RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7092
(540 letters)
>2crw_A ARF GAP 3, ADP-ribosylation factor GTPase-activating protein 3;
arfgap domain, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 149
Score = 162 bits (410), Expect = 1e-47
Identities = 76/165 (46%), Positives = 97/165 (58%), Gaps = 46/165 (27%)
Query: 40 QECFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLG 99
+ CFDC AKNP+W+S+TYGVF+CIDCS HR LGVHLSF+RST+LD+NW+W QLR MQ+G
Sbjct: 30 KVCFDCGAKNPSWASITYGVFLCIDCSGSHRSLGVHLSFIRSTELDSNWSWFQLRCMQVG 89
Query: 100 GNANAPNGQNTRLSLWRSWGSFPLAFFKQLVNLWLNIEMYHFSISTTAQALVSFFNQHNC 159
GNA+A SFF+QH C
Sbjct: 90 GNASAS----------------------------------------------SFFHQHGC 103
Query: 160 TSKDAQQKYNSRAAQLYREKLQHAAVQAMKIHGTKLFLDAMHDAT 204
++ D KYNSRAAQLYREK++ A QA + HGT L+LD+ ++
Sbjct: 104 STNDTNAKYNSRAAQLYREKIKSLASQATRKHGTDLWLDSSGPSS 148
Score = 72.7 bits (178), Expect = 2e-15
Identities = 27/38 (71%), Positives = 33/38 (86%)
Query: 352 AVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANA 389
HR LGVHLSF+RST+LD+NW+W QLR MQ+GGNA+A
Sbjct: 57 GSHRSLGVHLSFIRSTELDSNWSWFQLRCMQVGGNASA 94
>2p57_A GTPase-activating protein ZNF289; zinc finger, GAP, structural
genomics, structural genomics consortium, SGC, metal
binding protein; 1.80A {Homo sapiens}
Length = 144
Score = 158 bits (400), Expect = 2e-46
Identities = 72/151 (47%), Positives = 86/151 (56%), Gaps = 46/151 (30%)
Query: 42 CFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGN 101
CFDC AKNP+W+S+TYGVF+CIDCS VHR LGVHLSF+RST+LD+NW W QLR MQ+GGN
Sbjct: 40 CFDCGAKNPSWASITYGVFLCIDCSGVHRSLGVHLSFIRSTELDSNWNWFQLRCMQVGGN 99
Query: 102 ANAPNGQNTRLSLWRSWGSFPLAFFKQLVNLWLNIEMYHFSISTTAQALVSFFNQHNCTS 161
ANA +FF QH CT+
Sbjct: 100 ANA----------------------------------------------TAFFRQHGCTA 113
Query: 162 KDAQQKYNSRAAQLYREKLQHAAVQAMKIHG 192
DA KYNSRAAQ+YREK++ A+ HG
Sbjct: 114 NDANTKYNSRAAQMYREKIRQLGSAALARHG 144
Score = 73.1 bits (179), Expect = 1e-15
Identities = 29/38 (76%), Positives = 33/38 (86%)
Query: 352 AVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANA 389
VHR LGVHLSF+RST+LD+NW W QLR MQ+GGNANA
Sbjct: 65 GVHRSLGVHLSFIRSTELDSNWNWFQLRCMQVGGNANA 102
>3sub_A ADP-ribosylation factor GTPase-activating protein; protein
trafficking, hydrolase AC; 2.40A {Plasmodium falciparum
3D7}
Length = 163
Score = 142 bits (360), Expect = 2e-40
Identities = 40/143 (27%), Positives = 60/143 (41%), Gaps = 47/143 (32%)
Query: 42 CFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGN 101
CFDC NP W SV +G+F+CI+CS VHR LGVH+S VRS ++D +T QL+ + GGN
Sbjct: 25 CFDCGISNPDWVSVNHGIFLCINCSGVHRSLGVHISIVRSIKMDI-FTDEQLKYIDKGGN 83
Query: 102 ANAPNGQNTRLSLWRSWGSFPLAFFKQLVNLWLNIEMYHFSISTTAQALVSFFNQHNCTS 161
++ + +
Sbjct: 84 KKC----------------------------------------------QTYLENYGISD 97
Query: 162 KDAQQKYNSRAAQLYREKLQHAA 184
++KY ++AA YR+ L+
Sbjct: 98 FIPERKYRTKAADHYRKILRSIV 120
Score = 69.2 bits (169), Expect = 5e-14
Identities = 18/38 (47%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 352 AVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANA 389
