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= 045491
(241 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3U5C|B Chain B, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|B Chain B, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 255
Score = 274 bits (701), Expect = 2e-74, Method: Compositional matrix adjust.
Identities = 133/231 (57%), Positives = 169/231 (73%), Gaps = 1/231 (0%)
Query: 2 DPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLLNEEEHAY 61
DPF +K+W+DIKAPS F RNVGKTLV ++ G K AS+ LK RV EV L DL E+H++
Sbjct: 22 DPFTRKEWFDIKAPSTFENRNVGKTLVNKSTGLKSASDALKGRVVEVCLADLQGSEDHSF 81
Query: 62 RKIRLRAEDVQGKNVLTNFWGMNFTTDKLRSLVRKWHTLIEAYVDVKTTDNFTLRLFCIG 121
RKI+LR ++VQGKN+LTNF GM+FTTDKLRS+VRKW TLIEA V VKT+D++ LR+F I
Sbjct: 82 RKIKLRVDEVQGKNLLTNFHGMDFTTDKLRSMVRKWQTLIEANVTVKTSDDYVLRIFAIA 141
Query: 122 FTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVEKFIAEVIGREIEKAT 181
FT++ NQVKR YAQ+S IR IR+ + EI+ + L L K I EVI +EIE AT
Sbjct: 142 FTRKQANQVKRHSYAQSSHIRAIRKVISEILTKEVQGSTLAQLTSKLIPEVINKEIENAT 201
Query: 182 SSIYPLQNVFIRKVKILKAPKFDLGKLMEVHGDYS-EDVGVKVDRPADEPM 231
I+PLQN+ +RKVK+LK PKFD+G LM +HG+ S E+ G KV DE +
Sbjct: 202 KDIFPLQNIHVRKVKLLKQPKFDVGALMALHGEGSGEEKGKKVTGFKDEVL 252
>pdb|2XZM|4 Chain 4, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|4 Chain 4, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 2
Length = 265
Score = 199 bits (505), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 96/216 (44%), Positives = 143/216 (66%), Gaps = 4/216 (1%)
Query: 2 DPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLL-NEEEHA 60
DP ++K+WYD +AP F ++ GKTLVT++ G +IASE +K RV E +L DL N + A
Sbjct: 24 DPLSRKEWYDFRAPIPFSSKSFGKTLVTKSSGNRIASEEIKGRVVESTLADLKDNSNDKA 83
Query: 61 YRKIRLRAEDVQGKNVLTNFWGMNFTTDKLRSLVRKWHTLIEAYVDVKTTDNFTLRLFCI 120
+RK++L ++V G+N T+F+G++ T D+L S++RKW TLIEA VD KT D + +R+F +
Sbjct: 84 WRKVKLVIDEVDGRNAKTSFYGLDITRDRLCSMIRKWQTLIEARVDCKTNDGYIIRVFTL 143
Query: 121 GFTKRLP---NQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVEKFIAEVIGREI 177
FTK+ TCYA++SQ+R IRRK+ + +AA + + I E ++I
Sbjct: 144 AFTKKTSAGKQSSTSTCYAKSSQVRAIRRKINTFITNEAAKLGIAEFSKNLIGEDYTKKI 203
Query: 178 EKATSSIYPLQNVFIRKVKILKAPKFDLGKLMEVHG 213
EK T +I+PLQN+ IRKVK+LK PK D K+ E++
Sbjct: 204 EKETKNIFPLQNITIRKVKVLKRPKLDATKIAELYS 239
>pdb|3ZEY|0 Chain 0, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 256
Score = 183 bits (464), Expect = 7e-47, Method: Compositional matrix adjust.
