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= psy3157
(822 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OFE|A Chain A, Structured Domain Of Drosophila Melanogaster Boca P41 2 2
Crystal Form
pdb|3OFE|B Chain B, Structured Domain Of Drosophila Melanogaster Boca P41 2 2
Crystal Form
Length = 91
Score = 151 bits (382), Expect = 1e-36, Method: Composition-based stats.
Identities = 66/85 (77%), Positives = 79/85 (92%)
Query: 76 SKKGRTLMVFVSVDGDPTRDEAESITKLWQTSLFNSHIQAERYMVEDSRAIFLFKDGSQA 135
SKKGRTL FVSV G+PTR+E+++ITKLWQTSL+N+HIQAERY V+D+RAIFLFKDG+QA
Sbjct: 7 SKKGRTLXTFVSVTGNPTREESDTITKLWQTSLWNNHIQAERYXVDDNRAIFLFKDGTQA 66
Query: 136 WDAKDYLVQQERCKSVTIENKVYPG 160
WDAKD+L++QERCK VTIENK YPG
Sbjct: 67 WDAKDFLIEQERCKGVTIENKEYPG 91
>pdb|3OFF|A Chain A, Structured Domain Of Drosophila Melanogaster Boca P65 2 2
Crystal Form
Length = 90
Score = 150 bits (380), Expect = 2e-36, Method: Composition-based stats.
Identities = 66/87 (75%), Positives = 79/87 (90%)
Query: 74 KLSKKGRTLMVFVSVDGDPTRDEAESITKLWQTSLFNSHIQAERYMVEDSRAIFLFKDGS 133
K KKGRTL FVSV G+PTR+E+++ITKLWQTSL+N+HIQAERY V+D+RAIFLFKDG+
Sbjct: 4 KHXKKGRTLXTFVSVTGNPTREESDTITKLWQTSLWNNHIQAERYXVDDNRAIFLFKDGT 63
Query: 134 QAWDAKDYLVQQERCKSVTIENKVYPG 160
QAWDAKD+L++QERCK VTIENK YPG
Sbjct: 64 QAWDAKDFLIEQERCKGVTIENKEYPG 90
>pdb|2KGL|A Chain A, Nmr Solution Structure Of Mesd
Length = 195
Score = 128 bits (322), Expect = 1e-29, Method: Composition-based stats.
Identities = 54/97 (55%), Positives = 74/97 (76%)
Query: 65 DNPDPESLLKLSKKGRTLMVFVSVDGDPTRDEAESITKLWQTSLFNSHIQAERYMVEDSR 124
D PES+LK++KKG+TLM+FV+V G+PT E E IT LWQ SLFN++ +R++V R
Sbjct: 59 DPGKPESILKMTKKGKTLMMFVTVSGNPTEKETEEITSLWQGSLFNANYDVQRFIVGSDR 118
Query: 125 AIFLFKDGSQAWDAKDYLVQQERCKSVTIENKVYPGK 161
AIF+ +DGS AW+ KD+LV Q+RC VT+E ++YPGK
Sbjct: 119 AIFMLRDGSYAWEIKDFLVSQDRCAEVTLEGQMYPGK 155
Score = 38.5 bits (88), Expect = 0.016, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 692 PKWAKKDLSFYNDADLERLFDQWEVSLGKDAFCFPHETKHKDPNLNLDLGQI 743
P KKD+ YNDAD+ RL +QWE + P +HK P+ +D ++
Sbjct: 10 PPRKKKDIRDYNDADMARLLEQWEKDDDIEEGDLP---EHKRPSAPIDFSKL 58
Score = 36.6 bits (83), Expect = 0.063, Method: Composition-based stats.
