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= 004655
(739 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JWY|B Chain B, Crystal Structure Of The Dynamin A Gtpase Domain Complexed
With Gdp, Determined As Myosin Fusion
pdb|1JX2|B Chain B, Crystal Structure Of The Nucleotide-Free Dynamin A Gtpase
Domain, Determined As Myosin Fusion
Length = 315
Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 66/221 (29%), Positives = 110/221 (49%), Gaps = 26/221 (11%)
Query: 4 LYEAYNELHGLAQELET-PFDAPAVLVVGHQTDGKSALVEALMGFQFNHVGGGTKTRRPI 62
L N+L + L + P D P ++VVG Q+ GKS+++E ++G F G G TRRP+
Sbjct: 3 LIPVINKLQDVFNTLGSDPLDLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPL 62
Query: 63 TLHMKYNPLCELPLCHLASSDVDPTLAQE------KSLQEIQSF--IEAENMR-LERESN 113
L + + P+ + D + QE K F I E +R +R +
Sbjct: 63 ILQLTHLPIAD-----------DGSQTQEWGEFLHKPNDMFYDFSEIREEIIRDTDRMTG 111
Query: 114 SNQ-FSAKEIIIKVEFKYCPNLTIIDTPGLIAPAPGRKNRALQDQARAVESLVRAKMQHR 172
N+ SA+ I +K+ + NLT++D PG+ G + ++ Q R +V A ++ +
Sbjct: 112 KNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIR---RMVMAYIKKQ 168
Query: 173 EFIILCLEDC-SDWSNATTRRVVMQIDPELKRTIIVSTKLD 212
II+ + +D +N+ ++ ++DPE KRTI V TKLD
Sbjct: 169 NAIIVAVTPANTDLANSDALQLAKEVDPEGKRTIGVITKLD 209
>pdb|3T34|A Chain A, Arabidopsis Thaliana Dynamin-Related Protein 1a (Atdrp1a)
In Prefission State
pdb|3T34|B Chain B, Arabidopsis Thaliana Dynamin-Related Protein 1a (Atdrp1a)
In Prefission State
pdb|3T35|A Chain A, Arabidopsis Thaliana Dynamin-Related Protein 1a In
Postfission State
pdb|3T35|B Chain B, Arabidopsis Thaliana Dynamin-Related Protein 1a In
Postfission State
pdb|3T35|C Chain C, Arabidopsis Thaliana Dynamin-Related Protein 1a In
Postfission State
pdb|3T35|D Chain D, Arabidopsis Thaliana Dynamin-Related Protein 1a In
Postfission State
Length = 360
Score = 71.6 bits (174), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 62/212 (29%), Positives = 102/212 (48%), Gaps = 29/212 (13%)
Query: 12 HGLAQELETPFDA-PAVLVVGHQTDGKSALVEALMGFQFNHVGGGTKTRRPITLHMK--- 67
HG + L T +D+ PA+ VVG Q+ GKS+++E+++G F G G TRRP+ L ++
Sbjct: 21 HGDSSALPTLWDSLPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKID 80
Query: 68 -----YNPLCELPLCHLASSDVDPTLAQEKSLQEIQSFIEAENMRLERESNSNQFSAKEI 122
Y LP A + +EIQ + E R S S+ I
Sbjct: 81 DGTREYAEFLHLPRKKFTD------FAAVR--KEIQDETDRETGR------SKAISSVPI 126
Query: 123 IIKVEFKYCPNLTIIDTPGLIAPA-PGRKNRALQDQARAVESLVRAKMQHREFIILCLED 181
+ + NLT+ID PGL A G+ + ++D +E++VR+ ++ IIL +
Sbjct: 127 HLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKD----IENMVRSYIEKPNCIILAISP 182
Query: 182 CS-DWSNATTRRVVMQIDPELKRTIIVSTKLD 212
+ D + + ++ ++DP RT V TK+D
Sbjct: 183 ANQDLATSDAIKISREVDPSGDRTFGVLTKID 214
>pdb|2AKA|B Chain B, Structure Of The Nucleotide-Free Myosin Ii Motor Domain
From Dictyostelium Discoideum Fused To The Gtpase Domain
Of Dynamin 1 From Rattus Norvegicus
Length = 299
Score = 68.9 bits (167), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 54/192 (28%), Positives = 92/192 (47%), Gaps = 13/192 (6%)
