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= psy2025
(213 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1E7Z|A Chain A, Crystal Structure Of The Emap2RNA BINDING DOMAIN OF THE
P43 Protein From Human Aminoacyl-Trna Synthetase Complex
Length = 174
Score = 99.8 bits (247), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 48/122 (39%), Positives = 72/122 (59%), Gaps = 4/122 (3%)
Query: 49 RLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNV 108
+ +GE R +VSGL N++ Q+ N V+++CNLKPAK RG+LSQ M++CAS
Sbjct: 32 EVDVGEIAPRTVVSGLVNHVPLEQMQNRMVILLCNLKPAKMRGVLSQAMVMCASSP---- 87
Query: 109 TRVEVVRPPENCTAGQRVFIHNRTGIPDKMLHPKEMVWPKIQVDLKSDDNGHIRWKGHRL 168
++E++ PP G R+ G PDK L+PK+ +W +IQ DL ++D +KG
Sbjct: 88 EKIEILAPPNGSVPGDRITFDAFPGEPDKELNPKKKIWEQIQPDLHTNDECVATYKGVPF 147
Query: 169 ET 170
E
Sbjct: 148 EV 149
>pdb|1EUJ|A Chain A, A Novel Anti-Tumor Cytokine Contains A Rna-Binding Motif
Present In Aminoacyl-Trna Synthetases
pdb|1EUJ|B Chain B, A Novel Anti-Tumor Cytokine Contains A Rna-Binding Motif
Present In Aminoacyl-Trna Synthetases
Length = 166
Score = 99.8 bits (247), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 48/121 (39%), Positives = 72/121 (59%), Gaps = 4/121 (3%)
Query: 50 LQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVT 109
+ +GE R +VSGL N++ Q+ N V+++CNLKPAK RG+LSQ M++CAS
Sbjct: 33 VDVGEIAPRTVVSGLVNHVPLEQMQNRMVILLCNLKPAKMRGVLSQAMVMCASSP----E 88
Query: 110 RVEVVRPPENCTAGQRVFIHNRTGIPDKMLHPKEMVWPKIQVDLKSDDNGHIRWKGHRLE 169
++E++ PP G R+ G PDK L+PK+ +W +IQ DL ++D +KG E
Sbjct: 89 KIEILAPPNGSVPGDRITFDAFPGEPDKELNPKKKIWEQIQPDLHTNDECVATYKGVPFE 148
Query: 170 T 170
Sbjct: 149 V 149
>pdb|1FL0|A Chain A, Crystal Structure Of The Emap2RNA-Binding Domain Of The
P43 Protein From Human Aminoacyl-Trna Synthetase Complex
Length = 171
Score = 99.4 bits (246), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 48/122 (39%), Positives = 72/122 (59%), Gaps = 4/122 (3%)
Query: 49 RLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNV 108
+ +GE R +VSGL N++ Q+ N V+++CNLKPAK RG+LSQ M++CAS
Sbjct: 29 EVDVGEIAPRTVVSGLVNHVPLEQMQNRMVILLCNLKPAKMRGVLSQAMVMCASSP---- 84
Query: 109 TRVEVVRPPENCTAGQRVFIHNRTGIPDKMLHPKEMVWPKIQVDLKSDDNGHIRWKGHRL 168
++E++ PP G R+ G PDK L+PK+ +W +IQ DL ++D +KG
Sbjct: 85 EKIEILAPPNGSVPGDRITFDAFPGEPDKELNPKKKIWEQIQPDLHTNDECVATYKGVPF 144
Query: 169 ET 170
E
Sbjct: 145 EV 146
>pdb|1NTG|A Chain A, Crystal Structure Of The Emap Ii-Like Cytokine Released
From Human Tyrosyl-Trna Synthetase
pdb|1NTG|B Chain B, Crystal Structure Of The Emap Ii-Like Cytokine Released
From Human Tyrosyl-Trna Synthetase
pdb|1NTG|C Chain C, Crystal Structure Of The Emap Ii-Like Cytokine Released
From Human Tyrosyl-Trna Synthetase
pdb|1NTG|D Chain D, Crystal Structure Of The Emap Ii-Like Cytokine Released
From Human Tyrosyl-Trna Synthetase
Length = 172
Score = 94.0 bits (232), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 57/160 (35%), Positives = 88/160 (55%), Gaps = 10/160 (6%)
Query: 34 AQMHTIERQKEEAKL---RLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFR 90
++ T+E+ + L ++ +GE + R +VSGL ++ +L + VVV+CNLKP K R
Sbjct: 15 GKIITVEKHPDADSLYVEKIDVGEAEPRTVVSGLVQFVPKEELQDRLVVVLCNLKPQKMR 74
Query: 91 GILSQGMILCAS-ETYNNVTRVEVVRPPENCTAGQRVFIHN-RTGIPDKMLHPKEMVWPK 148
G+ SQGM+LCAS E N +VE + PP G+ VF+ G PD+ L PK+ V+ K
Sbjct: 75 GVESQGMLLCASIEGINR--QVEPLDPPAGSAPGEHVFVKGYEKGQPDEELKPKKKVFEK 132
Query: 149 IQVDLKSDDNGHIRWKGHRLETVNAQRAAVDLKSDDNGHI 188
+Q D K + +WK T + ++ KS G+I
Sbjct: 133 LQADFKISEECIAQWKQTNFMT---KLGSISCKSLKGGNI 169
>pdb|1PYB|A Chain A, Crystal Structure Of Aquifex Aeolicus Trbp111: A Stucture-
Specific Trna Binding Protein
pdb|1PYB|B Chain B, Crystal Structure Of Aquifex Aeolicus Trbp111: A Stucture-