VHR LGVH+S VRS ++D +T QL+ + GGN
Sbjct: 50 GVHRSLGVHISIVRSIKMDI-FTDEQLKYIDKGGNKKC 86
>3dwd_A ADP-ribosylation factor GTPase-activating protein; GAP, structural
genomics consorti ER-golgi transport, golgi apparatus,
GTPase activation; 2.40A {Homo sapiens}
Length = 147
Score = 138 bits (350), Expect = 3e-39
Identities = 50/145 (34%), Positives = 64/145 (44%), Gaps = 49/145 (33%)
Query: 42 CFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGN 101
CF+C A NP W SVTYG++IC++CS HRGLGVHLSFVRS +D W ++L +M+ GGN
Sbjct: 41 CFECGAFNPQWVSVTYGIWICLECSGRHRGLGVHLSFVRSVTMDK-WKDIELEKMKAGGN 99
Query: 102 ANAPNGQNTRLSLWRSWGSFPLAFFKQLVNLWLNIEMYHFSISTTAQALVSFFNQHNCTS 161
A F
Sbjct: 100 AKF----------------------------------------------REFLESQEDYD 113
Query: 162 KDA--QQKYNSRAAQLYREKLQHAA 184
Q+KYNSRAA L+R+K+ A
Sbjct: 114 PCWSLQEKYNSRAAALFRDKVVALA 138
Score = 68.3 bits (167), Expect = 6e-14
Identities = 21/38 (55%), Positives = 26/38 (68%), Gaps = 1/38 (2%)
Query: 352 AVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANA 389
HRGLGVHLSFVRS +D W ++L +M+ GGNA
Sbjct: 66 GRHRGLGVHLSFVRSVTMDK-WKDIELEKMKAGGNAKF 102
>2owa_A Arfgap-like finger domain containing protein; zinc finger protein,
cysteine-rich motif, GTPase activation; 2.00A
{Cryptosporidium parvum iowa II}
Length = 138
Score = 136 bits (343), Expect = 3e-38
Identities = 40/147 (27%), Positives = 65/147 (44%), Gaps = 49/147 (33%)
Query: 42 CFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGN 101
CFDC ++NPTW S+++ VFIC++CS+ HR +GVH+SFVRS+ LD +T +QL +M +GGN
Sbjct: 39 CFDCESRNPTWLSLSFAVFICLNCSSDHRKMGVHISFVRSSDLDK-FTPIQLVRMDIGGN 97
Query: 102 ANAPNGQNTRLSLWRSWGSFPLAFFKQLVNLWLNIEMYHFSISTTAQALVSFFNQHNCTS 161
A ++F Q +
Sbjct: 98 GRA----------------------------------------------RNYFKQVLGVN 111
Query: 162 --KDAQQKYNSRAAQLYREKLQHAAVQ 186
++ +S + Y++ L +
Sbjct: 112 FSPKTKEYASSICGRQYKQILDSEISE 138
Score = 70.6 bits (173), Expect = 9e-15
Identities = 22/57 (38%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 352 AVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANAMKAEFGPFNAGQFDSPPPD 408
+ HR +GVH+SFVRS+ LD +T +QL +M +GGN A + F F +
Sbjct: 64 SDHRKMGVHISFVRSSDLDK-FTPIQLVRMDIGGNGRA-RNYFKQVLGVNFSPKTKE 118
>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation
factor 1; structural genomics consortium, GTPase
activation; HET: GDP; 2.80A {Homo sapiens}
Length = 329
Score = 119 bits (299), Expect = 6e-30
Identities = 59/212 (27%), Positives = 79/212 (37%), Gaps = 64/212 (30%)
Query: 42 CFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGN 101
CF+C A NP W SVTYG++IC++CS HRGLGVHLSFVRS +D W ++L +M+ GGN
Sbjct: 40 CFECGAFNPQWVSVTYGIWICLECSGRHRGLGVHLSFVRSVTMD-KWKDIELEKMKAGGN 98
Query: 102 ANAPNGQNTRLSLWRSWGSFPLAFFKQLVNLWLNIEMYHFSISTTAQALVSFFNQHNCTS 161
A F
Sbjct: 99 AKFRE----------------------------------------------FLESQEDYD 112
Query: 162 KDA--QQKYNSRAAQLYREKLQHAAVQAMKIHGTKLFLDAMHDATHKKGEEEPVDFFAEH 219
Q+KYNSRAA L+R+K+ + + + A + + F +
