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= 024140
(272 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3DTP|B Chain B, Tarantula Heavy Meromyosin Obtained By Flexible Docking To
Tarantula Muscle Thick Filament Cryo-Em 3d-Map
Length = 973
Score = 32.0 bits (71), Expect = 0.41, Method: Composition-based stats.
Identities = 25/106 (23%), Positives = 55/106 (51%), Gaps = 6/106 (5%)
Query: 45 VSDLESEHSALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALTNT 104
++ ++ E + L+ L + ++R EL+ ++ S+ +D Q QA+++ L+ E
Sbjct: 859 MASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLADAEE----R 914
Query: 105 VRKLQRDVSKLEVFRKTLVQSLKDDEDASTGATRIAKPTPNEDDAA 150
+L ++ +LE K + + L+D+E+ + T AK ED+ +
Sbjct: 915 CDQLIKNKIQLEAKVKEMNERLEDEEEMNAELT--AKKRKLEDECS 958
Score = 28.1 bits (61), Expect = 5.0, Method: Composition-based stats.
Identities = 17/75 (22%), Positives = 39/75 (52%), Gaps = 3/75 (4%)
Query: 46 SDLESEHSALRSQLAEKDSRIAEL---QSQIESIYSSLSDKLGQAQADKERLSKENEALT 102
+DL+ + A + LA+ + R +L + Q+E+ ++++L + L+ + L
Sbjct: 895 NDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKEMNERLEDEEEMNAELTAKKRKLE 954
Query: 103 NTVRKLQRDVSKLEV 117
+ +L+RD+ LE+
Sbjct: 955 DECSELKRDIDDLEL 969
>pdb|3DTP|A Chain A, Tarantula Heavy Meromyosin Obtained By Flexible Docking To
Tarantula Muscle Thick Filament Cryo-Em 3d-Map
Length = 971
Score = 32.0 bits (71), Expect = 0.41, Method: Composition-based stats.
Identities = 25/106 (23%), Positives = 55/106 (51%), Gaps = 6/106 (5%)
Query: 45 VSDLESEHSALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALTNT 104
++ ++ E + L+ L + ++R EL+ ++ S+ +D Q QA+++ L+ E
Sbjct: 859 MASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLADAEE----R 914
Query: 105 VRKLQRDVSKLEVFRKTLVQSLKDDEDASTGATRIAKPTPNEDDAA 150
+L ++ +LE K + + L+D+E+ + T AK ED+ +
Sbjct: 915 CDQLIKNKIQLEAKVKEMNERLEDEEEMNAELT--AKKRKLEDECS 958
Score = 28.1 bits (61), Expect = 5.0, Method: Composition-based stats.
Identities = 17/75 (22%), Positives = 39/75 (52%), Gaps = 3/75 (4%)
Query: 46 SDLESEHSALRSQLAEKDSRIAEL---QSQIESIYSSLSDKLGQAQADKERLSKENEALT 102
+DL+ + A + LA+ + R +L + Q+E+ ++++L + L+ + L
Sbjct: 895 NDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKEMNERLEDEEEMNAELTAKKRKLE 954
Query: 103 NTVRKLQRDVSKLEV 117
+ +L+RD+ LE+
Sbjct: 955 DECSELKRDIDDLEL 969
>pdb|2W6A|A Chain A, X-Ray Structure Of The Dimeric Git1 Coiled-Coil Domain
pdb|2W6A|B Chain B, X-Ray Structure Of The Dimeric Git1 Coiled-Coil Domain
Length = 63
Score = 31.6 bits (70), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 26/40 (65%)
Query: 77 YSSLSDKLGQAQADKERLSKENEALTNTVRKLQRDVSKLE 116
Y L L ++A ++L K N +L++ +RKLQR++ KL+
Sbjct: 15 YLELKKALATSEAKVQQLMKVNSSLSDELRKLQREIHKLQ 54
>pdb|1SZI|A Chain A, Crystal Structure Of The C-Terminus Of Tip47
Length = 247
Score = 30.8 bits (68), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 31 DVARKITSIAISTRVSDLESEHSALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQAD 90
D+ +++ S+ ++ S ++ S +R Q + S++ +LQ+ I+S G
Sbjct: 146 DITQQLQSMCVALGAS-IQGLPSHVREQAQQARSQVNDLQATFSGIHSFQDLSAGVLAQT 204
Query: 91 KERLSKENEALTNTV 105
+ER+++ EAL NTV
Sbjct: 205 RERIARAREALDNTV 219
>pdb|1I84|S Chain S, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment.