Identities = 14/24 (58%), Positives = 17/24 (70%)
Query: 456 PKWAKKDLSFYNDADLERLFDQWE 479
P KKD+ YNDAD+ RL +QWE
Sbjct: 10 PPRKKKDIRDYNDADMARLLEQWE 33
>pdb|2I9S|A Chain A, The Solution Structure Of The Core Of Mesoderm Development
(Mesd)
Length = 97
Score = 124 bits (312), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 53/93 (56%), Positives = 73/93 (78%)
Query: 69 PESLLKLSKKGRTLMVFVSVDGDPTRDEAESITKLWQTSLFNSHIQAERYMVEDSRAIFL 128
PES+LK++KKG+TLM+FV+V G+PT E E IT LWQ SLFN++ +R++V RAIF+
Sbjct: 5 PESILKMTKKGKTLMMFVTVSGNPTEKETEEITSLWQGSLFNANYDVQRFIVGSDRAIFM 64
Query: 129 FKDGSQAWDAKDYLVQQERCKSVTIENKVYPGK 161
+DGS AW+ KD+LV Q+RC VT+E ++YPGK
Sbjct: 65 LRDGSYAWEIKDFLVSQDRCAEVTLEGQMYPGK 97
>pdb|2RQK|A Chain A, Nmr Solution Structure Of Mesoderm Development (Mesd) -
Closed Conformation
pdb|2RQM|A Chain A, Nmr Solution Structure Of Mesoderm Development (Mesd) -
Open Conformation
Length = 141
Score = 122 bits (306), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 53/93 (56%), Positives = 73/93 (78%)
Query: 69 PESLLKLSKKGRTLMVFVSVDGDPTRDEAESITKLWQTSLFNSHIQAERYMVEDSRAIFL 128
PES+LK++KKG+TLM+FV+V G+PT E E IT LWQ SLFN++ +R++V RAIF+
Sbjct: 49 PESILKMTKKGKTLMMFVTVSGNPTEKETEEITSLWQGSLFNANYDVQRFIVGSDRAIFM 108
Query: 129 FKDGSQAWDAKDYLVQQERCKSVTIENKVYPGK 161
+DGS AW+ KD+LV Q+RC VT+E ++YPGK
Sbjct: 109 LRDGSYAWEIKDFLVSQDRCAEVTLEGQMYPGK 141
Score = 32.7 bits (73), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 698 DLSFYNDADLERLFDQWEVSLGKDAFCFPHETKHKDPNLNLDLGQI 743
D+ YNDAD+ RL +QWE + P HK P+ +D ++
Sbjct: 2 DIRDYNDADMARLLEQWEKDDDIEEGDLPE---HKRPSAPIDFSKL 44
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 462 DLSFYNDADLERLFDQWE 479
D+ YNDAD+ RL +QWE
Sbjct: 2 DIRDYNDADMARLLEQWE 19
>pdb|2KMI|A Chain A, Mesd(12-155), The Core Structural Domain Of Mesd That Is
Essential For Proper Folding Of Lrp56
Length = 145
Score = 122 bits (306), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 53/93 (56%), Positives = 73/93 (78%)
Query: 69 PESLLKLSKKGRTLMVFVSVDGDPTRDEAESITKLWQTSLFNSHIQAERYMVEDSRAIFL 128
PES+LK++KKG+TLM+FV+V G+PT E E IT LWQ SLFN++ +R++V RAIF+
Sbjct: 52 PESILKMTKKGKTLMMFVTVSGNPTEKETEEITSLWQGSLFNANYDVQRFIVGSDRAIFM 111
Query: 129 FKDGSQAWDAKDYLVQQERCKSVTIENKVYPGK 161
+DGS AW+ KD+LV Q+RC VT+E ++YPGK
Sbjct: 112 LRDGSYAWEIKDFLVSQDRCAEVTLEGQMYPGK 144
Score = 36.6 bits (83), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 696 KKDLSFYNDADLERLFDQWEVSLGKDAFCFPHETKHKDPNLNLDLGQI 743
KKD+ YNDAD+ RL +QWE + P HK P+ +D ++
Sbjct: 3 KKDIRDYNDADMARLLEQWEKDDDIEEGDLPE---HKRPSAPIDFSKL 47
Score = 33.5 bits (75), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 13/20 (65%), Positives = 16/20 (80%)
Query: 460 KKDLSFYNDADLERLFDQWE 479
KKD+ YNDAD+ RL +QWE
Sbjct: 3 KKDIRDYNDADMARLLEQWE 22