Query: 22 FDAPAVLVVGHQTDGKSALVEALMGFQFNHVGGGTKTRRPITLHMKYNPLCELPLCHLAS 81
D P + VVG Q+ GKS+++E +G F G G TRRP+ L + + H
Sbjct: 24 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKG 83
Query: 82 SDVDPTLAQEKSLQEIQSFIEAENMRLERESNSNQ-FSAKEIIIKVEFKYCPNLTIIDTP 140
+E++ IEAE +R + +N+ S I ++V + NLT++D P
Sbjct: 84 KKF-------TDFEEVRLEIEAET---DRVTGTNKGISPVPINLRVYSPHVLNLTLVDLP 133
Query: 141 GLIAPAPGRKNRALQDQARAVESLVRAKMQHREFIILCLEDCSDWSNATTRRVVMQIDPE 200
G+ G + ++ Q R + L++ + I+ SD +N+ ++ ++DP+
Sbjct: 134 GMTKVPVGDQPPDIEFQIR--DMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQ 191
Query: 201 LKRTIIVSTKLD 212
+RTI V TKLD
Sbjct: 192 GQRTIGVITKLD 203
>pdb|3ZYC|A Chain A, Dynamin 1 Gtpase Ged Fusion Dimer Complexed With Gmppcp
pdb|3ZYC|D Chain D, Dynamin 1 Gtpase Ged Fusion Dimer Complexed With Gmppcp
pdb|3ZYS|A Chain A, Human Dynamin 1 Deltaprd Polymer Stabilized With Gmppcp
pdb|3ZYS|D Chain D, Human Dynamin 1 Deltaprd Polymer Stabilized With Gmppcp
Length = 353
Score = 68.9 bits (167), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 55/192 (28%), Positives = 91/192 (47%), Gaps = 13/192 (6%)
Query: 22 FDAPAVLVVGHQTDGKSALVEALMGFQFNHVGGGTKTRRPITLHMKYNPLCELPLCHLAS 81
D P + VVG Q+ GKS+++E +G F G G TRRP+ L + H
Sbjct: 29 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKG 88
Query: 82 SDVDPTLAQEKSLQEIQSFIEAENMRLERESNSNQ-FSAKEIIIKVEFKYCPNLTIIDTP 140
+E++ IEAE +R + +N+ S I ++V + NLT++D P
Sbjct: 89 KKF-------TDFEEVRLEIEAET---DRVTGTNKGISPVPINLRVYSPHVLNLTLVDLP 138
Query: 141 GLIAPAPGRKNRALQDQARAVESLVRAKMQHREFIILCLEDCSDWSNATTRRVVMQIDPE 200
G+ G + ++ Q R + L++ + I+ SD +N+ +V ++DP+
Sbjct: 139 GMTKVPVGDQPPDIEFQIR--DMLMQFVTKENCLILAVSPANSDLANSDALKVAKEVDPQ 196
Query: 201 LKRTIIVSTKLD 212
+RTI V TKLD
Sbjct: 197 GQRTIGVITKLD 208
>pdb|3ZVR|A Chain A, Crystal Structure Of Dynamin
Length = 772
Score = 68.2 bits (165), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 54/192 (28%), Positives = 92/192 (47%), Gaps = 13/192 (6%)
Query: 22 FDAPAVLVVGHQTDGKSALVEALMGFQFNHVGGGTKTRRPITLHMKYNPLCELPLCHLAS 81
D P + VVG Q+ GKS+++E +G F G G TRRP+ L + + H
Sbjct: 49 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKG 108
Query: 82 SDVDPTLAQEKSLQEIQSFIEAENMRLERESNSNQ-FSAKEIIIKVEFKYCPNLTIIDTP 140
+E++ IEAE +R + +N+ S I ++V + NLT++D P
Sbjct: 109 KKF-------TDFEEVRLEIEAET---DRVTGTNKGISPVPINLRVYSPHVLNLTLVDLP 158
Query: 141 GLIAPAPGRKNRALQDQARAVESLVRAKMQHREFIILCLEDCSDWSNATTRRVVMQIDPE 200
G+ G + ++ Q R + L++ + I+ SD +N+ ++ ++DP+
Sbjct: 159 GMTKVPVGDQPPDIEFQIR--DMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQ 216
Query: 201 LKRTIIVSTKLD 212
+RTI V TKLD
Sbjct: 217 GQRTIGVITKLD 228
>pdb|3SNH|A Chain A, Crystal Structure Of Nucleotide-Free Human Dynamin1
Length = 743
Score = 67.4 bits (163), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 55/192 (28%), Positives = 91/192 (47%), Gaps = 13/192 (6%)