Sbjct: 113 PCWSLQEKYNSRAAALFRDKVV-------ALAEGREWSLESSPAQNWTPPQPRGLFGKKE 165
Query: 220 TNGDNFGFDAPAHPII--------TPTPTPTI 243
G DA I T PTI
Sbjct: 166 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTI 197
Score = 60.7 bits (147), Expect = 3e-10
Identities = 21/37 (56%), Positives = 26/37 (70%), Gaps = 1/37 (2%)
Query: 353 VHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANA 389
HRGLGVHLSFVRS +D W ++L +M+ GGNA
Sbjct: 66 RHRGLGVHLSFVRSVTMD-KWKDIELEKMKAGGNAKF 101
>2crr_A Stromal membrane-associated protein SMAP1B; arfgap domain, zinc
finger, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 141
Score = 112 bits (282), Expect = 1e-29
Identities = 34/65 (52%), Positives = 42/65 (64%), Gaps = 1/65 (1%)
Query: 40 QECFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLG 99
+ C DC AK P W+S GVFICI C+ +HR LGVH+S V+S LD WT Q++ MQ
Sbjct: 30 KYCADCEAKGPRWASWNIGVFICIRCAGIHRNLGVHISRVKSVNLDQ-WTAEQIQCMQDM 88
Query: 100 GNANA 104
GN A
Sbjct: 89 GNTKA 93
Score = 57.9 bits (140), Expect = 2e-10
Identities = 22/59 (37%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 352 AVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANAMKAEFGPFNAGQFDSPPPDCT 410
+HR LGVH+S V+S LD WT Q++ MQ GN A + + F P D
Sbjct: 57 GIHRNLGVHISRVKSVNLDQ-WTAEQIQCMQDMGNTKA-RLLYEANLPENFRRPQTDQA 113
>2iqj_A Stromal membrane-associated protein 1-like; zinc, structural
genomics, structural genomics consortium, SGC, protein
transport; 1.90A {Homo sapiens}
Length = 134
Score = 112 bits (281), Expect = 1e-29
Identities = 33/65 (50%), Positives = 42/65 (64%), Gaps = 1/65 (1%)
Query: 40 QECFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLG 99
+ C DC +K P W+S GVFICI C+ +HR LGVH+S V+S LD WT Q++ MQ
Sbjct: 28 KFCADCQSKGPRWASWNIGVFICIRCAGIHRNLGVHISRVKSVNLDQ-WTQEQIQCMQEM 86
Query: 100 GNANA 104
GN A
Sbjct: 87 GNGKA 91
Score = 57.9 bits (140), Expect = 2e-10
Identities = 19/37 (51%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 353 VHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANA 389
+HR LGVH+S V+S LD WT Q++ MQ GN A
Sbjct: 56 IHRNLGVHISRVKSVNLDQ-WTQEQIQCMQEMGNGKA 91
>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium,
SGC, metal binding protein; 2.06A {Homo sapiens}
Length = 301
Score = 108 bits (271), Expect = 2e-26
Identities = 27/65 (41%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 40 QECFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLG 99
+C DC A +PTW S GV CI CS VHR LGV S ++S LD +L
Sbjct: 43 SQCCDCGAADPTWLSTNLGVLTCIQCSGVHRELGVRFSRMQSLTLDL-LGPSELLLALNM 101
Query: 100 GNANA 104
GN +
Sbjct: 102 GNTSF 106
Score = 55.4 bits (133), Expect = 1e-08
Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 353 VHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANA 389
VHR LGV S ++S LD +L GN +
Sbjct: 71 VHRELGVRFSRMQSLTLDL-LGPSELLLALNMGNTSF 106
>2olm_A Nucleoporin-like protein RIP; arfgap, GTPase-activating protein,
REV-interacting protein, human immunodeficiency virus,
AIDS, structural genomics; 1.48A {Homo sapiens} PDB:
2d9l_A
Length = 140
Score = 100 bits (251), Expect = 2e-25