>pdb|3OFH|A Chain A, Structured Domain Of Mus Musculus Mesd
pdb|3OFH|B Chain B, Structured Domain Of Mus Musculus Mesd
Length = 89
Score = 112 bits (281), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 47/86 (54%), Positives = 66/86 (76%)
Query: 75 LSKKGRTLMVFVSVDGDPTRDEAESITKLWQTSLFNSHIQAERYMVEDSRAIFLFKDGSQ 134
++KKG+TLM+FV+V G+PT E E IT LWQ SLFN++ +R++V RAIF+ +DGS
Sbjct: 4 MTKKGKTLMMFVTVSGNPTEKETEEITSLWQGSLFNANYDVQRFIVGSDRAIFMLRDGSY 63
Query: 135 AWDAKDYLVQQERCKSVTIENKVYPG 160
AW+ KD+LV Q+RC VT+E ++YPG
Sbjct: 64 AWEIKDFLVSQDRCAEVTLEGQMYPG 89
>pdb|3OFG|A Chain A, Structured Domain Of Caenorhabditis Elegans Bmy-1
pdb|3OFG|B Chain B, Structured Domain Of Caenorhabditis Elegans Bmy-1
Length = 95
Score = 77.0 bits (188), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 38/91 (41%), Positives = 60/91 (65%), Gaps = 6/91 (6%)
Query: 76 SKKGRTLMVFVSV------DGDPTRDEAESITKLWQTSLFNSHIQAERYMVEDSRAIFLF 129
SKKG+TL +FV V D R E T++WQ+ L+N+H+ + ++++D+RAIF F
Sbjct: 5 SKKGQTLXLFVGVVDPSQPDRSDIRPFTEKWTQIWQSQLYNNHVDLQVFVIDDNRAIFXF 64
Query: 130 KDGSQAWDAKDYLVQQERCKSVTIENKVYPG 160
K+G QA++AK +L++QE VTIE + + G
Sbjct: 65 KNGEQAFEAKKFLLKQEFVSEVTIEGQSFDG 95
>pdb|3I7U|A Chain A, Crystal Structure Of Ap4a Hydrolase (Aq_158) From Aquifex
Aeolicus Vf5
pdb|3I7U|B Chain B, Crystal Structure Of Ap4a Hydrolase (Aq_158) From Aquifex
Aeolicus Vf5
pdb|3I7U|C Chain C, Crystal Structure Of Ap4a Hydrolase (Aq_158) From Aquifex
Aeolicus Vf5
pdb|3I7U|D Chain D, Crystal Structure Of Ap4a Hydrolase (Aq_158) From Aquifex
Aeolicus Vf5
pdb|3I7V|A Chain A, Crystal Structure Of Ap4a Hydrolase Complexed With Ap4a
(atp) (aq_158) From Aquifex Aeolicus Vf5
pdb|3I7V|B Chain B, Crystal Structure Of Ap4a Hydrolase Complexed With Ap4a
(atp) (aq_158) From Aquifex Aeolicus Vf5
Length = 134
Score = 30.0 bits (66), Expect = 5.6, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 448 KFKEGEEKPKWAKKDLSFYNDADLERLF 475
K+KEGE +P W KD F+ + ++L
Sbjct: 86 KYKEGEPRPSWEVKDAKFFPIKEAKKLL 113
Score = 30.0 bits (66), Expect = 5.6, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 684 KFKEGEEKPKWAKKDLSFYNDADLERLF 711
K+KEGE +P W KD F+ + ++L
Sbjct: 86 KYKEGEPRPSWEVKDAKFFPIKEAKKLL 113
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 0.138 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,227,561
Number of Sequences: 62578
Number of extensions: 950956
Number of successful extensions: 1902
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1874
Number of HSP's gapped (non-prelim): 29
length of query: 822
length of database: 14,973,337
effective HSP length: 107
effective length of query: 715
effective length of database: 8,277,491
effective search space: 5918406065
effective search space used: 5918406065
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: 56 (26.2 bits)