74 VQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCS 133
V+RIEE+LSALGNC+ ND+VAL H DLDRE+EEIIAD LGVEVFR TIA N+LVG+YC
Sbjct: 97 VRRIEEKLSALGNCVVANDYVALIHPDLDRESEEIIADTLGVEVFRTTIANNVLVGTYCV 156
Query: 134 FSNRGGLVHPHTSIEDLDELSTLLQVPLVAGTVNRGSEVIGAGLTVNDWTAFCGSDTTAT 193
+NRGGLVHP S+E+LDEL+ LLQ+PL AGT+NRGS+VIGAGL VNDW AFCG DTT+T
Sbjct: 157 INNRGGLVHPLASVEELDELANLLQIPLCAGTINRGSDVIGAGLVVNDWAAFCGLDTTST 216
Query: 194 ELSVIESVFKLREAQPNAIVDEMRKSLI 221
E+SV+E++FKL E + + +EMRK +
Sbjct: 217 EISVVENIFKLNEMKDENMDNEMRKDFV 244
>pdb|1G61|A Chain A, Crystal Structure Of M.Jannaschii Eif6
pdb|1G61|B Chain B, Crystal Structure Of M.Jannaschii Eif6
Length = 228
Score = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 69/180 (38%), Positives = 102/180 (56%), Gaps = 5/180 (2%)
Query: 29 VKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQHLRNSLPDQ---VVVQRIEERLSALG 85
++T+IGG+ ++G L V NK GLLLP D+EL ++N L + + V+ I+ + +ALG
Sbjct: 49 LQTNIGGSSLVGSLSVANKYGLLLPKIVEDEELDRIKNFLKENNLDLNVEIIKSKNTALG 108
Query: 86 NCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVHPHT 145
N I ND AL +L ++ ++ I D L VEV TIA VGS +N+G L HP
Sbjct: 109 NLILTNDKGALISPEL-KDFKKDIEDSLNVEVEIGTIAELPTVGSNAVVTNKGCLTHPLV 167
Query: 146 SIEDLDELSTLLQVPLVA-GTVNRGSEVIGAGLTVNDWTAFCGSDTTATELSVIESVFKL 204
++L+ L +L +V + GT N+G+ +GA + N A G DTT EL +IE L
Sbjct: 168 EDDELEFLKSLFKVEYIGKGTANKGTTSVGACIIANSKGAVVGGDTTGPELLIIEDALGL 227
Score = 30.4 bits (67), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 44/88 (50%), Gaps = 2/88 (2%)
Query: 72 VVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSY 131
+++++ + +G + + L LD++ +++VL + + I G+ LVGS
Sbjct: 3 MIIRKYFSGIPTIGVLALTTEEITLLPIFLDKDDVNEVSEVLETKCLQTNIGGSSLVGSL 62
Query: 132 CSFSNRGGLVHPH-TSIEDLDELSTLLQ 158
S +N+ GL+ P E+LD + L+
Sbjct: 63 -SVANKYGLLLPKIVEDEELDRIKNFLK 89
>pdb|4ADX|I Chain I, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 222
Score = 103 bits (256), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 66/182 (36%), Positives = 98/182 (53%), Gaps = 3/182 (1%)
Query: 26 IPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALG 85
+ V+K SI G+ + G L VGN NG ++ + D+E+ L + + V RI ER +A+G
Sbjct: 44 VEVLKVSISGSSLNGALAVGNSNGFVVSNQAMDREIDALAAAGVEAV---RIPERFTAVG 100
Query: 86 NCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVHPHT 145
N + ND+ A+A L + ++I DVL V+V T+AG +VGS + +NRG L++P
Sbjct: 101 NLVLANDNGAVASPLLSDDALQVIGDVLEVDVKVSTLAGLNIVGSMGAATNRGALLNPQA 160
Query: 146 SIEDLDELSTLLQVPLVAGTVNRGSEVIGAGLTVNDWTAFCGSDTTATELSVIESVFKLR 205
S E++ + L V GTVN G +IGA N G +TT EL+ IE
Sbjct: 161 SSEEIGIIEDTLGVEADVGTVNHGVTLIGACSVANSNGVLVGEETTGPELARIEEALGFL 220
Query: 206 EA 207
E
Sbjct: 221 EG 222
Score = 30.4 bits (67), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 37/72 (51%)
Query: 84 LGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVHP 143
LG I+ D VAL + + E ++ + L VEV + +I+G+ L G+ ++ G +V
Sbjct: 13 LGVYISVTDSVALIPQNTPEKFEGVLREALEVEVLKVSISGSSLNGALAVGNSNGFVVSN 72