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 40 QECFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLG 99
++CFDC+ + PT+ ++T G F+C CS RGL V+S + T +T ++ +Q
Sbjct: 26 RKCFDCDQRGPTYVNMTVGSFVCTSCSGSLRGLNPP-HRVKSISMTT-FTQQEIEFLQKH 83
Query: 100 GNANA 104
GN
Sbjct: 84 GNEVC 88
Score = 48.3 bits (115), Expect = 5e-07
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 2/37 (5%)
Query: 353 VHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANA 389
RGL V+S + T +T ++ +Q GN
Sbjct: 54 SLRGLNPP-HRVKSISMTT-FTQQEIEFLQKHGNEVC 88
>1dcq_A PYK2-associated protein beta; zinc-binding module, ankyrin repeats,
metal binding protein; 2.10A {Mus musculus} SCOP:
d.211.1.1 g.45.1.1
Length = 278
Score = 104 bits (261), Expect = 3e-25
Identities = 27/65 (41%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 40 QECFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLG 99
C DC A +PTW S G+ CI+CS +HR LGVH S ++S LD +L +
Sbjct: 18 DVCCDCGAPDPTWLSTNLGILTCIECSGIHRELGVHYSRMQSLTLDV-LGTSELLLAKNI 76
Query: 100 GNANA 104
GNA
Sbjct: 77 GNAGF 81
Score = 53.8 bits (129), Expect = 4e-08
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 353 VHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANA 389
+HR LGVH S ++S LD +L + GNA
Sbjct: 46 IHRELGVHYSRMQSLTLDV-LGTSELLLAKNIGNAGF 81
>3jue_A Arfgap with coiled-coil, ANK repeat and PH domain containing
protein 1; arfgap domain, zinc-binding module, GTPase
activ metal-binding, nitration; 2.30A {Homo sapiens}
Length = 368
Score = 104 bits (260), Expect = 1e-24
Identities = 28/65 (43%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Query: 40 QECFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLG 99
+C DC P W+S+ GV +CI CS +HR LGVH S VRS LD+ W ++ M
Sbjct: 46 AQCCDCREPAPEWASINLGVTLCIQCSGIHRSLGVHFSKVRSLTLDS-WEPELVKLMCEL 104
Query: 100 GNANA 104
GN
Sbjct: 105 GNVII 109
Score = 53.6 bits (128), Expect = 7e-08
Identities = 16/37 (43%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 353 VHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANA 389
+HR LGVH S VRS LD+ W ++ M GN
Sbjct: 74 IHRSLGVHFSKVRSLTLDS-WEPELVKLMCELGNVII 109
>3lju_X ARF-GAP with dual PH domain-containing protein 1; structural
genomics consortium, GTPase activation, SGC, binding,
nucleus, phosphoprotein; HET: IP9; 1.70A {Homo sapiens}
PDB: 3feh_A* 3fm8_C 3mdb_C*
Length = 386
Score = 100 bits (251), Expect = 3e-23
Identities = 28/65 (43%), Positives = 37/65 (56%), Gaps = 2/65 (3%)
Query: 40 QECFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLG 99
C DC A +P W+S T GVFIC+ CS +HR + +S V+S +LD W Q+ M
Sbjct: 35 ARCADCGAPDPDWASYTLGVFICLSCSGIHRNIP-QVSKVKSVRLDA-WEEAQVEFMASH 92
Query: 100 GNANA 104
GN A
Sbjct: 93 GNDAA 97
Score = 50.5 bits (120), Expect = 7e-07
Identities = 18/65 (27%), Positives = 27/65 (41%), Gaps = 3/65 (4%)
Query: 353 VHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANAMKAEFGPFNAGQFDSPPPDCTHT 412
+HR + +S V+S +LD W Q+ M GN A +A F + P P
Sbjct: 63 IHRNIP-QVSKVKSVRLDA-WEEAQVEFMASHGNDAA-RARFESKVPSFYYRPTPSDCQL 119
Query: 413 LPLAF 417
L +
