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= 026003
(245 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 = 374 bits (960), Expect = e-104, Method: Compositional matrix adjust.
Identities = 175/244 (71%), Positives = 208/244 (85%)
Query: 1 MATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIG 60
MATR FENS E+GVFSKLTN +CLVA+GGSE+FYS FEAEL D IP+V T+I G RIIG
Sbjct: 1 MATRTQFENSNEIGVFSKLTNTYCLVAVGGSENFYSAFEAELGDAIPIVHTTIAGTRIIG 60
Query: 61 RLCVGNKNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTD 120
R+ GN+ GLL+P TTDQELQHLRNSLPD V +QR+EERLSALGN I CND+VAL H D
Sbjct: 61 RMTAGNRRGLLVPTQTTDQELQHLRNSLPDSVKIQRVEERLSALGNVICCNDYVALVHPD 120
Query: 121 LDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVHPHTSIEDLDELSTLLQVP 180
+DRETEE+I+DVLGVEVFRQTI+GNILVGSYCS SN+GGLVHP TS++D +ELS+LLQVP
Sbjct: 121 IDRETEELISDVLGVEVFRQTISGNILVGSYCSLSNQGGLVHPQTSVQDQEELSSLLQVP 180
Query: 181 LVAGTVNRGSEVIGAGLTVNDWTAFCGSDTTATELSVIESVFKLREAQPNAIVDEMRKSL 240
LVAGTVNRGS V+GAG+ VND+ A G DTTA ELSVIES+F+L++AQP +I +R +L
Sbjct: 181 LVAGTVNRGSSVVGAGMVVNDYLAVTGLDTTAPELSVIESIFRLQDAQPESISGNLRDTL 240
Query: 241 IDSY 244
I++Y
Sbjct: 241 IETY 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 = 354 bits (909), Expect = 2e-98, Method: Compositional matrix adjust.
Identities = 167/224 (74%), Positives = 193/224 (86%)
Query: 1 MATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIG 60
MATR FENS E+GVFSKLTN +CLVA+GGSE+FYS FEAEL D IP+V T+I G RIIG
Sbjct: 1 MATRTQFENSNEIGVFSKLTNTYCLVAVGGSENFYSAFEAELGDAIPIVHTTIAGTRIIG 60
Query: 61 RLCVGNKNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTD 120
R+ GN+ GLL+P TTDQELQHLRNSLPD V +QR+EERLSALGN I CND+VAL H D
Sbjct: 61 RMTAGNRRGLLVPTQTTDQELQHLRNSLPDSVKIQRVEERLSALGNVICCNDYVALVHPD 120
Query: 121 LDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVHPHTSIEDLDELSTLLQVP 180
+DRETEE+I+DVLGVEVFRQTI+GNILVGSYCS SN+GGLVHP TS++D +ELS+LLQVP
Sbjct: 121 IDRETEELISDVLGVEVFRQTISGNILVGSYCSLSNQGGLVHPQTSVQDQEELSSLLQVP 180
Query: 181 LVAGTVNRGSEVIGAGLTVNDWTAFCGSDTTATELSVIESVFKL 224
LVAGTVNRGS V+GAG+ VND+ A G DTTA ELSVIES+F+L
Sbjct: 181 LVAGTVNRGSSVVGAGMVVNDYLAVTGLDTTAPELSVIESIFRL 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 = 340 bits (872), Expect = 4e-94, Method: Compositional matrix adjust.
