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= 032864
(132 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 = 196 bits (499), Expect = 3e-51, Method: Compositional matrix adjust.
Identities = 89/123 (72%), Positives = 102/123 (82%)
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 LDR 123
+DR
Sbjct: 121 IDR 123
Score = 33.5 bits (75), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 45/85 (52%), Gaps = 4/85 (4%)
Query: 39 EAELADV--IPVVKTSIGGNRIIGRLC-VGNKNGLLLPHTTTDQELQHLRNSLPDQVVVQ 95
E ++DV + V + +I GN ++G C + N+ GL+ P T+ Q+ + L + L +V
Sbjct: 126 EELISDVLGVEVFRQTISGNILVGSYCSLSNQGGLVHPQTSV-QDQEELSSLLQVPLVAG 184
Query: 96 RIEERLSALGNCIACNDHVALAHTD 120
+ S +G + ND++A+ D
Sbjct: 185 TVNRGSSVVGAGMVVNDYLAVTGLD 209
>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 = 196 bits (497), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 89/123 (72%), Positives = 102/123 (82%)
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 LDR 123
+DR
Sbjct: 121 IDR 123
Score = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 45/85 (52%), Gaps = 4/85 (4%)
Query: 39 EAELADV--IPVVKTSIGGNRIIGRLC-VGNKNGLLLPHTTTDQELQHLRNSLPDQVVVQ 95
E ++DV + V + +I GN ++G C + N+ GL+ P T+ Q+ + L + L +V
Sbjct: 126 EELISDVLGVEVFRQTISGNILVGSYCSLSNQGGLVHPQTSV-QDQEELSSLLQVPLVAG 184
Query: 96 RIEERLSALGNCIACNDHVALAHTD 120
+ S +G + ND++A+ D
Sbjct: 185 TVNRGSSVVGAGMVVNDYLAVTGLD 209
>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 = 171 bits (434), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 80/123 (65%), Positives = 100/123 (81%)
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 LDR 123
LDR
Sbjct: 124 LDR 126
Score = 30.8 bits (68), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 32/75 (42%)
Query: 46 IPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALG 105
+ V +T+I N ++G CV N G L+ + +EL L N L + I +G
Sbjct: 138 VEVFRTTIANNVLVGTYCVINNRGGLVHPLASVEELDELANLLQIPLCAGTINRGSDVIG 197
Query: 106 NCIACNDHVALAHTD 120
+ ND A D
Sbjct: 198 AGLVVNDWAAFCGLD 212
>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 = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 42/127 (33%), Positives = 66/127 (51%), Gaps = 11/127 (8%)
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 IIGRLCVGNKNGLLLPHTTTDQELQHLRNSLPD---QVVVQRIEERLSALGNCIACNDHV 114
++G L V NK GLLLP D+EL ++N L + + V+ I+ + +ALGN I ND
Sbjct: 58 LVGSLSVANKYGLLLPKIVEDEELDRIKNFLKENNLDLNVEIIKSKNTALGNLILTNDKG 117
Query: 115 ALAHTDL 121
AL +L
Sbjct: 118 ALISPEL 124
>pdb|4ADX|I Chain I, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 222
Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/118 (30%), Positives = 60/118 (50%), Gaps = 5/118 (4%)
Query: 1 MATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIG 60
M R+ + +GV+ +T++ L+ E F L + V+K SI G+ + G
Sbjct: 1 MIRRINLSGNPNLGVYISVTDSVALIPQNTPEKFEGVLREALE--VEVLKVSISGSSLNG 58
Query: 61 RLCVGNKNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAH 118
L VGN NG ++ + D+E+ L + + V RI ER +A+GN + ND+ A+A
Sbjct: 59 ALAVGNSNGFVVSNQAMDREIDALAAAGVEAV---RIPERFTAVGNLVLANDNGAVAS 113
Score = 25.8 bits (55), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 55 GNRIIGRLCVGNKNGLLLPHTTTDQELQHLRNSL 88
G +IG V N NG+L+ TT EL + +L
Sbjct: 184 GVTLIGACSVANSNGVLVGEETTGPELARIEEAL 217
>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 = 30.4 bits (67), Expect = 0.28, 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|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 = 30.4 bits (67), Expect = 0.29, 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 = 30.4 bits (67), Expect = 0.29, Method: Composition-based stats.