Sbjct: 120 LREQW 124
>3lvq_E ARF-GAP with SH3 domain, ANK repeat and PH domain containing
protein 3, ADP-ribosylation...; GDP, ASAP3, UPLC1,
linkers, alternat splicing; HET: GDP; 3.38A {Homo
sapiens} PDB: 3lvr_E*
Length = 497
Score = 89.6 bits (222), Expect = 3e-19
Identities = 27/63 (42%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 42 CFDCNAKNPTWSSVTYGVFICIDCSAVHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGN 101
C DC A +PTW S GV CI CS VHR LGV S ++S LD +L GN
Sbjct: 26 CCDCGAADPTWLSTNLGVLTCIQCSGVHRELGVRFSRMQSLTLD-LLGPSELLLALNMGN 84
Query: 102 ANA 104
+
Sbjct: 85 TSF 87
Score = 44.1 bits (104), Expect = 9e-05
Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 353 VHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANA 389
VHR LGV S ++S LD +L GN +
Sbjct: 52 VHRELGVRFSRMQSLTLD-LLGPSELLLALNMGNTSF 87
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 46.6 bits (110), Expect = 2e-05
Identities = 98/493 (19%), Positives = 146/493 (29%), Gaps = 167/493 (33%)
Query: 18 LFHLEKVKNSKLLML---Q--IITFFP--QECFDCNAKNPTWSSVTYGVFI--CIDCSAV 68
LF N++L+ + Q +F ++ + TY V + I SA
Sbjct: 145 LFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQ-----------TYHVLVGDLIKFSAE 193
Query: 69 HRGLGVHLSFVRSTQ---------LD-TNWTWVQLRQMQLGGNANAPNGQNTRLSLWRSW 118
L +R+T L+ W L +N P+
Sbjct: 194 T--L---SELIRTTLDAEKVFTQGLNILEW---------LENPSNTPDKDYLLSIPI--- 236
Query: 119 GSFPLAFFKQLVNLWLNIEMYHFSISTTAQALVSFFNQHNCTSKDAQQKYNSRAAQLYRE 178
S PL QL H+ + T + + + A + +
Sbjct: 237 -SCPLIGVIQLA---------HYVV---------TAKLLGFTPGELRS--YLKGATGHSQ 275
Query: 179 KLQHAAVQAMKIHGT-KLFLDAMHDATHKKGEEEPVDFFAEHTNGDNFGFDA-PAHPIIT 236
L A A + + F ++ A V FF G A+P +
Sbjct: 276 GLVTAVAIAET--DSWESFFVSVRKAIT-------VLFFI--------GVRCYEAYPNTS 318
Query: 237 PTPTPTITASGSTSLAHPQNNNENTGAPS-------VEKAFSEAKPSNLGVKKIQSKKPS 289
P + L NNE G PS + + + V K S P+
Sbjct: 319 LPP---------SILEDSLENNE--GVPSPMLSISNLTQEQVQDY-----VNKTNSHLPA 362
Query: 290 GPQ------NNNEN---TGAPS----VEKAFSDAK-PSNLGVKKIQSKKPSGFVCRCPPF 335
G Q N +N +G P + AK PS L QS+ P F R F
Sbjct: 363 GKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD----QSRIP--FSERKLKF 416
Query: 336 YQANVLTTTPPRQS--LV-AVHRGL----GVHLSFVRSTQL-----DTNWTWVQLRQMQL 383
L P S LV A ++SF + + DT + LR L
Sbjct: 417 -SNRFLPVASPFHSHLLVPASDLINKDLVKNNVSF-NAKDIQIPVYDT-FDGSDLR--VL 471
Query: 384 GGNANAMKAE---FGPFN---AGQFDSPPPDCTHTLPLAFTPSGMGFASMSRSGGLGGKK 437
G+ + + P QF + TH L F P G S G L +
Sbjct: 472 SGSISERIVDCIIRLPVKWETTTQFKA-----THI--LDFGPGG-----ASGLGVLTHRN 519
Query: 438 LGKGGLGAQKVKA 450
K G G + + A
Sbjct: 520 --KDGTGVRVIVA 530
Score = 32.7 bits (74), Expect = 0.34
Identities = 51/305 (16%), Positives = 88/305 (28%), Gaps = 95/305 (31%)
Query: 205 HKKG------EEEPV--DFF--AEHTNGDNFGFDAPAHPIITPTPTP-TITASGSTSLAH 253
++G + D + A++ D +GF I+ P TI G
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILD--IVINNPVNLTIHFGGEKGKRI 1684
Query: 254 PQN------NNENTGAPSVEKAFSEAKPSNLGVKKIQSKKPSGPQNNNENTGAP---SVE 304
+N G EK F E N + G + + T P +E
Sbjct: 1685 RENYSAMIFETIVDGKLKTEKIFKEI---NEHSTSYTFRSEKGLLSATQFT-QPALTLME 1740