pdb|1I84|V Chain V, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment
Length = 1184
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 39/73 (53%), Gaps = 12/73 (16%)
Query: 48 LESEHSALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERL----SKENEALTN 103
LE E S L Q IAELQ+QI + + L+ K + QA RL S++N AL
Sbjct: 1065 LEGESSDLHEQ-------IAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNAL-K 1116
Query: 104 TVRKLQRDVSKLE 116
+R+L+ +S L+
Sbjct: 1117 KIRELESHISDLQ 1129
>pdb|2DFS|A Chain A, 3-D Structure Of Myosin-V Inhibited State
pdb|2DFS|M Chain M, 3-D Structure Of Myosin-V Inhibited State
Length = 1080
Score = 29.3 bits (64), Expect = 2.6, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 48 LESEHSALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERL---SKENEALTNT 104
LE++ L+ ++ E++ L ++ ++ + S + + ++D ERL +E + TN
Sbjct: 926 LENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNR 985
Query: 105 VRKLQRDVSKLEVFRKTLVQS 125
V LQ +++KL RK L Q+
Sbjct: 986 VLSLQEEIAKL---RKELHQT 1003
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 3/75 (4%)
Query: 54 ALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALTNTVRKLQRDVS 113
AL ++ A +D+R ++ I LSDKL + D + SK + N K D S
Sbjct: 662 ALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNK---DFS 718
Query: 114 KLEVFRKTLVQSLKD 128
K E K L S+KD
Sbjct: 719 KAEETLKALKGSVKD 733
>pdb|3BNG|A Chain A, W. Succinogenes Nrfa Y218f
pdb|3BNH|A Chain A, W. Succinogenes Nrfa Y218f Nitrite Complex
pdb|3BNJ|A Chain A, W. Succinogenes Nrfa Y218f Sulfite Complex
Length = 485
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 5/67 (7%)
Query: 7 GAGSTFDLPEEVLQVLPSDPFEQLDVARKITSI-----AISTRVSDLESEHSALRSQLAE 61
G GS F PEEVL++L S E K+ + AI D E++ A + +
Sbjct: 377 GHGSFFHAPEEVLRLLASGNEEAQKARIKLVKVLAKYGAIDYVAPDFETKEKAQKLAKVD 436
Query: 62 KDSRIAE 68
++ IAE
Sbjct: 437 MEAFIAE 443
>pdb|1FS7|A Chain A, Cytochrome C Nitrite Reductase From Wolinella Succinogenes
pdb|1FS8|A Chain A, Cytochrome C Nitrite Reductase From Wolinella
Succinogenes-Sulfate Complex
pdb|2E80|A Chain A, Cytochrome C Nitrite Reductase From Wolinella Succinogenes
With Bound Substrate Nitrite
pdb|2E81|A Chain A, Cytochrome C Nitrite Reductase From Wolinella Succinogenes
With Bound Intermediate Hydroxylamine
pdb|3BNF|A Chain A, W. Succinogenes Nrfa Sulfite Complex
Length = 485
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 5/67 (7%)
Query: 7 GAGSTFDLPEEVLQVLPSDPFEQLDVARKITSI-----AISTRVSDLESEHSALRSQLAE 61
G GS F PEEVL++L S E K+ + AI D E++ A + +
Sbjct: 377 GHGSFFHAPEEVLRLLASGNEEAQKARIKLVKVLAKYGAIDYVAPDFETKEKAQKLAKVD 436
Query: 62 KDSRIAE 68
++ IAE
Sbjct: 437 MEAFIAE 443
>pdb|1FS9|A Chain A, Cytochrome C Nitrite Reductase From Wolinella
Succinogenes-Azide Complex
Length = 507
Score = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 5/67 (7%)
Query: 7 GAGSTFDLPEEVLQVLPSDPFEQLDVARKITSI-----AISTRVSDLESEHSALRSQLAE 61
G GS F PEEVL++L S E K+ + AI D E++ A + +
Sbjct: 399 GHGSFFHAPEEVLRLLASGNEEAQKARIKLVKVLAKYGAIDYVAPDFETKEKAQKLAKVD 458
Query: 62 KDSRIAE 68
++ IAE
Sbjct: 459 MEAFIAE 465
>pdb|4DVY|P Chain P, Crystal Structure Of The Helicobacter Pylori Caga
Oncoprotein
Length = 876
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 3/75 (4%)
Query: 54 ALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALTNTVRKLQRDVS 113
AL ++ A +D+R ++ I LSDKL + D + SK + N K D S
Sbjct: 662 ALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNK---DFS 718
Query: 114 KLEVFRKTLVQSLKD 128
K E K L S+KD
Sbjct: 719 KAEETLKALKGSVKD 733
>pdb|3NWH|A Chain A, Crystal Structure Of Bst2TETHERIN
pdb|3NWH|B Chain B, Crystal Structure Of Bst2TETHERIN
pdb|3NWH|C Chain C, Crystal Structure Of Bst2TETHERIN
pdb|3NWH|D Chain D, Crystal Structure Of Bst2TETHERIN
Length = 112
Score = 27.3 bits (59), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 4/50 (8%)
Query: 53 SALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALT 102
++L ++ A+ ++ EL+ +I ++L+ KL A A+ ERL +EN+ L+
Sbjct: 60 ASLDAEKAQGQKKVEELEGEI----TTLNHKLQDASAEVERLRRENQVLS 105
>pdb|3MQB|A Chain A, Crystal Structure Of Ectodomain Of Bst-2TETHERINCD317 (C2)
pdb|3MQB|B Chain B, Crystal Structure Of Ectodomain Of Bst-2TETHERINCD317 (C2)
pdb|3MQB|E Chain E, Crystal Structure Of Ectodomain Of Bst-2TETHERINCD317 (C2)
pdb|3MQB|F Chain F, Crystal Structure Of Ectodomain Of Bst-2TETHERINCD317 (C2)
Length = 121
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 4/50 (8%)
Query: 53 SALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALT 102
++L ++ A+ ++ EL+ +I ++L+ KL A A+ ERL +EN+ L+
Sbjct: 60 ASLDAEKAQGQKKVEELEGEI----TTLNHKLQDASAEVERLRRENQVLS 105
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
0.306 0.123 0.325
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,780,770
Number of Sequences: 62578
Number of extensions: 241466
Number of successful extensions: 695
Number of sequences better than 100.0: 60
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 34
Number of HSP's that attempted gapping in prelim test: 640
Number of HSP's gapped (non-prelim): 90
length of query: 272
length of database: 14,973,337
effective HSP length: 97
effective length of query: 175
effective length of database: 8,903,271
effective search space: 1558072425
effective search space used: 1558072425
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 51 (24.3 bits)