Query: 22 FDAPAVLVVGHQTDGKSALVEALMGFQFNHVGGGTKTRRPITLHMKYNPLCELPLCHLAS 81
D P + VVG Q+ GKS+++E +G F G G TRRP+ L + H
Sbjct: 26 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKG 85
Query: 82 SDVDPTLAQEKSLQEIQSFIEAENMRLERESNSNQ-FSAKEIIIKVEFKYCPNLTIIDTP 140
+E++ IEAE +R + +N+ S I ++V + NLT++D P
Sbjct: 86 KKF-------TDFEEVRLEIEAET---DRVTGTNKGISPVPINLRVYSPHVLNLTLVDLP 135
Query: 141 GLIAPAPGRKNRALQDQARAVESLVRAKMQHREFIILCLEDCSDWSNATTRRVVMQIDPE 200
G+ G + ++ Q R + L++ + I+ SD +N+ +V ++DP+
Sbjct: 136 GMTKVPVGDQPPDIEFQIR--DMLMQFVTKENCLILAVSPANSDLANSDALKVAKEVDPQ 193
Query: 201 LKRTIIVSTKLD 212
+RTI V TKLD
Sbjct: 194 GQRTIGVITKLD 205
>pdb|2X2E|A Chain A, Dynamin Gtpase Dimer, Long Axis Form
pdb|2X2E|D Chain D, Dynamin Gtpase Dimer, Long Axis Form
pdb|2X2F|A Chain A, Dynamin 1 Gtpase Dimer, Short Axis Form
pdb|2X2F|D Chain D, Dynamin 1 Gtpase Dimer, Short Axis Form
Length = 353
Score = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 55/192 (28%), Positives = 89/192 (46%), Gaps = 13/192 (6%)
Query: 22 FDAPAVLVVGHQTDGKSALVEALMGFQFNHVGGGTKTRRPITLHMKYNPLCELPLCHLAS 81
D P + VVG Q+ GKS+++E +G F G G TRRP+ L + H
Sbjct: 29 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKG 88
Query: 82 SDVDPTLAQEKSLQEIQSFIEAENMRLERESNSNQ-FSAKEIIIKVEFKYCPNLTIIDTP 140
+E++ IEAE +R + +N+ S I ++V + NLT++D P
Sbjct: 89 KKF-------TDFEEVRLEIEAET---DRVTGTNKGISPVPINLRVYSPHVLNLTLVDLP 138
Query: 141 GLIAPAPGRKNRALQDQARAVESLVRAKMQHREFIILCLEDCSDWSNATTRRVVMQIDPE 200
G G + ++ Q R + L + + I+ SD +N+ +V ++DP+
Sbjct: 139 GXTKVPVGDQPPDIEFQIR--DXLXQFVTKENCLILAVSPANSDLANSDALKVAKEVDPQ 196
Query: 201 LKRTIIVSTKLD 212
+RTI V TKLD
Sbjct: 197 GQRTIGVITKLD 208
>pdb|3SZR|A Chain A, Crystal Structure Of Modified Nucleotide-Free Human Mxa
Length = 608
Score = 66.2 bits (160), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 58/201 (28%), Positives = 100/201 (49%), Gaps = 20/201 (9%)
Query: 18 LETPFDAPAVLVVGHQTDGKSALVEALMGFQFNHVGGGTKTRRPITLHMKYNPLCELPLC 77
+E PA+ V+G Q+ GKS+++EAL G G G TR P+ L +K +
Sbjct: 39 VEQDLALPAIAVIGDQSSGKSSVLEALSGVALPR-GSGIVTRCPLVLKLKKLVNEDKWRG 97
Query: 78 HLASSDVDPTLAQ----EKSLQEIQSFIEAENMRLERESNSNQFSAKEIIIKVEFKYCPN 133
++ D + ++ EK + + Q+ I E M + E + + S++++ P+
Sbjct: 98 KVSYQDYEIEISDASEVEKEINKAQNAIAGEGMGISHELITLEISSRDV---------PD 148
Query: 134 LTIIDTPGLIAPAPGRKNRALQDQARAVESLVRAKMQHREFIILCLEDCSDWSNATTRRV 193
LT+ID PG+ A G + D +++L++ +Q +E I L + S+ ATT +
Sbjct: 149 LTLIDLPGITRVAVGNQP---ADIGYKIKTLIKKYIQRQETISLVVVP-SNVDIATTEAL 204
Query: 194 VM--QIDPELKRTIIVSTKLD 212
M ++DPE RTI + TK D
Sbjct: 205 SMAQEVDPEGDRTIGILTKPD 225
>pdb|3L43|A Chain A, Crystal Structure Of The Dynamin 3 Gtpase Domain Bound
With Gdp
pdb|3L43|B Chain B, Crystal Structure Of The Dynamin 3 Gtpase Domain Bound
With Gdp
pdb|3L43|C Chain C, Crystal Structure Of The Dynamin 3 Gtpase Domain Bound
With Gdp
pdb|3L43|D Chain D, Crystal Structure Of The Dynamin 3 Gtpase Domain Bound
With Gdp
Length = 319