Query: 305 KAFSDAKPSNLGVKKIQSKKPSGFVCRCPPF-------YQANVLTTTPPRQSLVAVHRGL 357
KA + ++SK G + F Y A L ++
Sbjct: 1741 KAA---------FEDLKSK---GLIPADATFAGHSLGEYAA-----------LASLA--- 1774
Query: 358 GVHLSFVRSTQLDTNWTWVQLRQMQLGGNANAMKAEFGPFNAGQFDSPPPDCTHTLPLAF 417
V +S + ++ V R G + + +A
Sbjct: 1775 DV-MSI--ESLVEV----VFYR-----GMTMQVAVPRDELGRSNYGM----------IAI 1812
Query: 418 TPSGMGFASMSRSG-GLGGKKLGK--GGL---------GAQKVKA-NFAELEKEAELADS 464
P + AS S+ +++GK G L Q V A + L+ + +
Sbjct: 1813 NPGRVA-ASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNF 1871
Query: 465 LKMQS 469
+K+Q
Sbjct: 1872 IKLQK 1876
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 43.6 bits (102), Expect = 4e-05
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 15/70 (21%)
Query: 476 SVADVERENEDSI----ENISLRLAYQDISKQQKQEEEKLKA------YNPKKAEQIERL 525
+ AD + +SI E RL D + + ++E + KA +N +++EQ+E+
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEK- 133
Query: 526 GMYNNNNNNR 535
N NNR
Sbjct: 134 ----NKINNR 139
Score = 29.7 bits (66), Expect = 1.6
Identities = 9/45 (20%), Positives = 18/45 (40%), Gaps = 4/45 (8%)
Query: 481 ERENEDSIENISLRL-AYQDIS---KQQKQEEEKLKAYNPKKAEQ 521
E + + R A +D+ ++Q ++ EK K N +
Sbjct: 100 ELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKA 144
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 39.1 bits (90), Expect = 0.004
Identities = 79/500 (15%), Positives = 137/500 (27%), Gaps = 162/500 (32%)
Query: 134 LNIEM----YHFS--ISTTAQALVSFFNQHNCTSKDAQQKYNSRAAQLYREKLQHAAVQA 187
++ E Y + +S A V F+ C KD Q + + L +E++ H +
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFD---C--KDVQ---DMPKSILSKEEIDHIIMSK 58
Query: 188 MKIHGTKLFLDAMHDATHKKGEEEPVDFFAEHTNGDNFGFDAPAHPIITPTPTPTITASG 247
+ GT + K EE V F E N+ F +++P T S
Sbjct: 59 DAVSGTLRLFWTLLS----KQEEM-VQKFVEEVLRINYKF------LMSPIKTEQRQPSM 107
Query: 248 STSLAHPQNNNENTGAPSVEK--------------AFSEAKPS-NLGV------------ 280
T + Q + K A E +P+ N+ +
Sbjct: 108 MTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVA 167
Query: 281 ------KKIQSKKPSG---------------------------PQNNNENTGAPSVEKAF 307
K+Q K P + + + +++
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI 227
Query: 308 SDAKP--SNLGVKK-----------IQSKKP-SGFVCRCPPFYQANVLTTTPPRQSLVA- 352
+ L K +Q+ K + F C +L TT R V
Sbjct: 228 HSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK------ILLTT--RFKQVTD 279
Query: 353 -VHRGLGVHLSFVRSTQLDTNWTWVQLRQMQLGGNANAMKAEFGPFNAGQFDSPPPDCTH 411
+ H+S + T L + + D P T
Sbjct: 280 FLSAATTTHISLD-----HHSMTLTPDEVKSLLLKYLDCRPQ---------DLPREVLT- 324
Query: 412 TLPLAFTPSGMGFASMSRSGG--------LGGKKLG---KGGLGAQK---VKANFAEL-- 455
T P + A R G + KL + L + + F L
Sbjct: 325 TNPRRL---SI-IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
Query: 456 -EKEAEL-ADSLKM---QSATSKPQSVAD-------VERENEDSIENISLRLAYQDISKQ 503
A + L + S V + VE++ ++S IS+ Y ++ +
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST--ISIPSIYLELKVK 438
Query: 504 QKQEEEK----LKAYNPKKA 519
+ E + YN K
Sbjct: 439 LENEYALHRSIVDHYNIPKT 458