Specific Trna Binding Protein
pdb|1PYB|C Chain C, Crystal Structure Of Aquifex Aeolicus Trbp111: A Stucture-
Specific Trna Binding Protein
pdb|1PYB|D Chain D, Crystal Structure Of Aquifex Aeolicus Trbp111: A Stucture-
Specific Trna Binding Protein
Length = 111
Score = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/80 (40%), Positives = 48/80 (60%), Gaps = 5/80 (6%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106
KL L +G+ ++R +V+G+A Y T +L +V+V NLKP K GI SQGMIL AS+ N
Sbjct: 36 KLTLSLGD-EERTVVAGIAKYYTPEELVGKKIVIVANLKPRKIFGIESQGMILAASDGEN 94
Query: 107 NVTRVEVVRPPENCTAGQRV 126
+ V+ P + G ++
Sbjct: 95 ----LSVIVPDRDVKEGAKL 110
>pdb|2CWP|A Chain A, Crystal Structure Of Metrs Related Protein From Pyrococcus
Horikoshii
Length = 112
Score = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 33/93 (35%), Positives = 53/93 (56%), Gaps = 4/93 (4%)
Query: 35 QMHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILS 94
+ I+R K+ KL + G ++R IV+G+A+ + +L + V NLKP KF G+ S
Sbjct: 24 KAEKIKRTKKLIKLIVDFG-NEERTIVTGIADQIPPEELEGKKFIFVVNLKPKKFSGVES 82
Query: 95 QGMILCASETYNNVTRVEVVRPPENCTAGQRVF 127
QGM++ A ET + +V ++ PE G RV+
Sbjct: 83 QGMLILA-ETEDG--KVYLIPVPEEVPVGARVW 112
>pdb|1MKH|A Chain A, C-Terminal Domain Of Methionyl-Trna Synthetase From
Pyrococcus Abyssi
Length = 107
Score = 53.5 bits (127), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 29/69 (42%), Positives = 39/69 (56%), Gaps = 4/69 (5%)
Query: 58 RLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVTRVEVVRPP 117
R +V+GL Y +L N VVVV NL+P K RGI SQGM+L A + RV ++ P
Sbjct: 42 RTLVAGLKKYYKPEELLNRYVVVVANLEPKKLRGIGSQGMLLAADDG----ERVALLMPD 97
Query: 118 ENCTAGQRV 126
+ G +V
Sbjct: 98 KEVKLGAKV 106
>pdb|1RQG|A Chain A, Methionyl-Trna Synthetase From Pyrococcus Abyssi
Length = 722
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/69 (42%), Positives = 40/69 (57%), Gaps = 4/69 (5%)
Query: 58 RLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVTRVEVVRPP 117
R +V+GL Y +L N VVVV NL+P K RGI SQGM+L A ++ RV ++ P
Sbjct: 657 RTLVAGLKKYYKPEELLNRYVVVVANLEPKKLRGIGSQGMLLAA----DDGERVALLMPD 712
Query: 118 ENCTAGQRV 126
+ G +V
Sbjct: 713 KEVKLGAKV 721
>pdb|3ERS|X Chain X, Crystal Structure Of E. Coli Trbp111
Length = 118
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 31/80 (38%), Positives = 45/80 (56%), Gaps = 3/80 (3%)
Query: 50 LQIGEGQDRL-IVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNV 108
+Q+ GQ L V+ L Y + +L +VVV+CNL+ AK RG S+ M+LCA ET +
Sbjct: 34 VQVDVGQKTLQTVTSLVPYYSEEELMGKTVVVLCNLQKAKMRGETSECMLLCA-ETDDGS 92
Query: 109 TRVEVVRPPENCTAGQRVFI 128
V ++ P AG RV +
Sbjct: 93 ESV-LLTPERMMPAGVRVVL 111
>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35
pdb|3TW8|D Chain D, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35
Length = 181
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 11/70 (15%)
Query: 1 MCGQCGHTFRLLLIGRQPLGNAL-----------AWHVEDCDVDAQMHTIERQKEEAKLR 49
M H F+LL+IG +G + ++ VD ++ T+E E+ KL+
Sbjct: 2 MARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQ 61
Query: 50 LQIGEGQDRL 59
+ GQ+R
Sbjct: 62 IWDTAGQERF 71
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
0.322 0.137 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,433,626
Number of Sequences: 62578
Number of extensions: 252070
Number of successful extensions: 507
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 494
Number of HSP's gapped (non-prelim): 11
length of query: 213
length of database: 14,973,337
effective HSP length: 95
effective length of query: 118
effective length of database: 9,028,427
effective search space: 1065354386
effective search space used: 1065354386
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: 49 (23.5 bits)