Score = 66.2 bits (160), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 59/218 (27%), Positives = 98/218 (44%), Gaps = 22/218 (10%)
Query: 5 YEAYNELHGLAQELETPFDA---------PAVLVVGHQTDGKSALVEALMGFQFNHVGGG 55
++ EL L L+ F A P + VVG Q+ GKS+++E +G F G G
Sbjct: 16 FQGMEELIPLVNRLQDAFSALGQSCLLELPQIAVVGGQSAGKSSVLENFVGRDFLPRGSG 75
Query: 56 TKTRRPITLHMKYNPLCELPLCHLASSDVDPTLAQEKSLQEIQSFIEAENMRLERESNSN 115
TRRP+ L + + H E++ IEAE +R + N
Sbjct: 76 IVTRRPLVLQLITSKAEYAEFLHCKGKKF-------TDFDEVRLEIEAET---DRVTGMN 125
Query: 116 Q-FSAKEIIIKVEFKYCPNLTIIDTPGLIAPAPGRKNRALQDQARAVESLVRAKMQHREF 174
+ S+ I ++V + NLT+ID PG+ G + ++ Q R E +++ +
Sbjct: 126 KGISSIPINLRVYSPHVLNLTLIDLPGITKVPVGDQPPDIEYQIR--EMIMQFITRENCL 183
Query: 175 IILCLEDCSDWSNATTRRVVMQIDPELKRTIIVSTKLD 212
I+ +D +N+ ++ ++DP+ RTI V TKLD
Sbjct: 184 ILAVTPANTDLANSDALKLAKEVDPQGLRTIGVITKLD 221
>pdb|3ZYS|B Chain B, Human Dynamin 1 Deltaprd Polymer Stabilized With Gmppcp
pdb|3ZYS|E Chain E, Human Dynamin 1 Deltaprd Polymer Stabilized With Gmppcp
Length = 662
Score = 66.2 bits (160), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 58/201 (28%), Positives = 100/201 (49%), Gaps = 20/201 (9%)
Query: 18 LETPFDAPAVLVVGHQTDGKSALVEALMGFQFNHVGGGTKTRRPITLHMKYNPLCELPLC 77
+E PA+ V+G Q+ GKS+++EAL G G G TR P+ L +K +
Sbjct: 64 VEQDLALPAIAVIGDQSSGKSSVLEALSGVALPR-GSGIVTRCPLVLKLKKLVNEDKWRG 122
Query: 78 HLASSDVDPTLAQ----EKSLQEIQSFIEAENMRLERESNSNQFSAKEIIIKVEFKYCPN 133
++ D + ++ EK + + Q+ I E M + E + + S++++ P+
Sbjct: 123 KVSYQDYEIEISDASEVEKEINKAQNAIAGEGMGISHELITLEISSRDV---------PD 173
Query: 134 LTIIDTPGLIAPAPGRKNRALQDQARAVESLVRAKMQHREFIILCLEDCSDWSNATTRRV 193
LT+ID PG+ A G + D +++L++ +Q +E I L + S+ ATT +
Sbjct: 174 LTLIDLPGITRVAVGNQP---ADIGYKIKTLIKKYIQRQETISLVVVP-SNVDIATTEAL 229
Query: 194 VM--QIDPELKRTIIVSTKLD 212
M ++DPE RTI + TK D
Sbjct: 230 SMAQEVDPEGDRTIGILTKPD 250
>pdb|3V7P|A Chain A, Crystal Structure Of Amidohydrolase Nis_0429 (Target
Efi-500396) From Nitratiruptor Sp. Sb155-2
Length = 427
Score = 30.0 bits (66), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 42/97 (43%), Gaps = 10/97 (10%)
Query: 258 HDSVYSSNEEFKQAIFIREMEDITSLEEKLGRSLSKQERSRIGVSKLRSFLEELLQKRYM 317
H S NE FK A+ I + + K ++K+ S + V F+E ++ ++
Sbjct: 162 HQSKKHENERFKAAVAIHSPYSVHYILAKRALDIAKKYGSLVSV----HFMESRAEREWL 217
Query: 318 DSVPMIIPLLEKEYCSTTRKLN------EINKELSTL 348
D KE+ + TR +N E+ KEL TL
Sbjct: 218 DKGSGEFAKFFKEFLNQTRPVNDTKSFLELFKELHTL 254
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
0.320 0.135 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,733,294
Number of Sequences: 62578
Number of extensions: 773615
Number of successful extensions: 1932
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1902
Number of HSP's gapped (non-prelim): 12
length of query: 739
length of database: 14,973,337
effective HSP length: 106
effective length of query: 633
effective length of database: 8,340,069
effective search space: 5279263677
effective search space used: 5279263677
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)