Score = 33.3 bits (75), Expect = 0.25
Identities = 17/123 (13%), Positives = 37/123 (30%), Gaps = 50/123 (40%)
Query: 16 QYL-FHLEKVKNSKLLMLQIITFFPQECFD--------------CNAKNPTWSSVT---- 56
++ HL+ +++ + + L F D NA +++
Sbjct: 475 SHIGHHLKNIEHPERMTL-----FRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKF 529
Query: 57 YGVFICIDCSAVHRGLGVHLSF--------VRSTQLDTNWTWVQL--------------R 94
Y +IC + R + L F + S D +++ +
Sbjct: 530 YKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL----LRIALMAEDEAIFEEAHK 585
Query: 95 QMQ 97
Q+Q
Sbjct: 586 QVQ 588
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 36.9 bits (84), Expect = 0.005
Identities = 8/29 (27%), Positives = 11/29 (37%), Gaps = 7/29 (24%)
Query: 502 KQQ-KQEEEKLKAYNPKKA------EQIE 523
KQ K+ + LK Y A +E
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKATME 47
Score = 36.1 bits (82), Expect = 0.011
Identities = 11/30 (36%), Positives = 18/30 (60%), Gaps = 4/30 (13%)
Query: 456 EKEA--ELADSLKMQSATSKPQ-SV-ADVE 481
EK+A +L SLK+ + S P ++ A +E
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
Score = 31.8 bits (71), Expect = 0.25
Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 8/29 (27%)
Query: 280 VKKIQSK-KPSGPQNNNENTGAPSVE-KA 306
+KK+Q+ K + AP++ KA
Sbjct: 22 LKKLQASLKLYADDS------APALAIKA 44
>1u5k_A Hypothetical protein; OBD-fold, Zn-binding,
recombination,replication; 2.00A {Deinococcus
radiodurans} SCOP: b.40.4.13 g.45.1.2 PDB: 1w3s_A 2v1c_C
Length = 244
Score = 33.3 bits (76), Expect = 0.16
Identities = 13/69 (18%), Positives = 22/69 (31%), Gaps = 9/69 (13%)
Query: 8 PLCQMLAGQYLFHLEKVKNSKLL-------MLQIITFFPQ--ECFDCNAKNPTWSSVTYG 58
L L + + + + +L + PQ C C A +P G
Sbjct: 110 EQAFDLFAASLRGVAHQPDPEWVALVMSYKLLGLAGVIPQTARCARCGAPDPEHPDPLGG 169
Query: 59 VFICIDCSA 67
+C C+A
Sbjct: 170 QLLCSKCAA 178
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 30.0 bits (67), Expect = 1.6
Identities = 8/33 (24%), Positives = 11/33 (33%), Gaps = 7/33 (21%)
Query: 40 QECFDCNAKNPT----WSSVTYGVFICIDCSAV 68
C +C P +S G +C C V
Sbjct: 22 LTCPECKVYPPKIVERFSE---GDVVCALCGLV 51
>2i50_A Ubiquitin carboxyl-terminal hydrolase 16; alpha/beta zinc-finger,
ring-finger, ZNF-UBP, metalloprotein, ubiquitin-binding
protein, USP; NMR {Homo sapiens}
Length = 126
Score = 28.1 bits (62), Expect = 3.4
Identities = 14/73 (19%), Positives = 22/73 (30%), Gaps = 14/73 (19%)
Query: 5 STPPLCQMLAGQYLFHLEKVKNSKLLMLQIITFFPQECFDCNAKNPTWSS------VTYG 58
S P+C+ H+ K L ++ C DC N
Sbjct: 2 SHMPVCR--------HIRKGLEQGNLKKALVNVEWNICQDCKTDNKVKDKAEEETEEKPS 53
Query: 59 VFICIDCSAVHRG 71
V++C+ C G
Sbjct: 54 VWLCLKCGHQGCG 66
>1nkg_A Rhamnogalacturonase B; polysaccharide lyase, carbohydrate active
enzyme, pectin, LY; 1.50A {Aspergillus aculeatus} SCOP:
b.3.1.2 b.18.1.25 b.30.5.10 PDB: 2xhn_A* 3njv_A* 3njx_A
Length = 508
Score = 28.8 bits (64), Expect = 4.8
Identities = 14/83 (16%), Positives = 24/83 (28%), Gaps = 4/83 (4%)
Query: 189 KIHGTKLFLDAMHDATHKKGEEEPVDFFAEHTNGDNFG----FDAPAHPIITPTPTPTIT 244
++H + + + T+ G DF N F A + T T
Sbjct: 363 RMHPSDSRMSSWGPLTYTVGSSALTDFPMAVFKSVNNPVTIKFTATSAQTGAATLRIGTT 422