Query: 144 HTSIEDLDELST 155
++D L+
Sbjct: 73 QAMDREIDALAA 84
>pdb|4DVZ|A Chain A, Crystal Structure Of The Helicobacter Pylori Caga
Oncoprotein
Length = 569
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 47 KNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETE 106
KNG + Q L NS+ D ++ Q++ +++ L ++ VA A D R E
Sbjct: 495 KNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVS----VAKAMGDFSR-VE 549
Query: 107 EIIADV 112
+++AD+
Sbjct: 550 QVLADL 555
>pdb|4DVY|P Chain P, Crystal Structure Of The Helicobacter Pylori Caga
Oncoprotein
Length = 876
Score = 28.5 bits (62), Expect = 3.5, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 47 KNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETE 106
KNG + Q L NS+ D ++ Q++ +++ L ++ VA A D R E
Sbjct: 755 KNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVS----VAKAMGDFSR-VE 809
Query: 107 EIIADV 112
+++AD+
Sbjct: 810 QVLADL 815
>pdb|4G0H|A Chain A, Crystal Structure Of The N-Terminal Domain Of Helicobacter
Pylori Caga Protein
Length = 916
Score = 28.5 bits (62), Expect = 3.5, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 47 KNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETE 106
KNG + Q L NS+ D ++ Q++ +++ L ++ VA A D R E
Sbjct: 755 KNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVS----VAKAMGDFSR-VE 809
Query: 107 EIIADV 112
+++AD+
Sbjct: 810 QVLADL 815
>pdb|1HF2|A Chain A, Crystal Structure Of The Bacterial Cell-Division Inhibitor
Minc From T. Maritima
pdb|1HF2|B Chain B, Crystal Structure Of The Bacterial Cell-Division Inhibitor
Minc From T. Maritima
pdb|1HF2|C Chain C, Crystal Structure Of The Bacterial Cell-Division Inhibitor
Minc From T. Maritima
pdb|1HF2|D Chain D, Crystal Structure Of The Bacterial Cell-Division Inhibitor
Minc From T. Maritima
Length = 210
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 30/122 (24%), Positives = 55/122 (45%), Gaps = 21/122 (17%)
Query: 73 VVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADV-----LGVEVFRQTIAGNIL 127
V+ I R++ +G A D ++L + ++ +++I V LG+EV + IL
Sbjct: 24 VLNAISARITQMGGFFAKGDRISLMIENHNKHSQDIPRIVSHLRNLGLEVSQ------IL 77
Query: 128 VGSYCSFSNRGGLVHPHTSIEDLDEL--------STLLQVP--LVAGTVNRGSEVIGAGL 177
VGS V T++E ++ T++ +V G VN+G+E++ G
Sbjct: 78 VGSTVEGKENDLKVQSRTTVESTGKVIKRNIRSGQTVVHSGDVIVFGNVNKGAEILAGGS 137
Query: 178 TV 179
V
Sbjct: 138 VV 139
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.136 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,391,012
Number of Sequences: 62578
Number of extensions: 252209
Number of successful extensions: 621
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 602
Number of HSP's gapped (non-prelim): 13
length of query: 225
length of database: 14,973,337
effective HSP length: 95
effective length of query: 130
effective length of database: 9,028,427
effective search space: 1173695510
effective search space used: 1173695510
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)