Identities = 159/241 (65%), Positives = 198/241 (82%)
Query: 1 MATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIG 60
MA R FENS ++GVF KLT+A+CLV++G SE+FYS FE+EL IPV+ TSIGG RI+G
Sbjct: 4 MARRCQFENSNDIGVFCKLTSAYCLVSVGASENFYSVFESELVPHIPVIHTSIGGTRIVG 63
Query: 61 RLCVGNKNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTD 120
R+ GNKNGLL+P+T D EL+++RNSLPD V V+RIEE+LSALGNC+ ND+VAL H D
Sbjct: 64 RVTCGNKNGLLVPNTCNDNELRNIRNSLPDNVRVRRIEEKLSALGNCVVANDYVALIHPD 123
Query: 121 LDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVHPHTSIEDLDELSTLLQVP 180
LDRE+EEIIAD LGVEVFR TIA N+LVG+YC +NRGGLVHP S+E+LDEL+ LLQ+P
Sbjct: 124 LDRESEEIIADTLGVEVFRTTIANNVLVGTYCVINNRGGLVHPLASVEELDELANLLQIP 183
Query: 181 LVAGTVNRGSEVIGAGLTVNDWTAFCGSDTTATELSVIESVFKLREAQPNAIVDEMRKSL 240
L AGT+NRGS+VIGAGL VNDW AFCG DTT+TE+SV+E++FKL E + + +EMRK
Sbjct: 184 LCAGTINRGSDVIGAGLVVNDWAAFCGLDTTSTEISVVENIFKLNEMKDENMDNEMRKDF 243
Query: 241 I 241
+
Sbjct: 244 V 244
>pdb|4ADX|I Chain I, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 222
Score = 111 bits (277), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 75/227 (33%), Positives = 115/227 (50%), Gaps = 5/227 (2%)
Query: 1 MATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIG 60
M R+ + +GV+ +T++ L+ E F L + V+K SI G+ + G
Sbjct: 1 MIRRINLSGNPNLGVYISVTDSVALIPQNTPEKFEGVLREALE--VEVLKVSISGSSLNG 58
Query: 61 RLCVGNKNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTD 120
L VGN NG ++ + D+E+ L + + V RI ER +A+GN + ND+ A+A
Sbjct: 59 ALAVGNSNGFVVSNQAMDREIDALAAAGVEAV---RIPERFTAVGNLVLANDNGAVASPL 115
Query: 121 LDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVHPHTSIEDLDELSTLLQVP 180
L + ++I DVL V+V T+AG +VGS + +NRG L++P S E++ + L V
Sbjct: 116 LSDDALQVIGDVLEVDVKVSTLAGLNIVGSMGAATNRGALLNPQASSEEIGIIEDTLGVE 175
Query: 181 LVAGTVNRGSEVIGAGLTVNDWTAFCGSDTTATELSVIESVFKLREA 227
GTVN G +IGA N G +TT EL+ IE E
Sbjct: 176 ADVGTVNHGVTLIGACSVANSNGVLVGEETTGPELARIEEALGFLEG 222
>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 = 107 bits (266), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 80/231 (34%), Positives = 121/231 (52%), Gaps = 13/231 (5%)
Query: 1 MATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEA-ELADVIPV--VKTSIGGNR 57
M R F +GV + T L+ I F + E+++V+ ++T+IGG+
Sbjct: 3 MIIRKYFSGIPTIGVLALTTEEITLLPI-----FLDKDDVNEVSEVLETKCLQTNIGGSS 57
Query: 58 IIGRLCVGNKNGLLLPHTTTDQELQHLRNSLPDQ---VVVQRIEERLSALGNCIACNDHV 114
++G L V NK GLLLP D+EL ++N L + + V+ I+ + +ALGN I ND
Sbjct: 58 LVGSLSVANKYGLLLPKIVEDEELDRIKNFLKENNLDLNVEIIKSKNTALGNLILTNDKG 117
Query: 115 ALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVHPHTSIEDLDELS 174
AL +L ++ ++ I D L VEV TIA VGS +N+G L HP ++L+ L
Sbjct: 118 ALISPEL-KDFKKDIEDSLNVEVEIGTIAELPTVGSNAVVTNKGCLTHPLVEDDELEFLK 176
Query: 175 TLLQVPLVA-GTVNRGSEVIGAGLTVNDWTAFCGSDTTATELSVIESVFKL 224
+L +V + GT N+G+ +GA + N A G DTT EL +IE L
Sbjct: 177 SLFKVEYIGKGTANKGTTSVGACIIANSKGAVVGGDTTGPELLIIEDALGL 227
>pdb|3C2W|A Chain A, Crystal Structure Of The Photosensory Core Domain Of P.