Query: 245 ASGSTSLAHPQNNNENTGAPSVE 267
S + N+ AP+
Sbjct: 423 LSFAGGRPQATINSYTGSAPAAP 445
>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1
Length = 83
Score = 26.5 bits (59), Expect = 5.8
Identities = 9/25 (36%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 497 YQDISKQQKQE-EEKLKAYNPKKAE 520
++D++K K E ++K Y P K E
Sbjct: 59 FEDMAKADKARYEREMKTYIPPKGE 83
>3gn4_A Myosin-VI; unconventional myosin, motility, lever ARM, 3-helix
bundle, actin-binding, ATP-binding, calmodulin-binding,
coiled coil; 2.70A {Sus scrofa}
Length = 148
Score = 27.7 bits (61), Expect = 6.3
Identities = 21/80 (26%), Positives = 30/80 (37%), Gaps = 6/80 (7%)
Query: 444 GAQKVKANFAELEKEAELADSLKMQSATSKPQSVADVERENEDSIENI-SLRLAYQDISK 502
G KV L+K E+ +LK Q V D+E + + I S + + I K
Sbjct: 70 GLVKVGTLKKRLDKFNEVVSALKDGKQEMSKQ-VKDLEISIDALMAKIKSTMMTREQIQK 128
Query: 503 Q----QKQEEEKLKAYNPKK 518
+ K L A KK
Sbjct: 129 EYDALVKSSAVLLSALQKKK 148
>2nsa_A Trigger factor, TF; chaperone; 1.70A {Thermotoga maritima}
Length = 170
Score = 27.7 bits (62), Expect = 6.6
Identities = 9/82 (10%), Positives = 25/82 (30%), Gaps = 3/82 (3%)
Query: 446 QKVKANFAELEKEAELADSLKMQSATSKPQSVADVERENEDSIENISLRLAYQDISKQQK 505
+++ + +L + L +E ++I + Y+ I
Sbjct: 18 KEIYDVEMKESMREQLLEKLPEIVEIEISDRT--LEILVNEAINRLKREGRYEQI-VSSY 74
Query: 506 QEEEKLKAYNPKKAEQIERLGM 527
+ EEK + ++ +
Sbjct: 75 ESEEKFREELKERILDDIKRDR 96
>3ve2_A TBP-2, transferrin-binding protein 2; lipoprotein, transferrin
receptor, iron acquisition, vaccine candidate; 2.14A
{Neisseria meningitidis serogroup B} PDB: 3ve1_A 3v8u_A
Length = 658
Score = 28.5 bits (62), Expect = 7.8
Identities = 13/61 (21%), Positives = 23/61 (37%)
Query: 474 PQSVADVERENEDSIENISLRLAYQDISKQQKQEEEKLKAYNPKKAEQIERLGMYNNNNN 533
P + + NE E L +++ K+QK EK++ L N+ N
Sbjct: 21 PGAEESEVKLNESDWEATGLPTKPKELPKRQKSVIEKVETDGDSDIYSSPYLTPSNHQNG 80
Query: 534 N 534
+
Sbjct: 81 S 81
>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM,
protein engineering, structural protein; HET: ADP; 2.80A
{Dictyostelium discoideum} SCOP: k.1.1.1
Length = 1010
Score = 28.1 bits (63), Expect = 8.7
Identities = 8/69 (11%), Positives = 22/69 (31%), Gaps = 1/69 (1%)
Query: 454 ELEKEAELADSLKMQSATSKPQSVADVERENEDSIENI-SLRLAYQDISKQQKQEEEKLK 512
E + ++L L + + ER++ + ++ + + E E+L+
Sbjct: 939 EGQSNSDLLSILAQLTELNYNGVPELTERKDTFFAQQWTGVKSSAETYKNTLLAELERLQ 998
Query: 513 AYNPKKAEQ 521
Sbjct: 999 KIEDLHHHH 1007
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.315 0.129 0.388
Gapped
Lambda K H
0.267 0.0409 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,813,525
Number of extensions: 448100
Number of successful extensions: 946
Number of sequences better than 10.0: 1
Number of HSP's gapped: 915
Number of HSP's successfully gapped: 57
Length of query: 540
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 442
Effective length of database: 3,965,535
Effective search space: 1752766470
Effective search space used: 1752766470
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (27.7 bits)