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|3V9F|A Chain A, Crystal Structure Of The Extracellular Domain Of The
Putative Hybrid Two Component System Bt3049 From B.
Thetaiotaomicron
pdb|3V9F|B Chain B, Crystal Structure Of The Extracellular Domain Of The
Putative Hybrid Two Component System Bt3049 From B.
Thetaiotaomicron
pdb|3V9F|C Chain C, Crystal Structure Of The Extracellular Domain Of The
Putative Hybrid Two Component System Bt3049 From B.
Thetaiotaomicron
pdb|3V9F|D Chain D, Crystal Structure Of The Extracellular Domain Of The
Putative Hybrid Two Component System Bt3049 From B.
Thetaiotaomicron
Length = 781
Score = 27.7 bits (60), Expect = 1.8, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 47 PVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQHLRNSL 88
PVV T + RI GRL KN +P + + EL H +NS
Sbjct: 665 PVVITKV---RIPGRLTSREKNETAIPISEGEIELTHEQNSF 703
>pdb|2X3E|A Chain A, Crystal Structure Of 3-Oxoacyl-(Acyl Carrier Protein)
Synthase Iii, Fabh From Pseudomonas Aeruginosa Pao1
pdb|2X3E|B Chain B, Crystal Structure Of 3-Oxoacyl-(Acyl Carrier Protein)
Synthase Iii, Fabh From Pseudomonas Aeruginosa Pao1
Length = 331
Score = 26.2 bits (56), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 71 LLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAH 118
L+PH + L + + L + V+R+ ++ +GN +A + +ALAH
Sbjct: 247 LVPHQANTRILAAVADQL--DLPVERVVSNIAEVGNTVAASIPLALAH 292
>pdb|2PMV|A Chain A, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
pdb|2PMV|B Chain B, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
pdb|2PMV|C Chain C, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
pdb|2PMV|D Chain D, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
Length = 399
Score = 26.2 bits (56), Expect = 6.3, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 20/42 (47%)
Query: 19 LTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIG 60
LT + + +G E + S F L D++ + I N IIG
Sbjct: 162 LTCMYNKIPVGSEEGYRSLFGQVLKDIVEKISMKIKDNGIIG 203
>pdb|4DVY|P Chain P, Crystal Structure Of The Helicobacter Pylori Caga
Oncoprotein
Length = 876
Score = 25.8 bits (55), Expect = 7.2, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 4/62 (6%)
Query: 67 KNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRVML 126
KNG + Q L NS+ D ++ Q++ +++ L ++ VA A D RV
Sbjct: 755 KNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVS----VAKAMGDFSRVEQ 810
Query: 127 LL 128
+L
Sbjct: 811 VL 812
>pdb|4G0H|A Chain A, Crystal Structure Of The N-Terminal Domain Of Helicobacter
Pylori Caga Protein
Length = 916
Score = 25.8 bits (55), Expect = 7.2, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 4/62 (6%)
Query: 67 KNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRVML 126
KNG + Q L NS+ D ++ Q++ +++ L ++ VA A D RV
Sbjct: 755 KNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVS----VAKAMGDFSRVEQ 810
Query: 127 LL 128
+L
Sbjct: 811 VL 812
>pdb|4DVZ|A Chain A, Crystal Structure Of The Helicobacter Pylori Caga
Oncoprotein
Length = 569
Score = 25.8 bits (55), Expect = 7.2, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 4/62 (6%)
Query: 67 KNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRVML 126
KNG + Q L NS+ D ++ Q++ +++ L ++ VA A D RV
Sbjct: 495 KNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVS----VAKAMGDFSRVEQ 550
Query: 127 LL 128
+L
Sbjct: 551 VL 552
>pdb|3KQ4|A Chain A, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
pdb|3KQ4|C Chain C, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
pdb|3KQ4|E Chain E, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
Length = 393
Score = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 21/44 (47%)
Query: 19 LTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRL 62
LT + + +G E + S F L D++ + I N IIG +
Sbjct: 156 LTCMYNKIPVGSEEGYRSLFGQVLKDIVEKISMKIKDNGIIGDI 199
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
0.323 0.137 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,593,685
Number of Sequences: 62578
Number of extensions: 130683
Number of successful extensions: 231
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 213
Number of HSP's gapped (non-prelim): 22
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 46 (22.3 bits)