Aeruginosa Bacteriophytochrome Pabphp In The Pfr State
pdb|3C2W|B Chain B, Crystal Structure Of The Photosensory Core Domain Of P.
Aeruginosa Bacteriophytochrome Pabphp In The Pfr State
pdb|3C2W|C Chain C, Crystal Structure Of The Photosensory Core Domain Of P.
Aeruginosa Bacteriophytochrome Pabphp In The Pfr State
pdb|3C2W|D Chain D, Crystal Structure Of The Photosensory Core Domain Of P.
Aeruginosa Bacteriophytochrome Pabphp In The Pfr State
pdb|3C2W|E Chain E, Crystal Structure Of The Photosensory Core Domain Of P.
Aeruginosa Bacteriophytochrome Pabphp In The Pfr State
pdb|3C2W|F Chain F, Crystal Structure Of The Photosensory Core Domain Of P.
Aeruginosa Bacteriophytochrome Pabphp In The Pfr State
pdb|3C2W|G Chain G, Crystal Structure Of The Photosensory Core Domain Of P.
Aeruginosa Bacteriophytochrome Pabphp In The Pfr State
pdb|3C2W|H Chain H, Crystal Structure Of The Photosensory Core Domain Of P.
Aeruginosa Bacteriophytochrome Pabphp In The Pfr State
pdb|3NHQ|A Chain A, The Dark Pfr Structure Of The Photosensory Core Module Of
P. Aeruginosa Bacteriophytochrome
pdb|3NHQ|B Chain B, The Dark Pfr Structure Of The Photosensory Core Module Of
P. Aeruginosa Bacteriophytochrome
pdb|3NHQ|C Chain C, The Dark Pfr Structure Of The Photosensory Core Module Of
P. Aeruginosa Bacteriophytochrome
pdb|3NHQ|D Chain D, The Dark Pfr Structure Of The Photosensory Core Module Of
P. Aeruginosa Bacteriophytochrome
pdb|3NHQ|E Chain E, The Dark Pfr Structure Of The Photosensory Core Module Of
P. Aeruginosa Bacteriophytochrome
pdb|3NHQ|F Chain F, The Dark Pfr Structure Of The Photosensory Core Module Of
P. Aeruginosa Bacteriophytochrome
pdb|3NHQ|G Chain G, The Dark Pfr Structure Of The Photosensory Core Module Of
P. Aeruginosa Bacteriophytochrome
pdb|3NHQ|H Chain H, The Dark Pfr Structure Of The Photosensory Core Module Of
P. Aeruginosa Bacteriophytochrome
pdb|3NOP|C Chain C, Light-Induced Intermediate Structure L1 Of Pseudomonas
Aeruginosa Bacteriophytochrome
pdb|3NOT|C Chain C, Light-Induced Intermediate Structure L2 Of P. Aeruginosa
Bacteriophytochrome
pdb|3NOU|C Chain C, Light-Induced Intermediate Structure L3 Of P. Aeruginosa
Bacteriophytochrome
Length = 505
Score = 31.2 bits (69), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 36/138 (26%), Positives = 57/138 (41%), Gaps = 17/138 (12%)
Query: 7 FENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGN 66
+ NS E + L F ++ E FY FE AD + + ++ RII ++ + N
Sbjct: 82 WSNSVETRIGEHL---FDVIGHSYKEVFYLEFEIRTADTLSITSFTLNAQRIIAQVQLHN 138
Query: 67 KNGLLLPHTTTDQELQHL-----------RNSLPDQVVVQ-RIEERLSALGNCIACNDHV 114
LL + T EL+ + R+ +VV + R E+ S LG +D
Sbjct: 139 DTASLLSNVT--DELRRMTGYDRVMAYRFRHDDSGEVVAESRREDLESYLGQRYPASDIP 196
Query: 115 ALAHTDLDRETEEIIADV 132
A A + +IADV
Sbjct: 197 AQARRLYIQNPIRLIADV 214
>pdb|3G6O|A Chain A, Crystal Structure Of P. Aeruginosa Bacteriophytochrome
Pabphp Photosensory Core Domain Mutant Q188l
pdb|3G6O|B Chain B, Crystal Structure Of P. Aeruginosa Bacteriophytochrome
Pabphp Photosensory Core Domain Mutant Q188l
Length = 505
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 32/72 (44%), Gaps = 3/72 (4%)
Query: 7 FENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGN 66