Identities = 88/215 (40%), Positives = 137/215 (63%), Gaps = 2/215 (0%)
Query: 2 DPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDL--LNEEEH 59
+ ++K+WYD+ AP F VR KT+ +TQGTKIA++ L+ RV+E +L DL E+
Sbjct: 22 EAMSRKEWYDVVAPKNFEVRQFAKTICNKTQGTKIAADFLRGRVYEGNLADLNKTQNEDD 81
Query: 60 AYRKIRLRAEDVQGKNVLTNFWGMNFTTDKLRSLVRKWHTLIEAYVDVKTTDNFTLRLFC 119
AYRK++ ++VQG+N+LT F GM+ T+D++ L+RKW T IEA V+ KT D + LRLF
Sbjct: 82 AYRKVKFTVQEVQGRNLLTQFHGMDMTSDRVYYLLRKWCTTIEATVEAKTADGYGLRLFL 141
Query: 120 IGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVEKFIAEVIGREIEK 179
I FTK+ NQ+ + CYA+T ++ +R + I+ + A D+ V ++ + K
Sbjct: 142 IAFTKKQENQLSKNCYAKTRLVKWVRMRATNIIRRRLAKLDINDAVSLLTRNILRDRLAK 201
Query: 180 ATSSIYPLQNVFIRKVKILKAPKFDLGKLMEVHGD 214
+ I PL+++ IRKVK+++ PKFD L+ HG+
Sbjct: 202 RCNPIIPLRDLRIRKVKVIRTPKFDAQALIAAHGE 236
>pdb|3J20|A Chain A, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (30s Ribosomal Subunit)
Length = 198
Score = 98.6 bits (244), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 66/201 (32%), Positives = 98/201 (48%), Gaps = 16/201 (7%)
Query: 2 DPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLLNEEEHAY 61
D + K WY I AP F VG T E + +RV EV+L D+ + ++
Sbjct: 11 DKWKLKQWYIIYAPDFFGGVEVGLTPAD-------DPEKVLNRVVEVTLKDVTGDFTKSH 63
Query: 62 RKIRLRAEDVQGKNVLTNFWGMNFTTDKLRSLVRKWHTLIEAYVDVKTTDNFTLRLFCIG 121
K+ + DV+G+N T F GM +RSLVR+ T I+ ++ T D + LR+ +
Sbjct: 64 VKLYFQVYDVKGQNAYTKFKGMKLARSYIRSLVRRKTTRIDGIFNITTKDGYKLRVMAMA 123
Query: 122 FTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVEKFIAEVIGREIEKAT 181
R QTSQ R IR+ M+EI+ +A + K V + + I EI K
Sbjct: 124 IAMRR---------IQTSQERAIRKIMQEIIYKKAEELNFKDFVLESVNGKIAAEIAKEA 174
Query: 182 SSIYPLQNVFIRKVKILKAPK 202
IYPL+ IRK+K+L+ P+
Sbjct: 175 KKIYPLRKAEIRKIKVLEEPQ 195
>pdb|3BIC|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase
pdb|3BIC|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Mutase
pdb|2XIJ|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
Complex With Adenosylcobalamin
pdb|2XIQ|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
Complex With Adenosylcobalamin And Malonyl-Coa
pdb|2XIQ|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
Complex With Adenosylcobalamin And Malonyl-Coa
Length = 762
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 77 LTNFWG--MNFTTD--KLRSLVRKWHTLIEAYVDVKTTDNFTLRLFC 119
L+ FWG MNF + K+R+ R W LIE K + + LR C
Sbjct: 295 LSFFWGIGMNFYMEIAKMRAGRRLWAHLIEKMFQPKNSKSLLLRAHC 341
>pdb|3B5Q|A Chain A, Crystal Structure Of A Putative Sulfatase (Np_810509.1)
From Bacteroides Thetaiotaomicron Vpi-5482 At 2.40 A
Resolution
pdb|3B5Q|B Chain B, Crystal Structure Of A Putative Sulfatase (Np_810509.1)
From Bacteroides Thetaiotaomicron Vpi-5482 At 2.40 A
Resolution
Length = 482
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 204 DLGKLMEVHGDYSEDVGVKVDRPADEPMPEAP 235
D + G E+ GV DRP P+PE P
Sbjct: 176 DFQNPHNICGFIGENAGVHTDRPISGPLPELP 207
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
0.321 0.136 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,674,999
Number of Sequences: 62578
Number of extensions: 251020
Number of successful extensions: 676
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 666
Number of HSP's gapped (non-prelim): 7
length of query: 241
length of database: 14,973,337
effective HSP length: 96
effective length of query: 145
effective length of database: 8,965,849
effective search space: 1300048105
effective search space used: 1300048105
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)