+ NS E + L F ++ E FY FE AD + + ++ RII ++ + N
Sbjct: 82 WSNSVETRIGEHL---FDVIGHSYKEVFYLEFEIRTADTLSITSFTLNAQRIIAQVQLHN 138
Query: 67 KNGLLLPHTTTD 78
LL + T +
Sbjct: 139 DTASLLSNVTDE 150
>pdb|3IBR|A Chain A, Crystal Structure Of P. Aeruginosa Bacteriophytochrome
Photosensory Core Module Mutant Q188l In The Mixed PrPFR
STATE
pdb|3IBR|B Chain B, Crystal Structure Of P. Aeruginosa Bacteriophytochrome
Photosensory Core Module Mutant Q188l In The Mixed PrPFR
STATE
Length = 505
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 32/72 (44%), Gaps = 3/72 (4%)
Query: 7 FENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGN 66
+ NS E + L F ++ E FY FE AD + + ++ RII ++ + N
Sbjct: 82 WSNSVETRIGEHL---FDVIGHSYKEVFYLEFEIRTADTLSITSFTLNAQRIIAQVQLHN 138
Query: 67 KNGLLLPHTTTD 78
LL + T +
Sbjct: 139 DTASLLSNVTDE 150
>pdb|4DVY|P Chain P, Crystal Structure Of The Helicobacter Pylori Caga
Oncoprotein
Length = 876
Score = 28.1 bits (61), Expect = 4.4, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 67 KNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETE 126
KNG + Q L NS+ D ++ Q++ +++ L ++ VA A D R E
Sbjct: 755 KNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVS----VAKAMGDFSR-VE 809
Query: 127 EIIADV 132
+++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 = 28.1 bits (61), Expect = 4.4, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 67 KNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETE 126
KNG + Q L NS+ D ++ Q++ +++ L ++ VA A D R E
Sbjct: 755 KNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVS----VAKAMGDFSR-VE 809
Query: 127 EIIADV 132
+++AD+
Sbjct: 810 QVLADL 815
>pdb|4DVZ|A Chain A, Crystal Structure Of The Helicobacter Pylori Caga
Oncoprotein
Length = 569
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 67 KNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETE 126
KNG + Q L NS+ D ++ Q++ +++ L ++ VA A D R E
Sbjct: 495 KNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVS----VAKAMGDFSR-VE 549
Query: 127 EIIADV 132
+++AD+
Sbjct: 550 QVLADL 555
>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 = 27.3 bits (59), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 30/122 (24%), Positives = 55/122 (45%), Gaps = 21/122 (17%)
Query: 93 VVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADV-----LGVEVFRQTIAGNIL 147
V+ I R++ +G A D ++L + ++ +++I V LG+EV + IL
Sbjct: 24 VLNAISARITQMGGFFAKGDRISLMIENHNKHSQDIPRIVSHLRNLGLEVSQ------IL 77
Query: 148 VGSYCSFSNRGGLVHPHTSIEDLDEL--------STLLQVP--LVAGTVNRGSEVIGAGL 197
VGS V T++E ++ T++ +V G VN+G+E++ G
Sbjct: 78 VGSTVEGKENDLKVQSRTTVESTGKVIKRNIRSGQTVVHSGDVIVFGNVNKGAEILAGGS 137
Query: 198 TV 199
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
0.319 0.135 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,820,848
Number of Sequences: 62578
Number of extensions: 270515
Number of successful extensions: 638
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 617
Number of HSP's gapped (non-prelim): 12
length of query: 245
length of database: 14,973,337
effective HSP length: 96
effective length of query: 149
effective length of database: 8,965,849
effective search space: 1335911501
effective search space used: 1335911501
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)